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Sample records for automated stratigraphic structural

  1. Stratigraphic and Structural Development of the Ontong Java Plateau

    NASA Astrophysics Data System (ADS)

    Inoue, H.; Coffin, M. F.; Nakamura, Y.; Mochizuki, K.; Kroenke, L. W.

    2005-12-01

    The Ontong Java Plateau (OJP) in the western equatorial Pacific is Earth's most voluminous large igneous province (LIP). It encompasses an area of approximately 2.0×106 km2, and its maximum crustal thickness exceeds 30 km. Emplacement of the OJP at approximately 122 Ma represents a significant transfer of mass and energy from the mantle to the crust. We completed the first east-west and north-south multichannel seismic reflection (MCS) transects of the OJP during R/V Hakuho Maru cruise KH98-01 Leg 2 (February 1998) and R/V Kairei cruise KR05-01 (January 2005). On the basis of new and existing MCS data, single channel seismic (SCS) reflection data, DSDP/ODP results, and other geophysical data, we address the stratigraphic and structural development of the OJP. Specifically, our geophysical work focuses on:1) the origin of semi-continuous reflections within acoustic basement of the OJP based on synthetic seismogram modeling and DSDP/ODP results; 2) the relationship between the OJP and its neighboring Nauru and Lyra basins based on stratigraphic and structural analysis of MCS and SCS data; 3) the development of Tauu atoll on the southern flank of the OJP based on stratigraphic and structural analysis of MCS and SCS data integrated with DSDP/ODP results. Our initial results suggest that: 1)the semi-continuous reflections are probably thick, flat igneous flows/sill or flows/sills interbedded with sediment; 2) the transition between the Nauru Basin and the OJP is relatively smooth, implying that massive OJP and Nauru Basin magmatism were contemporaneous and geographically continuous, whereas the transition between the Lyra Basin and the northern flank of the OJP is faulted, characterized by horst and graben structures; 3) strong reflections (lava flows or a volcaniclastic wedge) emanating lie beneath sediment but above OJP basement, indicating a Tertiary, probably Paleogene, age for formation of the atoll.

  2. The Antrim Shale: Structural and stratigraphic influences on gas production

    SciTech Connect

    Manger, K.C.; Oliver, S.J.P. ); Scheper, R.J. )

    1991-03-01

    The Antrim Shale of the Michigan basin is one of the most actively drilled gas plays in the United States. Core analysis, geologic mapping, and core to log correlations of a 9 mi{sup 2} study area in the middle of the present play have defined geologic influences on the location and productivity of Antrim reservoirs. Application of these factors in the design of exploration and development strategies could improve gas recovery from the Antrim Shale. The lower section of the Antrim Shale, containing the present producing horizons, is composed of four lithologies that subdivide the Antrim into facies and parasequences based upon their mineralogy and textural characteristics. The black shales of the producing horizons are characterized by high but variable quartz contents and an extremely fine-grained matrix of muscovite and clays. The black shales are surrounded by two types of gray shale, differentiated by amount and form of carbonates, and a green shale. The type of shale bounding the productive, organic-rich black shales may affect stimulation strategies and their effectiveness. These black shales average 10% but can be as high as 20% TOC by weight. The organic contents impart a distinctive signature to gamma ray logs that enabled isopach, lithofacies, and structural mapping of the Antrim. Correlated with available production data, the maps reveal distinct trends suggesting that well performance is influenced by both structural and stratigraphic controls.

  3. Structural and stratigraphic evolution of the Anza rift, Kenya

    NASA Astrophysics Data System (ADS)

    Bosworth, William; Morley, Chris K.

    1994-09-01

    The Anza rift is a large, multi-phase continental rift basin that links the Lamu embayment of southern Kenya with the South Sudan rifts. Extension and deposition of syn-rift sediments are known to have commenced by the Neocomian. Aptian-Albian strata have, thus far, not been encountered during limited drilling campaigns and, in at least one well, are replaced by a significant unconformity. Widespread rifting occurred during the Cenomanian to Maastrichtian, and continued into the Early Tertiary. Marine waters appear to have reached the central Anza rift in the Cenomanian, and a second marine incursion may have occurred during the Campanian. As no wells have yet reached basement in the basinal deeps, the possibility exists that the Anza rift may have initiated in the Late Jurassic, in conjunction with extension to the south in the Lamu embayment and to the north in the Blue Nile rift of Sudan. Structural and stratigraphic evolution in the Anza rift followed a pattern that has now been inferred in several rift settings. Early phases of extension were accommodated by moderately dipping faults that produced large stratal rotations. Sedimentary environments were dominantly fluvial, with associated small lakes and dune fields. Volcanic activity is documented for the early Neocomian, but its extent is unknown. This initial style of deformation and sedimentation may have continued through several of the earliest pulses of rifting. By the Late Cretaceous, a new system of steeply dipping faults was established, that produced a deep basin without significant rotation of strata in the north, and only minor rotation in the south. This basin geometry favored the establishment of large, deep lakes, which occasionally were connected to the sea. The older basins were partly cannibalized during the sedimentary in-filling of these successor basins. Early Senonian volcanism was encountered in one well, and reflection seismic evidence suggests that one or more thick, regionally

  4. Automated recognition of stratigraphic marker shales from geophysical logs in iron ore deposits

    NASA Astrophysics Data System (ADS)

    Silversides, Katherine; Melkumyan, Arman; Wyman, Derek; Hatherly, Peter

    2015-04-01

    The mining of stratiform ore deposits requires a means of determining the location of stratigraphic boundaries. A variety of geophysical logs may provide the required data but, in the case of banded iron formation hosted iron ore deposits in the Hamersley Ranges of Western Australia, only one geophysical log type (natural gamma) is collected for this purpose. The information from these logs is currently processed by slow manual interpretation. In this paper we present an alternative method of automatically identifying recurring stratigraphic markers in natural gamma logs from multiple drill holes. Our approach is demonstrated using natural gamma geophysical logs that contain features corresponding to the presence of stratigraphically important marker shales. The host stratigraphic sequence is highly consistent throughout the Hamersley and the marker shales can therefore be used to identify the stratigraphic location of the banded iron formation (BIF) or BIF hosted ore. The marker shales are identified using Gaussian Processes (GP) trained by either manual or active learning methods and the results are compared to the existing geological interpretation. The manual method involves the user selecting the signatures for improving the library, whereas the active learning method uses the measure of uncertainty provided by the GP to select specific examples for the user to consider for addition. The results demonstrate that both GP methods can identify a feature, but the active learning approach has several benefits over the manual method. These benefits include greater accuracy in the identified signatures, faster library building, and an objective approach for selecting signatures that includes the full range of signatures across a deposit in the library. When using the active learning method, it was found that the current manual interpretation could be replaced in 78.4% of the holes with an accuracy of 95.7%.

  5. Automated design of aerospace structures

    NASA Technical Reports Server (NTRS)

    Fulton, R. E.; Mccomb, H. G.

    1974-01-01

    The current state-of-the-art in structural analysis of aerospace vehicles is characterized, automated design technology is discussed, and an indication is given of the future direction of research in analysis and automated design. Representative computer programs for analysis typical of those in routine use in vehicle design activities are described, and results are shown for some selected analysis problems. Recent and planned advances in analysis capability are indicated. Techniques used to automate the more routine aspects of structural design are discussed, and some recently developed automated design computer programs are described. Finally, discussion is presented of early accomplishments in interdisciplinary automated design systems, and some indication of the future thrust of research in this field is given.

  6. Structural-stratigraphic setting of LaFourche Crossing Prospect, Louisisana

    SciTech Connect

    Snyder, F.C.; Pilger, R.H. Jr.; Bebout, D.G.; Bachman, A.L.

    1981-01-01

    Detailed structural-stratigraphic analysis of LaFourche Crossing Prospect has delineated several fault blocks which place limits on the size of potential geopressured-geothermal reservoirs. The most attractive reservoir is located on the south flank of Rousseau Field, between two apparently south-dipping growth faults.

  7. Mars Structural and Stratigraphic Mapping along the Coprates Rise

    NASA Technical Reports Server (NTRS)

    Saunders, R Stephen

    2009-01-01

    This geologic mapping project supports a topical study of structures in east Thaumasia associated with the Coprates rise. The study examines cuesta-like features on the east flank of the Coprates rise first identified by Saunders et al. [1]. Mapping combines detailed local stratigraphy, structural geology and topography. Hogbacks and cuestas indicate erosion of tilted rock units. The extent of the erosion will be determined in the course of the mapping. The region of interest lies along the eastern margin of Thaumasia bounded by latitudes -15 and -35 and longitudes 50 to 70 W (Figure 1). Three MTM geologic quadrangles are being compiled for publication by the USGS (-20057, -25057, -30057). All existing data sources are used including THEMIS, MOC, CTX, HiRISE, MOLA and gravity, as well as higher level data available through the PDS data nodes at ASU, UA and Washington University. The extremely valuable ASU JMARS tools are used for analysis of many of the data sets. ArcGIS software has been obtained and is being learned for the map compilation.

  8. Stratigraphic and structural distribution of reservoirs in Romania

    SciTech Connect

    Stefanescu, M.O. )

    1991-08-01

    In Romania, there are reservoirs at different levels of the whole Cambrian-Pliocene interval, but only some of these levels have the favorable structural conditions to accumulate hydrocarbons in commercial quantities. These levels are the Devonian, Triassic, Middle Jurassic, Lower Cretaceous (locally including the uppermost Jurassic), Eocene, Oligocene-lower Miocene, middle and upper Miocene, and Pliocene. The productive reservoirs are represented either by carbonate rocks (in Devonian, Middle Triassic and uppermost Jurassic-Lower Cretaceous) or by detrital rocks (in Lower and Upper Triassic, Middle Jurassic, Eocene, Oligocene, Miocene, and Pliocene). From the structural point of view, the Romanian territory is characterized by the coexistence both of platforms (East European, Scythian, and Moesian platforms) and of the strongly tectonized orogenes (North Dobrogea and Carpathian orogenes). Each importance crust shortening was followed by the accumulation of post-tectonic covers, some of them being folded during subsequently tectonic movements. The youngest post-tectonic cover is common both for the platforms (foreland) and Carpathian orogene, representing the Carpathian foredeep. Producing reservoirs are present in the East European and Moesian platforms, in the outer Carpathian units (Tarcau and Marginal folds nappes) and in certain post-tectonic covers which fill the Carpathian foredeep and the Transylvanian and Pannonian basins. In the platforms, hydrocarbons accumulated both in calcareous and detrital reservoirs, whereas in the Carpathian units and in their reservoirs, whereas in the Carpathian units and in their post-tectonic covers, hydrocarbons accumulated only in detrital reservoirs.

  9. Structural and stratigraphic controls on cave development in the Oak Ridge area, Tennessee

    SciTech Connect

    Rubin, P A; Lemiszki, P J

    1992-01-01

    The Oak Ridge Reservation (ORR) is located in the northwestern part of the Valley and Ridge province in east Tennessee. The Valley and Ridge province is the topographic expression of the southern Appalachian foreland fold-thrust belt, which formed during the late Paleozoic Alleghanian orogeny. In the Oak Ridge area, three major northwest verging thrust faults (Kingston, Whiteoak Mountain, and Copper Creek) imbricate and juxtapose carbonate and clastic stratigraphic units that range in age from the lower Cambrian to the lower Mississippian. The carbonate stratigraphic units range in thickness from 1278 to 1748 m and include the Maynardville Limestone in the Conasauga Group (hereby included as part of the Knox Group), the Knox Group, and the Chickamauga Group. Stratigraphic relationships and repetition of units by thrust faulting has produced three northeast striking and southeast dipping carbonate bands bounded to the northwest and southeast by noncarbonate units. Preliminary results indicate that within two of these carbonate bands, formations composed of mudstone and argillaceous limestone appear to further subdivide groundwater basins. Our efforts have focused on relating the stratigraphic and structural characteristics of these rock units with cave development in the region.

  10. Structural and tectonic setting of the Charleston, South Carolina, region: Evidence from the Tertiary stratigraphic record

    USGS Publications Warehouse

    Weems, R.E.; Lewis, W.C.

    2002-01-01

    Eleven upper Eocene through Pliocene stratigraphic units occur in the subsurface of the region surrounding Charleston, South Carolina. These units contain a wealth of information concerning the long-term tectonic and structural setting of that area. These stratigraphic units have a mosaic pattern of distribution, rather than a simple layered pattern, because deposition, erosion, and tectonic warping have interacted in a complex manner through time. By generating separate structure-contour maps for the base of each stratigraphic unit, an estimate of the original basal surface of each unit can be reconstructed over wide areas. Changes in sea level over geologic time generate patterns of deposition and erosion that are geographically unique for the time of each transgression. Such patterns fail to persist when compared sequentially over time. In some areas, however, there has been persistent, repetitive net downward of upward movement over the past 34 m.y. These repetitive patterns of persistent motion are most readily attributable to tectonism. The spatial pattern of these high and low areas is complex, but it appears to correlate well with known tectonic features of the region. This correlation suggests that the tectonic setting of the Charleston region is controlled by scissors-like compression on a crustal block located between the north-trending Adams Run fault and the northwest-trending Charleston fault. Tectonism is localized in the Charleston region because it lies within a discrete hinge zone that accommodates structural movement between the Cape Fear arch and the Southeast Georgia embayment.

  11. North African petroleum geology: regional structure and stratigraphic overview of a hydrocarbon-rich cratonic area

    SciTech Connect

    O'Connor, T.E.; Kanes, W.H.

    1985-02-01

    North Africa, including Sinai, contains some of the most important hydrocarbon-producing basins in the world. The North African Symposium is devoted to examining the exploration potential of the North African margin in light of the most recent and promising exploration discoveries. The geologic variety of the region is extraordinary and can challenge any exploration philosophy. Of primary interest are the Sirte basin of Libya, which has produced several billion barrels of oil, and the Gulf of Suez, a narrow, evaporite-capped trough with five fields that will produce more than 5 billion bbl. Both are extensional basins with minimal lateral movement and with good source rocks in direct proximity to reservoirs. Structural models of these basins give firm leads for future exploration. More difficult to evaluate are the Tethyan realm basins of the northern Sinai, and the Western Desert of Egypt, the Cyrenaican Platform of Libya, and the Tunisia-Sicily shelf area, where there are only limited subsurface data. These basins are extensional in origin also, but have been influenced by lateral tectonics. Favorable reservoirs exist, but source rocks have been a problem locally. Structural models with strong stratigraphic response offer several favorable play concepts. The Paleozoic Ghadames basin in Libya, Tunisia, and Algeria has the least complex structural history, and production appears to be limited to small structures. A series of stratigraphic models indicates additional areas with exploration potential. The Paleozoic megabasin of Morocco, with its downfaulted Triassic grabens, remains an untested but attractive area.

  12. Centrifuge modelling of fold—thrust structures in a tripartite stratigraphic succession

    NASA Astrophysics Data System (ADS)

    Dixon, John M.; Tirrul, Rein

    Analog models measuring 127 × 76 mm in plan were deformed at 2500-4000 g in a centrifuge. Scaled stratigraphic sequences were constructed of anisotropic multilayers with individual layers of Plasticine and silicone putty as thin as 40 μm. The plasticine—silicone putty multilayers are analogs for interbedded competent carbonates and clastics, and incompetent pelites, given the model ratios of acceleration, 2500 g; length, 5 × 10 -6; specific gravity, 0.6; time 10 -10. Modelling of fold—thrust tectonics emphasizes the influence of stratigraphic succession on structural evolution. The models are constructed with a tripartite stratigraphic succession comprising basal and upper, well-laminated and incompetent units, and a middle, somewhat more isotropic and competent unit. The models deform by three mechanisms: layer-parallel shortening, folding and thrust faulting. They reproduce a number of fold—thrust relationships that have been observed in nature. Folds are typically periclinal, in en échelon arrays. Folds and thrusts are arcuate in plan, reflecting differential shortening. Fold attitudes grade from upright at high levels to overturned at deeper levels within a structural panel, reflecting drag against the basal décollement; fold axial surfaces and thrust faults are listric. While competent units may be offset by localized displacement on thrust faults, the discrete faults may die out both upwards and downwards into regions of ductile strain in less-competent units. Thrust faults appear to follow staircase trajectories through the strata, transecting incompetent units at shallow angles to bedding and competent units at steeper angles. However, the apparent staircase pattern results from propagation of a fault along a relatively straight trajectory through previously-folded strata. Foreland-verging thrusts are more common than back thrusts; the latter have steeper dips. The models suggest a mechanism of thrust-ramp nucleation following detachment folding

  13. Tectonic reconstructions of the southwestern Great Basin: Stratigraphic tests of structural models

    SciTech Connect

    Prave, A.R. . Dept. of Earth and Atmospheric Sciences); Snow, J.K. . Division of Geology and Planetary Sciences)

    1993-04-01

    Accurate paleogeographic reconstruction of the tectonically dismembered southwestern Great Basin is in large part dependent on the validity of the Wernicke et al. (1988) and Snow and Wernicke (1989) correlations of Mesozoic (pre-Tertiary) contractile deformational features. In order to independently assess these structurally based models and their predictions, carefully chosen stratigraphic data were used as tests. In the northern Death Valley region, sediment dispersal trends in two regionally developed facies of the Lower Cambrian Wood Canyon Formation and Zabriskie Quartzite suggest that otherwise uniformly northwest-directed paleocurrent indicators have undergone vertical axis rotations comparable in direction and magnitude to those predicted for anti-clockwise rotation of the Grapevine Mountains structural block. In the central Death Valley region, stratigraphic differences in upper plate rocks in the proposed Tucki Mountain-northern Nopah Range pierce point prevent the adjacent juxtaposition of those rocks but are permissive of such a correlation. Finally, in the southern Death Valley region, the Levy and Christie-Blick (1989) pre-Mesozoic reconstruction results in overlap of range blocks and juxtaposition of disparate facies in the Proterozoic Pahrump Group rocks. This implies that the Cenozoic deformational vector displacement paths, determined for elsewhere in the southern Great Basin, are not applicable to southern Death Valley and must be reassessed.

  14. Cambrian-Ordovician Knox production in Ohio: Three case studies of structural-stratigraphic traps

    USGS Publications Warehouse

    Riley, R.A.; Wicks, J.; Thomas, Joan

    2002-01-01

    The Knox Dolomite (Cambrian-Ordovician) in Ohio consists of a mixed carbonate-siliciclastic sequence deposited in a tidal-flat to shallow-marine environment along a broad continental shelf. Knox hydrocarbon production occurs in porous sandstone and dolomite reservoirs in the Copper Ridge dolomite, Rose Run sandstone, and Beekmantown dolomite. In Ohio, historical Knox exploration and development have been focused on paleogeomorphic traps within the prolific Morrow Consolidated field, and more recently, within and adjacent to the Rose Run subcrop. Although these paleogeomorphic traps have yielded significant Knox production, structural and stratigraphic traps are being largely ignored. Three Knox-producing pools demonstrate structural and stratigraphic traps: the Birmingham-Erie pool in southern Erie and southwestern Lorain counties, the South Canaan pool in northern Wayne County, and the East Randolph pool in south-central Portage County. Enhanced porosity and permeability from fractures, as evident in the East Randolph pool, are also an underexplored mechanism for Knox hydrocarbon accumulation. An estimated 800 bcf of gas from undiscovered Knox resources makes the Knox one of the most attractive plays in the Appalachian basin.

  15. Cenozoic structural evolution and tectono-stratigraphic framework of the northern Gulf Coast continental margin

    SciTech Connect

    Diegel, F.A.; Karlo, J.F.; Shoup, R.C.; Schuster, D.C.

    1996-12-31

    The Cenozoic structural evolution of the northern Gulf of Mexico Basin is controlled by progradation over deforming, largely allochthonous salt structures derived from an underlying autochthonous Jurassic salt. The wide variety of structural styles is due to a combination of (1) original distribution of Jurassic and Mesozoic salt structures, (2) different slope depositional environments during the Cenozoic, and (3) varying degrees of salt withdrawal from allochthonous salt sheets. Tectono-stratigraphic provinces describe regions of contrasting structural styles and ages. Provinces include (1) a contractional foldbelt province, (2) a tabular salt-minibasin-province, (3) a Pliocene-Pleistocene detachment province, (4) a salt dome-minibasin province, (5) an Oligocene-Miocene detachment province, (6) a lower Oligocene Vicksburg detachment province, (7) an upper Eocene detachment province, and (8) the Wilcox growth fault province of Paleocene-Eocene age. Within several tectono-stratigraphic provinces, shale-based detachment systems, dominated by lateral extension, and allochthonous salt-based detachment systems, dominated by subsidence, can be distinguished by geometry, palinspastic reconstructions, and subsidence analysis. Many shale-based detachments are linked downdip to deeper salt-based detachments. Large extensions above detachments are typically balanced by salt withdrawal. Salt-withdrawal minibasins with flanking salt bodies occur as both isolated structural systems and components of salt-based detachment systems. During progradation, progressive salt withdrawal from tabular salt bodies on the slope formed salt-bounded minibasins which, on the shelf, evolved into minibasins bounded by arcuate growth faults and remnant salt bodies. Associated secondary salt bodies above allochthonous salt evolved from pillows, ridges, and massifs to leaning domes and steep-sided stocks.

  16. Structural and stratigraphic evolution of the East Georges Bank Basin, offshore Nova Scotia, Canada

    SciTech Connect

    Carswell, A.B. ); Koning, T. ); Hibbs, D.C. )

    1990-05-01

    The East Georges Bank Basin is located offshore Nova Scotia on the southeastern Canadian continental shelf. The basin covers 2.5 million ac and is one of the last undrilled basins in North America. The geological interpretation is almost entirely based on 16,000 km of seismic data over the basin. Pertinent well control is limited to 10 wells on the US portion of the Georges Bank (West Georges Bank Basin) and two wells on the Scotian shelf. Seismic-stratigraphic analysis of this data has led to a structural and stratigraphic model for the basin. The basin formed during the Triassic when the landmass of Pange began separating along rift zones. A prominent Paleozoic basement high, the Yarmouth Arch separated the East Georges Bank Basin from the West Georges Bank Basin and had a dominant influence on sedimentation until the Middle Jurassic. Early synrift sequences consist of lacustrine clastics and shales. Marine incursions began in the late Triassic resulting in massive salt deposits that reflect the restricted extent of the basin and the arid Triassic and Early Jurassic climate. Further continental separation during the Early Jurassic resulted in deposition of carbonates and evaporites followed by Middle Jurassic continental shelf carbonates and deltaic sands. During the Middle Jurassic, major growth faulting and halokinesis was initiated by progradation of the deltaic sands. Post Middle Jurassic continental spreading in combination with changing climatic conditions resulted in a steady decline of carbonate sedimentation and dominance of clastic deposition throughout the remaining history of the basin.

  17. Automated Characterization Of Vibrations Of A Structure

    NASA Technical Reports Server (NTRS)

    Bayard, David S.; Yam, Yeung; Mettler, Edward; Hadaegh, Fred Y.; Milman, Mark H.; Scheid, Robert E.

    1992-01-01

    Automated method of characterizing dynamical properties of large flexible structure yields estimates of modal parameters used by robust control system to stabilize structure and minimize undesired motions. Based on extraction of desired modal and control-design data from responses of structure to known vibrational excitations. Applicable to terrestrial structures where vibrations are important - aircraft, buildings, bridges, cranes, and drill strings.

  18. Automated MAD and MIR structure solution.

    PubMed

    Terwilliger, T C; Berendzen, J

    1999-04-01

    Obtaining an electron-density map from X-ray diffraction data can be difficult and time-consuming even after the data have been collected, largely because MIR and MAD structure determinations currently require many subjective evaluations of the qualities of trial heavy-atom partial structures before a correct heavy-atom solution is obtained. A set of criteria for evaluating the quality of heavy-atom partial solutions in macromolecular crystallography have been developed. These have allowed the conversion of the crystal structure-solution process into an optimization problem and have allowed its automation. The SOLVE software has been used to solve MAD data sets with as many as 52 selenium sites in the asymmetric unit. The automated structure-solution process developed is a major step towards the fully automated structure-determination, model-building and refinement procedure which is needed for genomic scale structure determinations. PMID:10089316

  19. Unconformity structures controlling stratigraphic reservoirs in the north-west margin of Junggar basin, North-west China

    NASA Astrophysics Data System (ADS)

    Wu, Kongyou; Paton, Douglas; Zha, Ming

    2013-03-01

    Tectonic movements formed several unconformities in the north-west margin of the Junggar basin. Based on data of outcrop, core, and samples, the unconformity is a structural body whose formation associates with weathering, leaching, and onlap. At the same time, the structural body may be divided into three layers, including upper layer, mid layer, and lower layer. The upper layer with good primary porosity serves as the hydrocarbon migration system, and also accumulates the hydrocarbon. The mid layer with compactness and ductility can play a role as cap rock, the strength of which increases with depth. The lower layer with good secondary porosity due to weathering and leaching can form the stratigraphic truncation traps. A typical stratigraphic reservoir lying in the unconformity between the Jurassic and Triassic in the north-west margin of the Junggar basin was meticulously analyzed in order to reveal the key controlling factors. The results showed that the hydrocarbon distribution in the stratigraphic onlap reservoirs was controlled by the onlap line, the hydrocarbon distribution in the stratigraphic truncation reservoirs was confined by the truncation line, and the mid layer acted as the key sealing rock. So a conclusion was drawn that "two lines (onlap line and truncation line) and a body (unconformity structural body)" control the formation and distribution of stratigraphic reservoirs.

  20. Structural and stratigraphic mapping from satellite imagery, Kalpin uplift, northwestern Tarim basin, northwest China

    SciTech Connect

    McKnight, C.L.; Carroll, A.R.; Chu, J.; Hendrix, M.S.; Graham, S.A.; Lyon, R.J.P. )

    1990-05-01

    The Kalpin uplift, located on the northwestern margin of the Tarim craton, northwest China, exposes a complete Paleozoic cratonal stratigraphic sequence. The lack of vegetative cover and the visible color contrasts between stratigraphic units afford an optimal situation for detailed geologic mapping from Landsat Multispectral Scanner imagery at a scale of 1:250,000. Field work in the eastern Kalpin uplift constrains the geologic interpretation of the satellite imagery. Exposed basement rock in the Kalpin uplift consists of deformed and metamorphosed upper Proterozoic strata cut by unmetamorphosed mafic dikes. The overlying sedimentary section was deposited primarily in shallow marine to nonmarine environments and includes Sinian (latest Proterozoic to early Cambrian) siliciclastics and carbonates; Cambrian and Ordovician carbonates; Silurian green shales; Devonian red beds; Carboniferous siliciclastics and carbonates; and Permian carbonates, siliciclastics, and subaerial basalt flows. Paleozoic strata are exposed in a series of low, parallel, curvilinear ranges located at the leading edges of low-angle, southeast-vergent thrust sheets. The regular thrust repetition of the entire Paleozoic section suggests the presence of a detachment horizon within the Cambrian section. These southeast-vergent thrust sheets override an older structural trend on the craton, the Bachu uplift, at right angles, folding as they do so. Strike-slip faults cutting the thrust sheets along the same trend as the Bachu uplift suggest the location of buried lateral ramps associated with the Bachu uplift. The young deformation in the Kalpin uplift is a response to compressive stresses produced by the northward movement of the Indian plate. Major faults in the Tian Shan mountain range to the north have been reactivated, resulting in southward-directed thrusting over the Tarim craton.

  1. Automated MAD and MIR structure solution

    SciTech Connect

    Terwilliger, Thomas C.; Berendzen, Joel

    1999-04-01

    A fully automated procedure for solving MIR and MAD structures has been developed using a scoring scheme to convert the structure-solution process into an optimization problem. Obtaining an electron-density map from X-ray diffraction data can be difficult and time-consuming even after the data have been collected, largely because MIR and MAD structure determinations currently require many subjective evaluations of the qualities of trial heavy-atom partial structures before a correct heavy-atom solution is obtained. A set of criteria for evaluating the quality of heavy-atom partial solutions in macromolecular crystallography have been developed. These have allowed the conversion of the crystal structure-solution process into an optimization problem and have allowed its automation. The SOLVE software has been used to solve MAD data sets with as many as 52 selenium sites in the asymmetric unit. The automated structure-solution process developed is a major step towards the fully automated structure-determination, model-building and refinement procedure which is needed for genomic scale structure determinations.

  2. Crestal unconformities as indicators of clastic stratigraphic traps: genetic relation of Berlin field and Elk City structure, deep Anadarko basin

    SciTech Connect

    Lyday, J.R.

    1988-02-01

    The Berlin fan-delta gas reservoir in the deep Anardarko basin was deposited during the late Atokan (Pennsylvanian) as a response to the initial uplift and erosion of the Elk City structure. During the late Atokan pulse of the episodic Pennsylvanian orogeny in the south-central US, abrupt epeirogenic uplift and brittle deformation created an interregional unconformity on positive areas around foreland and cratonic basins. The Elk City structure within the deep Anadarko basin originated as a distinct, subaerially exposed upthrust-block during the late Atokan tectonic event. A crestal unconformity developed on the emergent upthrust block concurrent with its uplift. Terrigenous, detrital Atoka dolomite, originally sourced from the Arbuckle dolomite (Cambrian-Ordovician) of the Amarillo-Wichita uplift, was eroded from the upthrust block and recycled northward as the Berlin fan-delta. Today, the Berlin recrystallized, recycled detrital dolomite fan-delta is a large 41 mi/sup 2/ overpressured gas reservoir with 242-362 bcf reserves at 15,000 ft. The Berlin field is genetically related to the late Atokan crestal unconformity of the Elk City structure, and is an example of the association of crestal unconformities and clastic stratigraphic traps. Such stratigraphic traps originated in marine environments proximal to active structures that have become subaerially exposed. With adequate seals and favorable structural position, detrital deposits recycled from local uplifts can form significant stratigraphic traps. Such stratigraphic traps can occur in compressional, extensional, and diapiric regions.

  3. Automated structure solution with the PHENIX suite

    SciTech Connect

    Terwilliger, Thomas C; Zwart, Peter H; Afonine, Pavel V; Grosse - Kunstleve, Ralf W

    2008-01-01

    Significant time and effort are often required to solve and complete a macromolecular crystal structure. The development of automated computational methods for the analysis, solution, and completion of crystallographic structures has the potential to produce minimally biased models in a short time without the need for manual intervention. The PHENIX software suite is a highly automated system for macromolecular structure determination that can rapidly arrive at an initial partial model of a structure without significant human intervention, given moderate resolution, and good quality data. This achievement has been made possible by the development of new algorithms for structure determination, maximum-likelihood molecular replacement (PHASER), heavy-atom search (HySS), template- and pattern-based automated model-building (RESOLVE, TEXTAL), automated macromolecular refinement (phenix. refine), and iterative model-building, density modification and refinement that can operate at moderate resolution (RESOLVE, AutoBuild). These algorithms are based on a highly integrated and comprehensive set of crystallographic libraries that have been built and made available to the community. The algorithms are tightly linked and made easily accessible to users through the PHENIX Wizards and the PHENIX GUI.

  4. Automated Structure Solution with the PHENIX Suite

    SciTech Connect

    Zwart, Peter H.; Zwart, Peter H.; Afonine, Pavel; Grosse-Kunstleve, Ralf W.; Hung, Li-Wei; Ioerger, Tom R.; McCoy, A.J.; McKee, Eric; Moriarty, Nigel; Read, Randy J.; Sacchettini, James C.; Sauter, Nicholas K.; Storoni, L.C.; Terwilliger, Tomas C.; Adams, Paul D.

    2008-06-09

    Significant time and effort are often required to solve and complete a macromolecular crystal structure. The development of automated computational methods for the analysis, solution and completion of crystallographic structures has the potential to produce minimally biased models in a short time without the need for manual intervention. The PHENIX software suite is a highly automated system for macromolecular structure determination that can rapidly arrive at an initial partial model of a structure without significant human intervention, given moderate resolution and good quality data. This achievement has been made possible by the development of new algorithms for structure determination, maximum-likelihood molecular replacement (PHASER), heavy-atom search (HySS), template and pattern-based automated model-building (RESOLVE, TEXTAL), automated macromolecular refinement (phenix.refine), and iterative model-building, density modification and refinement that can operate at moderate resolution (RESOLVE, AutoBuild). These algorithms are based on a highly integrated and comprehensive set of crystallographic libraries that have been built and made available to the community. The algorithms are tightly linked and made easily accessible to users through the PHENIX Wizards and the PHENIX GUI.

  5. Stratigraphic and Structural Characteristics of the Santa Marta Impact Structure, Brazil

    NASA Astrophysics Data System (ADS)

    Oliveira, G. J. G.; Chamani, M.; Góes, A. M.; Crósta, A. P.; Vasconcelos, M. A. R.; Reimold, W. U.

    2016-08-01

    Santa Marta structure is a moderate-size complex impact structure formed in sedimentary targets, Brazil. We provide an overview of the stratigraphy and deformation patterns of the strata identified within the structure.

  6. Stratigraphic framework, sedimentology and structural setting of Miocene-Pliocene sediments of the Abu Qir area, offshore Nile delta

    SciTech Connect

    Ince, D.M.; Deibis, S.; McSherry, A.; Seymour, W.P.

    1988-08-01

    The offshore Nile delta contains significant gas resources which are currently undergoing both production and appraisal in the Abu Qir field and adjacent areas. The principal reservoir occurs in sandstones of the upper Abu Madi Member (upper Miocene), but excellent potential reservoirs exist in the lower Abu Madi Member (upper Miocene), Sidi Salem (middle-upper Miocene), and Moghra (middle Miocene) Formations. Gas is trapped in fault-bounded anticlinal structures sealed by shales of the Pliocene Kafr el Sheikh Formation. Early wells in the Abu Qir field revealed an apparently simple stratigraphic picture. More recently, however, drilled wells have revealed a more complex stratigraphic situation. Integrated biostratigraphic and sedimentologic studies demonstrate the existence of a fault block or horst structure beneath part of the field, giving rise to the observed stratigraphic complexity. Such a structure was not visible on seismic data due to inhibited reflection quality beneath the overlying Messinian anhydrite but has since been demonstrated by reprocessing and reinterpreting seismic data. The presence of a structural style of this type provides a new concept for hydrocarbon exploration in the area. Reservoir sandstones of the Abu Madi, Sidi Salem, and Moghra Formations are interpreted as sediment gravity flow deposits whose distribution is strongly influenced by syndepositional tectonics. This interpretation, supported by microfossil assemblages, provides important constraints for both reservoir modeling and further exploration.

  7. Automating Structural Analysis of Spacecraft Vehicles

    NASA Technical Reports Server (NTRS)

    Hrinda, Glenn A.

    2004-01-01

    A major effort within NASA's vehicle analysis discipline has been to automate structural analysis and sizing optimization during conceptual design studies of advanced spacecraft. Traditional spacecraft structural sizing has involved detailed finite element analysis (FEA) requiring large degree-of-freedom (DOF) finite element models (FEM). Creation and analysis of these models can be time consuming and limit model size during conceptual designs. The goal is to find an optimal design that meets the mission requirements but produces the lightest structure. A structural sizing tool called HyperSizer has been successfully used in the conceptual design phase of a reusable launch vehicle and planetary exploration spacecraft. The program couples with FEA to enable system level performance assessments and weight predictions including design optimization of material selections and sizing of spacecraft members. The software's analysis capabilities are based on established aerospace structural methods for strength, stability and stiffness that produce adequately sized members and reliable structural weight estimates. The software also helps to identify potential structural deficiencies early in the conceptual design so changes can be made without wasted time. HyperSizer's automated analysis and sizing optimization increases productivity and brings standardization to a systems study. These benefits will be illustrated in examining two different types of conceptual spacecraft designed using the software. A hypersonic air breathing, single stage to orbit (SSTO), reusable launch vehicle (RLV) will be highlighted as well as an aeroshell for a planetary exploration vehicle used for aerocapture at Mars. By showing the two different types of vehicles, the software's flexibility will be demonstrated with an emphasis on reducing aeroshell structural weight. Member sizes, concepts and material selections will be discussed as well as analysis methods used in optimizing the structure

  8. Sequence stratigraphic-structural analysis of the East Midlands Carboniferous oil field, UK: Implications for fluvial reservoir models

    SciTech Connect

    Aitken, J.F.; Quirk, D.G. )

    1996-01-01

    The integration of seismic, well log and core data from, the Scampton North and Welton oil fields, Lincolnshire, UK, has enabled the development of a sequence stratigraphic-structural model for late Namurian and early Westphalian fluvial reservoirs. The tectonic and sequence stratigraphic setting is remarkably similar to that in the Southern North Sea which extends more than 250 km to the east. Closer onshore well spacing, supplemented with coal exploration borehole data, provides an excellent analogue for new Carboniferous Southern North Sea developments and prospects. The reservoirs comprise medium-grained, low sinuosity fluvial aggradational packages within a coal-bearing, fluvio-deltaic depositional environment. Although major active faults occur within the Namurian, tectonic activity had ceased by the start of the Westphalian which has a tramline-like appearance on seismic. The reservoirs are poorly interconnected as a consequence of small-scale faults and extensive shale baffles, which have resulted in considerable production problems, accentuated by an initial poor reservoir correlation. Palynology has proven to be highly imprecise, consequently, the use of seismic picks as chronostratigraphic markers combined with the coal stratigraphy from British Coal boreholes and the application of sequence stratigraphic, concepts has enabled a more precise reservoir correlation to be made.

  9. Sequence stratigraphic-structural analysis of the East Midlands Carboniferous oil field, UK: Implications for fluvial reservoir models

    SciTech Connect

    Aitken, J.F.; Quirk, D.G.

    1996-12-31

    The integration of seismic, well log and core data from, the Scampton North and Welton oil fields, Lincolnshire, UK, has enabled the development of a sequence stratigraphic-structural model for late Namurian and early Westphalian fluvial reservoirs. The tectonic and sequence stratigraphic setting is remarkably similar to that in the Southern North Sea which extends more than 250 km to the east. Closer onshore well spacing, supplemented with coal exploration borehole data, provides an excellent analogue for new Carboniferous Southern North Sea developments and prospects. The reservoirs comprise medium-grained, low sinuosity fluvial aggradational packages within a coal-bearing, fluvio-deltaic depositional environment. Although major active faults occur within the Namurian, tectonic activity had ceased by the start of the Westphalian which has a tramline-like appearance on seismic. The reservoirs are poorly interconnected as a consequence of small-scale faults and extensive shale baffles, which have resulted in considerable production problems, accentuated by an initial poor reservoir correlation. Palynology has proven to be highly imprecise, consequently, the use of seismic picks as chronostratigraphic markers combined with the coal stratigraphy from British Coal boreholes and the application of sequence stratigraphic, concepts has enabled a more precise reservoir correlation to be made.

  10. The automation of natural product structure elucidation.

    PubMed

    Steinbeck, C

    2001-05-01

    The last two or three years have seen exciting developments in the field of computer-assisted structure elucidation (CASE) with a number of programs becoming commercially or freely available. This was the conditio sine qua non for CASE to be widely applied in the daily work of bench chemists and spectroscopists. A number of promising applications have been published in the area of structure generators, deterministic and stochastic CASE tools and property predictions, including the automatic distinction between natural products and artificial compounds, as well as the determination of 3-D structure from a connection table based on IR spectroscopy. Advancements in coupling techniques between chromatographic and spectroscopic methods demonstrate progress towards a fully automated structure elucidation or identification process starting at the earliest steps of obtaining crude extracts.

  11. Structural and stratigraphic evolution of the Iberia-Newfoundland margin: A quantitative modeling approach

    NASA Astrophysics Data System (ADS)

    Karner, Garry; Johnson, Christopher; Mohn, Geoffroy; Manatschal, Gianreto

    2013-04-01

    Passive margins develop by extension and rupture of continental lithosphere. In general, the structure of a passive margin depends on a number of fundamental parameters, including the inherited rheology, rheological evolution during extension, magmatism, relative plate motions and the thermal properties of the continental crust and mantle before, during, and after rifting. These parameters determine the style, distribution and rate of extension, as well as the amount of syn- and post-rift accommodation and magmatism. In this presentation, we will investigate the paleo-water depths developed during hyper-extension of the Iberian-Newfoundland margin lithosphere by applying a process-oriented integration procedure that simulates the preserved margin stratigraphy using a model for deformation of the lithosphere and flexural isostasy. Seismic reflection and refraction data, gravity, and ODP drilling of the Iberian-Newfoundland margin are used as constraints. Manatschal et al., (2007) structurally reconstructed the Iberia margin to a 6-8 km pre-rift crustal thickness capped by shallow water Tithonian carbonates, suggesting an initial relief near sea-level. For reasonable crustal and mantle densities, this is difficult to achieve isostatically. Re-examining the evidence for shallow water sediments from Well 1069A (Leg 173 1069A16R3 127-130) suggests an environment of deposition consistent with a slope setting. The large organic content within the 1069A samples is dominated by woody and coaly particles, suggesting that this depositional package is part of a debris flow rapidly deposited in water depths of 500-1000 m from the laterally adjacent, shallow Galicia Bank to the north. We have applied the Quantitative Basin Analysis (QBA) to integrate seismic stratigraphic interpretations of two representative sections across the northern and southern Iberian margin and Newfoundland margin (Sutra & Manatschal, in press) to model the thinning of the lithosphere and the respective

  12. Stratigraphic traps 2

    SciTech Connect

    Not Available

    1991-01-01

    This volume contains studies of fields with traps that are mainly stratigraphic in nature. Structure plays a role in the traps of several fields, but overall, it is clear that the main trapping features with the group of fields in this volume are stratigraphic. The first six fields in this volume, Alabama Ferry, Rospo Mare, Walker Creek, Bindley, Lexington, and Newburg/South Westhope, have carbonate reservoirs. The latter two of these, Lexington and Newburg/South Westhope, also have sandstone reservoirs. The remaining fields, East Texas, East Clinton, Stockholm Southwest, Sorrento, Port Acres, and Lagoa Parda, have only sandstone reservoirs.

  13. Stratigraphic and structural framework of the western edge of Canada Basin, Arctic Ocean

    NASA Astrophysics Data System (ADS)

    Hutchinson, D. R.; Mosher, D. C.; Shimeld, J.; Chian, D.; Lebedeva-Ivanova, N. N.; Evangelatos, J.; Jackson, R.

    2012-12-01

    Seismic reflection and refraction data collected in joint two-icebreaker expeditions by the U.S. and Canada between 2008 and 2011 reveal how the western edge of the Canada Basin has evolved through rifting and post rifting history. Our observations suggest that the western margin of Canada Basin (along Northwind Ridge [NR} and the northern Chukchi Borderland [CB]) is a mix of highly stretched continental and transitional crust with unique attributes that reflect local influences of NR, CB, and Alpha Ridge with the extension that formed Canada Basin. The reflection character of basement and refraction velocities indicate that the regions adjacent to NR and north-northwest of CB are probably underlain by a high-velocity (7.2-7.5 km/s) layer that may be serpentinized mantle or a transitional, intruded lower continental crust. Between these two regions, north of CB, is an area underlain by highly stretched continental crust (lower crust with velocities less than 6.7 km/s). Dredge samples collected from near NR recovered basaltic rocks. The area north and northeast of CB also contains discontinuous, segmented, bright reflections at the base of the postrift Canada Basin sediments consistent with the kind of reflections seen in magmatically intruded regions. These bright reflections may indicate a postrift magmatic pulse associated with Alpha Ridge. On top of Northwind Ridge, the stratigraphic units above basement are truncated and eroded and tilt towards Canada basin. The relationship between these units and the deepest units in Canada Basin is speculative, but they are interpreted to represent prerift or synrift deposits that were faulted during the formation of NR. Similar truncated, eroded, and tilted deposits occur along the northern part of the CB and southern Alpha Ridge and can be traced both continuously and discontinuously into Canada Basin where they unconformably underlie the younger deposits that lap onto them. The postrift depositional patterns inferred from

  14. Taking a new look at an old field: A revised structural/stratigraphic framework of the SVS-40 area

    SciTech Connect

    Taylor, C.; Carrizales, R.; Acosta, W.; Cova, J.; Garrido, M.; Rossetti, A.N.

    1996-08-01

    The SVS-40 area in Lake Maracaibo has undergone a complete structural/stratigraphic revision by fully integrating all available data on a single software platform. This integration was achieved by utilizing the latest workstation technology to create a commonly shared database. This allowed quick access and usage of all the data for generating a structural-stratigraphic-parametric model for reservoir simulation. Located in Maraven`s Lama field, Central Lake Maracaibo, the SVS-40 area has been producing oil for the last 30 years. It contains three major reservoirs which are currently under water injection projects. The reservoir dynamics of the field required a new look, one that could only be achieved by piecing together the data in a coherent fashion. The structural model was developed primarily from the 3D seismic survey over the area. At the same time, the stratigraphy framework was completed and integrated. Along with the appropriate petrophysical and production data, a consistent geometric and parametric model suitable for input to a numerical fluid flow simulator has been developed. The results of this integrated model are presented as well as the steps followed to generate it.

  15. Stratigraphic and structural characterization of the OU-1 area at the former George Air Force Base, Adelanto, Southern California

    USGS Publications Warehouse

    Catchings, R.D.; Gandhok, G.; Goldman, M.R.

    2001-01-01

    The former George Air Force Base (GAFB), now known as the Southern California Logistics Airport (SCLA), is located in the town of Adelanto, approximately 100 km northeast of Los Angeles, California (Fig. 1). In this report, we present acquisition parameters, data, and interpretations of seismic images that were acquired in the OU-1 area of GAFB during July 1999 (Fig. 2). GAFB is scheduled for conversion to civilian use, however, during its years as an Air Force base, trichlorethylene (TCE) was apparently introduced into the subsurface as a result of spills during normal aircraft maintenance operations. To comply with congressional directives, TCE contaminant removal has been ongoing since the early-tomid 1990s. However, only a small percentage of the TCE believed to have been introduced into the subsurface has been recovered, due largely to difficulty in locating the TCE within the subsurface. Because TCE migrates within the subsurface by ground water movement, attempts to locate the TCE contaminants in the subsurface have employed an array of ground-water monitoring and extraction wells. These wells primarily sample within a shallow-depth (~40 m) aquifer system. Cores obtained from the monitoring and extraction wells indicate that the aquifer, which is composed of sand and gravel channels, is bounded by aquitards composed largely of clay and other fine-grained sediments. Based on well logs, the aquifer is about 3 to 5 m thick along the seismic profiles. A more thorough understanding of the lateral variations in the depth and thickness of the aquifer system may be a key to finding and removing the remaining TCE. However, due to its complex depositional and tectonic history, the structural and stratigraphic sequences are not easily characterized. An indication of the complex nature of the structure and stratigraphy is the appreciable variation in stratigraphic sequences observed in some monitoring wells that are only a few tens of meters apart. To better

  16. Tectonic-stratigraphic division and blind fold structures in Nansha Waters, South China Sea

    NASA Astrophysics Data System (ADS)

    Yan, Pin; Liu, Hailing

    2004-12-01

    Extensive multiple-channel reflection seismic data have been collected in the Nansha (Spratley Islands) Waters, the southern margin of the South China Sea. Stratigraphic correlation is shown with focus on a comprehensive geophysiXcal survey line run from offshore NW Sabah to offshore SE Vietnam. According to the varying tectono-stratigraphy from southeast to northwest, five tectonic belts can be determined, i.e. the Palawan-Borneo Nappe, Nansha Trough, Nanwei-Liyue Compressive Belt, Zheng'he Extensional Belt and the Circum-Southwest Subbasin Belt. In the Palawan-Borneo Nappe, Neogene-Quaternary deposits were highly upthrust northwestwards, resulting in a series of moderately to tightly folded anticlines separated by open synclines. The Nansha Trough was a narrow, deep-water belt filled with thick, undisturbed Neogene-Quaternary deposits. The Nanwei-Liyue Compressive Belt was dominated by strongly folded paleo-anticlines overlain by an undeformed sedimentary cap with a pronounced hiatus of Paleogene sediments. The Zheng'he Extensional Belt consisted of a rugged topography and Paleogene half-grabens bounded by listic faults. The major extensional faults were reactivated to cut through the overlying Neogene-Quaternary deposits. Over the Circum-Southwest Subbasin Belt, Neogene-Quaternary deposits draped on the largely subsided fault blocks related to the Late Oligocene-Mid-Miocene seafloor spreading. Based on the regional stratigraphic correlation, the prominent paleo-anticlines found within the Nanwei-Liyue Compressive Belt are deduced to consist of mainly Mesozoic marine sediments that were compressed in the Late Mesozoic Era. Therefore, the Nansha Microcontinent Block is shown to be a collision complex assembled during Late Mesozoic Era.

  17. A preliminary synthesis of structural, stratigraphic, and magnetic data from part of the northwest Adirondacks, New York

    USGS Publications Warehouse

    Foose, M.P.; Brown, C. Ervin

    1976-01-01

    Synthesis of recent work in the NW Adirondacks, New York allows the development of a coherent geologic picture. Mapping of the Precambrian rock units enables the recognition of four major units which are, from bottom to top, 1) Granitic Gneiss (alaskite), 2) Lower Marble, 3) Major Gneiss, and 4) Upper Marble. Additionally, lenses of amphibolite and granite occur as intrusives within this succession. These rock units have been complexly deformed by three major folding episodes, and by two distinctly different styles of faulting. The result has been to produce large northeast-southwest trending dome and basin structures. Patterns of magnetic intensity closely parallel distribution of rock units and provide additional information for a structural and stratigraphic synthesis-.

  18. Predicting toxicity through a computer automated structure evaluation program

    SciTech Connect

    Klopman, G.

    1985-09-01

    The computer automated structure evaluation program (CASE) has been extended to perform automatic quantitative structure-activity relationships (QSAR). Applications include the carcinogenicity of polycyclic aromatic hydrocarbons and of N-nitrosamines. Agreement with experiment is satisfactory.

  19. Automated detection of glaucoma using structural and non structural features.

    PubMed

    Salam, Anum A; Khalil, Tehmina; Akram, M Usman; Jameel, Amina; Basit, Imran

    2016-01-01

    Glaucoma is a chronic disease often called "silent thief of sight" as it has no symptoms and if not detected at an early stage it may cause permanent blindness. Glaucoma progression precedes some structural changes in the retina which aid ophthalmologists to detect glaucoma at an early stage and stop its progression. Fundoscopy is among one of the biomedical imaging techniques to analyze the internal structure of retina. Our proposed technique provides a novel algorithm to detect glaucoma from digital fundus image using a hybrid feature set. This paper proposes a novel combination of structural (cup to disc ratio) and non-structural (texture and intensity) features to improve the accuracy of automated diagnosis of glaucoma. The proposed method introduces a suspect class in automated diagnosis in case of any conflict in decision from structural and non-structural features. The evaluation of proposed algorithm is performed using a local database containing fundus images from 100 patients. This system is designed to refer glaucoma cases from rural areas to specialists and the motivation behind introducing suspect class is to ensure high sensitivity of proposed system. The average sensitivity and specificity of proposed system are 100 and 87 % respectively. PMID:27652092

  20. Seismic interpretation of the sedimentation systems, structural geology and stratigraphic of the Chicxulub crater, carbonate platform of Yucatan, Mexico.

    NASA Astrophysics Data System (ADS)

    Iza, Canales-Garcia; Jaime, Urrutia-Fucugauchi; Joaquin Eduardo, Aguayo-Camargo; Angel, Alatorre-Mendieta Miguel

    2016-04-01

    In order to describe the structural and stratigraphic features of the Chicxulub crater, was performed the present work of seismic interpretation, seismic attributes and generation of 3D surfaces. Load data it was performed in SEG-Y format, to display a total of 19 seismic reflection profiles were worked at domain time; the corresponding interpretation was carried out by separating five packages with textural differences, for this separation were used five horizons with seismic response representing the base of these packages, the correlation of horizons was made for all lines, creating composed lines so that all profiles were interpret together at intersections for form a grid. Multiple fault zones, were interpreted with the help of seismic attributes, like RMS amplitude, complex trace analysis, gradient of the trace and cosine phase. Was obtained the structural and stratigraphic interpretation , 3D models of the surfaces interpreted with which it is possible to observe the morphology of the base of the basin, it is controlled by the effect of the impact that formed the crater, has the features as a multi-ring crater. Shallower horizons shows that the topography of the base of the crater continues to affect the upper relief, which tends to be horizontal as it approaches the surface but is modeled by themselves sedimentary processes of the carbonate platform of Yucatán; packages below the base of the crater show the characteristics that own carbonated breccia, product the rupture of the material at impact, the material was deposited in a chaotic way, at this level we found the faults and fractures zone.

  1. 3D Structural and Stratigraphic Architecture of the Northwest Santa Barbara Channel and Implications for Submarine Landslide Generation

    NASA Astrophysics Data System (ADS)

    Wright, A.; Kluesner, J. W.; Brothers, D. S.; Johnson, S. Y.

    2015-12-01

    Multiple submarine landslides have been previously documented on the north flank of the Santa Barbara Channel, and such failures are considered capable of generating local tsunamis. 2D seismic-reflection datasets provide a general view of regional framework geology, including faulting and folding associated with north-south compression. However, better understanding of the relationships between faults, folds, stratigraphic architecture, and submarine landslides can be obtained with 3D seismic datasets. In this study we use an industry 3D seismic-reflection volume that encompasses the slope and shelfbreak surrounding the Gaviota submarine landslide (3.8 km2) to investigate structural and stratigraphic controls on slope failure in this region. The depth-migrated seismic volume shows a network of stacked thrust faults, backthrusts, and splays that results in both broad and local zones of compression and folding along the slope and shelf. One localized zone of enhanced folding associated with small-offset thrust faults is located directly beneath the Gaviota landslide headwall, while another zone is located directly below an imaged seafloor fissure. In addition, 3D seismic attribute analysis provides insight into the shallow sedimentary section of the failed and non-failed sedimentary packages. Calculation of RMS amplitude and dominant frequency within a windowed region below the seafloor horizon delineates an apparent zone of gas-charged strata that onlaps onto older folded sediments. The up-dip limit of these gas-charged sediments aligns with the location of a seafloor fissure that extends westward from the Gaviota landslide headwall. We propose that the combination of deformation and fluid charging acted to pre-condition and trigger the failure of the Gaviota landslide, and as a result, the presence of these conditions along the fissure adjacent to the Gaviota landslide suggests this area should be considered landslide prone.

  2. Pricing Structures for Automated Library Consortia.

    ERIC Educational Resources Information Center

    Machovec, George S.

    1993-01-01

    Discusses the development of successful pricing algorithms for cooperative library automation projects. Highlights include desirable characteristics of pricing measures, including simplicity and the ability to allow for system growth; problems with transaction-based systems; and a review of the pricing strategies of seven library consortia.…

  3. Stratigraphic and structural configuration of the Navajo (Jurassic) through Ouray (Mississippian-Devonian) formations in the vicinity of Davis and Lavender Canyons, southeastern Utah

    SciTech Connect

    McCleary, J.R.; Romie, J.E.

    1986-04-01

    This study developed a three-dimensional computer model of stratigraphic and structural relationships within a 3497-km/sup 2/ (1350-mi/sup 2/) study area centered on the proposed site for a high-level nuclear waste repository in southeastern Utah. The model consists of a sequence of internally reconciled isopach and structure contour maps horizontally registered and stored in stratigraphic order. This model can be used to display cross sections, perspective block diagrams, or fence diagrams at any orientation; estimate depth of formation contacts and thicknesses for any new stratigraphic or hydrologic boreholes; facilitate ground-water modeling studies; and evaluate the structural and stratigraphic evolution of the study area. This study also includes limited evaluations of aquifer continuity in the Elephant Canyon and Honaker Trail Formations, and of salt dissolution and flowage features as interpreted from geophysical logs. The study identified a long history of movement in the fault system in the north-central part of the study area and a major salt flowage feature in the northeastern part. It describes the Elephant Canyon Formation aquifer as laterally limited, the Honaker Trail Formation aquifer as fairly continuous over the area, and Beef Basin in the southern part of the area as a probable dissolution feature. It also concludes that the Shay-Bridger Jack-Salt Creek Graben system is apparently a vertically continuous feature between the basement and ground surface. No stratigraphic or structural discontinuities were detected in the vicinity of Davis Canyon that appear to be detrimental to the siting of a waste repository.

  4. Structural and stratigraphic evolution of Aleutian convergent-margin basins - Ridge crest to trench floor

    SciTech Connect

    Scholl, D.W.; Ryan, H.F.; Geist, E.L.; Vallier, T.L.

    1988-01-01

    The Aleutian Ridge lies along nearly 2,000 km of the north Pacific's obliquely converging plate boundary with North America. Since middle Eocene time, convergent-margin basins have repeatedly formed here, typically as summit basins along the ridge crest, and as forecarc basins on the landward trench slope. Thick (1-4 km) sequences of terrigenous, hemipelagic, and biogenic debris have accumulated in these depressions, which are mostly intra-arc structures floored by arc-basement rocks. Summit and forearc basins formed as a consequence of plate-boundary coupling and the application of compressional and right-lateral shear stresses to the arc massif. Basins typically evolved along shear zones in response to transtensional processes, and as trailing-edge grabens behind rotating blocks of arc massif. In the late Cenozoic, high rates of trench sedimentation led to the growth of an accretionary complex that underthrust forearc basement. Wedging and improved plate coupling elevated and laterally shifted blocks of outer forearc rocks, creating much of the structural framework of the regionally extensive Aleutian Terrace forearc basin. Changes in plate-boundary conditions that affected the ridge's volcanic activity and regional elevation importantly influenced basinal sedimentation. Changes of greatest significant were a major shift in convergence direction and rate about 42 Ma (reduced volcanism), ridge underthrusting by increasingly younger ocean crust in Oligocena and Miocene time (arc elevation), and the combination of more orthogonal underthrusting and the subduction of a dead spreading center 5-120 Ma (arc subsidence).

  5. Arctic ice shelves and ice islands: Origin, growth and disintegration, physical characteristics, structural-stratigraphic variability, and dynamics

    SciTech Connect

    Jeffries, M.O. )

    1992-08-01

    Ice shelves are thick, floating ice masses most often associated with Antarctica where they are seaward extensions of the grounded Antarctic ice sheet and sources of many icebergs. However, there are also ice shelves in the Arctic, primarily located along the north coast of Ellesmere Island in the Canadian High Arctic. The only ice shelves in North America and the most extensive in the north polar region, the Ellesmere ice shelves originate from glaciers and from sea ice and are the source of ice islands, the tabular icebergs of the Arctic Ocean. The present state of knowledge and understanding of these ice features is summarized in this paper. It includes historical background to the discovery and early study of ice shelves and ice islands, including the use of ice islands as floating laboratories for polar geophysical research. Growth mechanisms and age, the former extent and the twentieth century disintegration of the Ellesmere ice shelves, and the processes and mechanisms of ice island calving are summarized. Surface features, thickness, thermal regime, and the size, shape, and numbers of ice islands are discussed. The structural-stratigraphic variability of ice islands and ice shelves and the complex nature of their growth and development are described. Large-scale and small-scale dynamics of ice islands are described, and the results of modeling their drift and recurrence intervals are presented. The conclusion identifies some unanswered questions and future research opportunities and needs. 97 refs., 18 figs.

  6. Stratigraphic and structural relations of Lower Triassic rocks within the frontal fold-and-thrust zone of southwestern Montana

    SciTech Connect

    Paull, R.K.; Paull, R.A. )

    1991-06-01

    New sections of Lower Triassic rocks were measured within the frontal fold-and-thrust zone of southwestern Montana at Garfield Canyon, Horse Prairie Creek, Kennison Spring, and Birch Creek to clarify stratigraphic and structural relations. Triassic rocks disconformably overlie Upper Permian units and unconformably underlie younger rocks. From oldest to youngest, they include the Dinwoody, Woodside, and Thaynes formations. The Dinwoody consists of shale, siltstone, and limestone; thickness varies from 152 to 273 m. Red beds of the Woodside thin northward to zero in the northern Tendoy Mountains. The Thaynes is comprised of limestone, siltstone, and sandstone; thickness varies from 244 m in the south, zero in the central area, to 51 m in the north. North of the Woodside termination, recognition of the Thaynes depends upon recovery of Smithian conodonts. Conodonts provide correlation and biofacies information for this study. From Birch Creek northward, conodonts are basinal, consistent with lithofacies data. This area is within the McCartney Mountain salient, a depositional basin which may have existed on the craton margin prior to thrusting. However, there is no evidence to support basinal conditions in the Blacktail Mountain salient to the south. Although thermal alteration values for most conodonts are within the range of oil and condensate production, those from Birch Creek north exceed the stability regime for hydrocarbons.

  7. High resolution spectroscopic mapping imaging applied in situ to multilayer structures for stratigraphic identification of painted art objects

    NASA Astrophysics Data System (ADS)

    Karagiannis, Georgios Th.

    2016-04-01

    The development of non-destructive techniques is a reality in the field of conservation science. These techniques are usually not so accurate, as the analytical micro-sampling techniques, however, the proper development of soft-computing techniques can improve their accuracy. In this work, we propose a real-time fast acquisition spectroscopic mapping imaging system that operates from the ultraviolet to mid infrared (UV/Vis/nIR/mIR) area of the electromagnetic spectrum and it is supported by a set of soft-computing methods to identify the materials that exist in a stratigraphic structure of paint layers. Particularly, the system acquires spectra in diffuse-reflectance mode, scanning in a Region-Of-Interest (ROI), and having wavelength range from 200 up to 5000 nm. Also, a fuzzy c-means clustering algorithm, i.e., the particular soft-computing algorithm, produces the mapping images. The evaluation of the method was tested on a byzantine painted icon.

  8. Structural and stratigraphic evolution of Aleutian convergent-margin basins - ridge crest to trench floor

    SciTech Connect

    Scholl, D.W.; Ryan, H.F.; Geist, E.L.; Vallier, T.L.; Stevenson, A.J.; Childs, J.R. )

    1988-02-01

    The Aleutian Ridge lies along nearly 2000 km of the north Pacific's obliquely converging plate boundary with North America. Since middle Eocene time, convergent-margin basins have repeatedly formed here, typically as summit basins along the ridge crest, and as forearc basins on the landward trench slope. Summit and forearc basins formed as a consequence of plate-boundary coupling and the application of compressional and right-lateral shear stresses to the arc massif. Basins typically evolved along shear zones in response to transtensional processes, and as trailing-edge grabens behind rotating blocks of arc massif. In the late Cenozoic, high rates of trench sedimentation led to the growth of an accretionary complex that underthrust forearc basement. Wedging and improved plate coupling elevated and laterally shifted blocks of outer forearc rocks, creating much of the structural framework of the regionally extensive Aleutian Terrace forearc basin. Changes in plate-boundary conditions that affected the ridge's volcanic activity and regional elevation importantly influenced basinal sedimentation. Changes of greatest significance were a major shift in convergence direction and rate about 42 Ma (reduced volcanism), ridge underthrusting by increasingly younger ocean crust in Oligocene and Miocene time (arc elevation), and the combination of more orthogonal underthrusting and the subduction of a dead spreading center 5-10 Ma (arc subsidence).

  9. Structural and stratigraphic analysis of the Dinaride thrust belt; A frontier exploration province in central-Southern Europe

    SciTech Connect

    Tasker, D.R.; Weir, G.M.; Dale, R.C. )

    1993-09-01

    The Dinarides are a 200-300-km-wide southwest vergent fold and thrust belt extending along the eastern margin of the Adriatic Sea. The complex and varied structural and stratigraphic relationships can be used to define three major tectonic units: the internal, central, and external Dinarides. In the Internal Dinarides, platform sequences deposited in the Early and Middle Triassic underwent rapid subsidence and drowning in the Late Triassic and Early Jurassic along with rifting and subsequent formation of oceanic crust. Melange and flysch were deposited during the late Jurassic through Cretaceous as the developing thrust belt encroached upon the northeastern margin of the Dinaride carbonate platform. The Dinaride carbonate platform forms the cores of the central and external Dinarides and is composed primarily of Permian-Triassic clastics and evaporites overlain by Middle Triassic through early Eocene platform carbonates. The entire sequence is overlain by late Eocene and early Oligocene synorogenic flysch. In the central Dinarides, late Jurassic and Early Cretaceous unconformities suggest structural uplift prior to the onset of thrusting. Deformation involves Paleozoic basement and includes a major decollement in the Permian Triassic clastic and evaporite unit. Thrusting in the external Dinarides occurred in the late Eocene-early Oligocene and is restricted to Middle Triassic and younger units with major detachments forming near the base of the Ladinian and within a Late Jurassic-Early Cretaceous evaporite. Important oil source and seal lithofacies occur within intraplatform basins and lagoons in the Mesozoic sequences of the central and external Dinarides. Widespread dolomitized units within the Mesozoic carbonate sequence are potential reservoir zones. The presence of surface hydrocarbon seeps and of existing production on trend to the Dinarides in the thrust belt of Italy and Albania suggest the potential for hydrocarbon discoveries in this underexplored area.

  10. Aeolian sedimentary processes at the Bagnold Dunes, Mars: Implications for modern dune dynamics and sedimentary structures in the aeolian stratigraphic record of Mars

    NASA Astrophysics Data System (ADS)

    Ewing, Ryan C.; Bridges, Nathan T.; Sullivan, Rob; Lapotre, Mathieu G. A.; Fischer, Woodward W.; Lamb, Mike P.; Rubin, David M.; Lewis, Kevin W.; Gupta, Sanjeev

    2016-04-01

    Wind-blown sand dunes are ubiquitous on the surface of Mars and are a recognized component of the martian stratigraphic record. Our current knowledge of the aeolian sedimentary processes that determine dune morphology, drive dune dynamics, and create aeolian cross-stratification are based upon orbital studies of ripple and dune morphodynamics, rover observations of stratification on Mars, Earth analogs, and experimental and theoretical studies of sand movement under Martian conditions. In-situ observations of sand dunes (informally called the Bagnold Dunes) by Curiosity Rover in Gale Crater, Mars provide the first opportunity to make observations of dunes from the grain-to-dune scale thereby filling the gap in knowledge between theory and orbital observations and refining our understanding of the martian aeolian stratigraphic record. We use the suite of cameras on Curiosity, including Navigation Camera (Navcam), Mast Camera (Mastcam) and Mars Hand Lens Imager (MAHLI), to make observations of the Bagnold Dunes. Measurements of sedimentary structures are made where stereo images are available. Observations indicate that structures generated by gravity-driven processes on the dune lee slopes, such as grainflow and grainfall, are similar to the suite of aeolian sedimentary structures observed on Earth and should be present and recognizable in Mars' aeolian stratigraphic record. Structures formed by traction-driven processes deviate significantly from those found on Earth. The dune hosts centimeter-scale wind ripples and large, meter-scale ripples, which are not found on Earth. The large ripples migrate across the depositional, lee slopes of the dune, which implies that these structures should be present in Mars' stratigraphic record and may appear similar to compound-dune stratification.The Mars Science Laboratory Curiosity Rover Team is acknowledged for their support of this work.

  11. Structural and stratigraphic framework and spatial distribution of permeability of the Atlantic coastal plain, North Carolina to New York

    USGS Publications Warehouse

    Brown, Philip Monroe; Miller, James A.; Swain, Frederick Morrill

    1972-01-01

    This report describes and interprets the results of a detailed subsurface mapping program undertaken in that part of the Atlantic Coastal Plain which extends from the South Carolina and North Carolina border through Long Island, N.Y. Data obtained from more than 2,200 wells are analyzed. Seventeen chronostratigraphic units are mapped in the subsurface. They range in age from Jurassic(?) to post-Miocene. The purpose of the mapping program was to determine the external and internal geometry of mappable chronostratigraphic units and to derive and construct a permeability-distribution network for each unit based upon contrasts in the textures and compositions of its contained sediments. The report contains a structure map and a combined isopach, lithofacies, and permeability-distribution map for each of the chronostratigraphic units delineated in the subsurface. In addition, it contains a map of the top of the basement surface. These maps, together with 36 stratigraphic cross sections, present a three-dimensional view of the regional subsurface hydrogeology. They provide focal points of reference for a discussion of regional tectonics, structure, stratigraphy, and permeability distribution. Taken together and in chronologic sequence, the maps constitute a detailed sedimentary model, the first such model to be constructed for the middle Atlantic Coastal Plain. The chronostratigraphic units mapped record a structural history dominated by lateral and vertical movement along a system of intersecting hinge zones. Taphrogeny, related to transcurrent faulting, is the dominant type of deformation that controlled the geometry of the sedimentary model. Twelve of the seventeen chronostratigraphic units mapped have depositional alinements and thickening trends that are independent of the present-day configuration of the underlying basement surface. These 12 units, classified as genetically unrooted units, are assigned to a first-order tectonic stage. A structural model is proposed

  12. Automating the determination of 3D protein structure

    SciTech Connect

    Rayl, K.D.

    1993-12-31

    The creation of an automated method for determining 3D protein structure would be invaluable to the field of biology and presents an interesting challenge to computer science. Unfortunately, given the current level of protein knowledge, a completely automated solution method is not yet feasible, therefore, our group has decided to integrate existing databases and theories to create a software system that assists X-ray crystallographers in specifying a particular protein structure. By breaking the problem of determining overall protein structure into small subproblems, we hope to come closer to solving a novel structure by solving each component. By generating necessary information for structure determination, this method provides the first step toward designing a program to determine protein conformation automatically.

  13. Structural and stratigraphic evolution of the central Mississippi Canyon area: Interaction of salt tectonics and slope processes in the formation of engineering and geologic hazards

    NASA Astrophysics Data System (ADS)

    Brand, John Richard

    Approximately 720 square miles of digital 3-dimensional seismic data covering the eastern Mississippi Canyon area, Gulf of Mexico, continental shelf was used to examine the structural and stratigraphic evolution of the geology in the study area. The analysis focused on salt tectonics and sequence stratigraphy to develop a geologic model for the study area and its potential impact on engineering and geologic hazards. Salt in the study area was found to be established structural end-members derived from shallow-emplaced salt sheets. The transition from regional to local salt tectonics was identified through structural deformation of the stratigraphic section on the seismic data and occurred no later than ˜450,000 years ago. From ˜450,000 years to present, slope depositional processes have become the dominant geologic process in the study area. Six stratigraphic sequences (I-VI) were identified in the study area and found to correlate with sequences previously defined for the Eastern Mississippi Fan. Condensed sections were the key to the correlation. The sequence stratigraphy for the Eastern Mississippi Fan can be extended ˜28 miles west, adding another ˜720 square miles to the interpreted Fan. A previously defined channel within the Eastern Fan was identified in the study area and extended the channel ˜28 miles west. Previous work on the Eastern Fan identified the source of the Fan to be the Mobile River; however, extending the channel west suggests the sediment source to be from the Mississippi River, not the Mobile River. Further evidence for this was found in ponded turbidites whose source has been previously established as the Mississippi River. Ages of the stratigraphic sequences were compared to changes in eustatic sea level. The formation stratigraphic sequences appear decoupled from sea level change with "pseudo-highstands" forming condensed sections during pronounced Pleistocene sea level lowstands. Miocene and Pleistocene depositional analogues

  14. Automated detection and location of structural degradation

    SciTech Connect

    Damiano, B.; Blakeman, E.D.; Phillips, L.D.

    1997-03-01

    The investigation of a diagnostic method for detecting and locating the source of structural degradation in mechanical systems is described in this paper. The diagnostic method uses a mathematical model of the mechanical system to define relationships between system parameters, such as spring rates and damping rates, and measurable spectral features, such as natural frequencies and mode shapes. These model-defined relationships are incorporated into a neural network, which is used to relate measured spectral features to system parameters. The diagnosis of the system`s condition is performed by presenting the neural network with measured spectral features and comparing the system parameters estimated by the neural network to previously estimated values. Changes in the estimated system parameters indicate the location and severity of degradation in the mechanical system. The investigation applied the method by using computer-simulated data and data collected form a bench-top mechanical system. The effects of neural network training set size and composition on the accuracy of the model parameter estimates were investigated by using computer simulated data. The results show that diagnostic method can be applied to successfully locate and estimate the magnitude of structural changes in a mechanical system. The average error in the estimated spring rate values of the bench-top mechanical system was less than 10%. This degree of accuracy is sufficient to permit the use of this method for detecting and locating structural degradation in mechanical systems.

  15. Automated Localization of Multiple Pelvic Bone Structures on MRI.

    PubMed

    Onal, Sinan; Lai-Yuen, Susana; Bao, Paul; Weitzenfeld, Alfredo; Hart, Stuart

    2016-01-01

    In this paper, we present a fully automated localization method for multiple pelvic bone structures on magnetic resonance images (MRI). Pelvic bone structures are at present identified manually on MRI to locate reference points for measurement and evaluation of pelvic organ prolapse (POP). Given that this is a time-consuming and subjective procedure, there is a need to localize pelvic bone structures automatically. However, bone structures are not easily differentiable from soft tissue on MRI as their pixel intensities tend to be very similar. In this paper, we present a model that combines support vector machines and nonlinear regression capturing global and local information to automatically identify the bounding boxes of bone structures on MRI. The model identifies the location of the pelvic bone structures by establishing the association between their relative locations and using local information such as texture features. Results show that the proposed method is able to locate the bone structures of interest accurately (dice similarity index >0.75) in 87-91% of the images. This research aims to enable accurate, consistent, and fully automated localization of bone structures on MRI to facilitate and improve the diagnosis of health conditions such as female POP.

  16. Automated RNA 3D Structure Prediction with RNAComposer.

    PubMed

    Biesiada, Marcin; Purzycka, Katarzyna J; Szachniuk, Marta; Blazewicz, Jacek; Adamiak, Ryszard W

    2016-01-01

    RNAs adopt specific structures to perform their activities and these are critical to virtually all RNA-mediated processes. Because of difficulties in experimentally assessing structures of large RNAs using NMR, X-ray crystallography, or cryo-microscopy, there is currently great demand for new high-resolution 3D structure prediction methods. Recently we reported on RNAComposer, a knowledge-based method for the fully automated RNA 3D structure prediction from a user-defined secondary structure. RNAComposer method is especially suited for structural biology users. Since our initial report in 2012, both servers, freely available at http://rnacomposer.ibch.poznan.pl and http://rnacomposer.cs.put.poznan.pl have been often visited. Therefore this chapter provides guidance for using RNAComposer and discusses points that should be considered when predicting 3D RNA structure. An application example presents current scope and limitations of RNAComposer. PMID:27665601

  17. Automated assembly of a tetrahedral truss structure using machine vision

    NASA Technical Reports Server (NTRS)

    Doggett, William R.

    1992-01-01

    The Automated Structures Assembly Laboratory is a unique facility at NASA Langley Research Center used to investigate the robotic assembly of truss structures. Two special-purpose end-effectors have been used to assemble 102 truss members and 12 panels into an 8-meter diameter structure. One end-effector is dedicated to truss member insertion, while a second end-effector is used to install panels. Until recently, the robot motions required to construct the structure were developed iteratively using the facility hardware. Recent work at Langley has resulted in a compact machine vision system capable of providing position information relative to targets on the structure. Use of the vision system to guide the robot from an approach point 10 to 18 inches from the structure, offsetting model inaccuracies, permits robot motion based on calculated points as a first step toward use of preplanned paths from an automated path planner. This paper presents recent work at Langley highlighting the application of the machine vision system during truss member insertion.

  18. Automated Low-Cost Photogrammetry for Flexible Structure Monitoring

    NASA Astrophysics Data System (ADS)

    Wang, C. H.; Mills, J. P.; Miller, P. E.

    2012-07-01

    Structural monitoring requires instruments which can provide high precision and accuracy, reliable measurements at good temporal resolution and rapid processing speeds. Long-term campaigns and flexible structures are regarded as two of the most challenging subjects in monitoring engineering structures. Long-term monitoring in civil engineering is generally considered to be labourintensive and financially expensive and it can take significant effort to arrange the necessary human resources, transportation and equipment maintenance. When dealing with flexible structure monitoring, it is of paramount importance that any monitoring equipment used is able to carry out rapid sampling. Low cost, automated, photogrammetric techniques therefore have the potential to become routinely viable for monitoring non-rigid structures. This research aims to provide a photogrammetric solution for long-term flexible structural monitoring purposes. The automated approach was achieved using low-cost imaging devices (mobile phones) to replace traditional image acquisition stations and substantially reduce the equipment costs. A self-programmed software package was developed to deal with the hardware-software integration and system operation. In order to evaluate the performance of this low-cost monitoring system, a shaking table experiment was undertaken. Different network configurations and target sizes were used to determine the best configuration. A large quantity of image data was captured by four DSLR cameras and four mobile phone cameras respectively. These image data were processed using photogrammetric techniques to calculate the final results for the system evaluation.

  19. Automated analysis of fundamental features of brain structures.

    PubMed

    Lancaster, Jack L; McKay, D Reese; Cykowski, Matthew D; Martinez, Michael J; Tan, Xi; Valaparla, Sunil; Zhang, Yi; Fox, Peter T

    2011-12-01

    Automated image analysis of the brain should include measures of fundamental structural features such as size and shape. We used principal axes (P-A) measurements to measure overall size and shape of brain structures segmented from MR brain images. The rationale was that quantitative volumetric studies of brain structures would benefit from shape standardization as had been shown for whole brain studies. P-A analysis software was extended to include controls for variability in position and orientation to support individual structure spatial normalization (ISSN). The rationale was that ISSN would provide a bias-free means to remove elementary sources of a structure's spatial variability in preparation for more detailed analyses. We studied nine brain structures (whole brain, cerebral hemispheres, cerebellum, brainstem, caudate, putamen, hippocampus, inferior frontal gyrus, and precuneus) from the 40-brain LPBA40 atlas. This paper provides the first report of anatomical positions and principal axes orientations within a standard reference frame, in addition to "shape/size related" principal axes measures, for the nine brain structures from the LPBA40 atlas. Analysis showed that overall size (mean volume) for internal brain structures was preserved using shape standardization while variance was reduced by more than 50%. Shape standardization provides increased statistical power for between-group volumetric studies of brain structures compared to volumetric studies that control only for whole brain size. To test ISSN's ability to control for spatial variability of brain structures we evaluated the overlap of 40 regions of interest (ROIs) in a standard reference frame for the nine different brain structures before and after processing. Standardizations of orientation or shape were ineffective when not combined with position standardization. The greatest reduction in spatial variability was seen for combined standardizations of position, orientation and shape. These

  20. A telerobotic system for automated assembly of large space structures

    NASA Technical Reports Server (NTRS)

    Rhodes, Marvin D.; Will, Ralph W.; Wise, Marion A.

    1990-01-01

    Future space missions such as polar platforms and antennas are anticipated to require large truss structures as their primary support system. During the past several years considerable research has been conducted to develop hardware and construction techniques suitable for astronaut assembly of truss structures in space. A research program has recently been initiated to develop the technology and to demonstrate the potential for automated in-space assembly of large erectable structures. The initial effort will be focused on automated assembly of a tetrahedral truss composed of 2-meter members. The facility is designed as a ground based system to permit evaluation of assembly concepts and was not designed for space qualification. The system is intended to be used as a tool from which more sophisticated procedures and operations can be developed. The facility description includes a truss structure, motionbases and a robot arm equipped with an end effector. Other considerations and requirements of the structural assembly describe computer control systems to monitor and control the operations of the assembly facility.

  1. A telerobotic system for automated assembly of large space structures

    NASA Technical Reports Server (NTRS)

    Rhodes, Marvin D.; Will, Ralph W.; Wise, Marion A.

    1989-01-01

    Future space missions such as polar platforms and antennas are anticipated to require large truss structures as their primary support system. During the past several years considerable research has been conducted to develop hardware and construction techniques suitable for astronaut assembly of truss structures in space. A research program has recently been initiated to develop the technology and to demonstrate the potential for automated in-space assembly of large erectable structures. The initial effort will be focussed on automated assembly of a tetrahedral truss composed of 2-meter members. The facility is designed as a ground based system to permit evaluation of assembly concepts and was not designed for space qualification. The system is intended to be used as a tool from which more sophisticated procedures and operations can be developed. The facility description includes a truss structure, motionbases and a robot arm equipped with an end effector. Other considerations and requirements of the structural assembly describe computer control systems to monitor and control the operations of the assembly facility.

  2. Seismically induced soft-sediment deformation structures in the Palaeogene deposits of the Liaodong Bay Depression in the Bohai Bay basin and their spatial stratigraphic distribution

    NASA Astrophysics Data System (ADS)

    Liu, Lei; Zhong, Yijiang; Chen, Hongde; Xu, Changgui; Wu, Kui

    2016-08-01

    Soft-sediment deformation structures (SSDS) have been identified from well cores in the Palaeogene deposits of the Liaodong Bay Depression in the Bohai Bay basin, China. These deposits formed as interbedded sand and mud at a delta front or on the slope toe of the prodelta. According to criteria proposed by previous research, we established that these SSDS were induced by earthquakes and that they can be divided into two groups: ductile deformation structures (plastic intrusions, ball-and-pillow structures, flame structures, boudinage structures, irregular convolute stratifications, and synsedimentary faults and folds) and brittle deformation structures (sand dykes and autoclastic breccias). Based on their level of deformation, size, and complexity, the SSDS were divided into three Groups, from weak to strong, to reflect the intensity of palaeo-earthquakes. With consideration of the palaeo-sedimentary environment, we proposed a model to account for the production and preservation of these SSDS. According to the classification adopted in this study and the spatial stratigraphic distribution of the SSDS, the tectonic activities of the Tan-Lu faults in the Bohai Bay basin were investigated. The A and B oilfields (assumed names) are located in the tectonically active zones of the west and east branches of these faults, respectively. The extension tectonic activities in the A oilfield region exhibit a sharply decreasing trend from E2s3 to E2s1, and increase again in E3d2; whereas the strike-slip tectonic activities in the B oilfield region exhibit an increasing trend from E2s3 to E2s1, and finally, reach a maximum to E3d3. The results of this study show that the method of analysis of the spatial stratigraphic distribution of SSDS is suitable for determining the evolution of tectonic activity and thus, it can provide a new perspective for basin analysis.

  3. Verification Test of Automated Robotic Assembly of Space Truss Structures

    NASA Technical Reports Server (NTRS)

    Rhodes, Marvin D.; Will, Ralph W.; Quach, Cuong C.

    1995-01-01

    A multidisciplinary program has been conducted at the Langley Research Center to develop operational procedures for supervised autonomous assembly of truss structures suitable for large-aperture antennas. The hardware and operations required to assemble a 102-member tetrahedral truss and attach 12 hexagonal panels were developed and evaluated. A brute-force automation approach was used to develop baseline assembly hardware and software techniques. However, as the system matured and operations were proven, upgrades were incorporated and assessed against the baseline test results. These upgrades included the use of distributed microprocessors to control dedicated end-effector operations, machine vision guidance for strut installation, and the use of an expert system-based executive-control program. This paper summarizes the developmental phases of the program, the results of several assembly tests, and a series of proposed enhancements. No problems that would preclude automated in-space assembly or truss structures have been encountered. The test system was developed at a breadboard level and continued development at an enhanced level is warranted.

  4. pmx: Automated protein structure and topology generation for alchemical perturbations.

    PubMed

    Gapsys, Vytautas; Michielssens, Servaas; Seeliger, Daniel; de Groot, Bert L

    2015-02-15

    Computational protein design requires methods to accurately estimate free energy changes in protein stability or binding upon an amino acid mutation. From the different approaches available, molecular dynamics-based alchemical free energy calculations are unique in their accuracy and solid theoretical basis. The challenge in using these methods lies in the need to generate hybrid structures and topologies representing two physical states of a system. A custom made hybrid topology may prove useful for a particular mutation of interest, however, a high throughput mutation analysis calls for a more general approach. In this work, we present an automated procedure to generate hybrid structures and topologies for the amino acid mutations in all commonly used force fields. The described software is compatible with the Gromacs simulation package. The mutation libraries are readily supported for five force fields, namely Amber99SB, Amber99SB*-ILDN, OPLS-AA/L, Charmm22*, and Charmm36. PMID:25487359

  5. Automated Glioblastoma Segmentation Based on a Multiparametric Structured Unsupervised Classification

    PubMed Central

    Juan-Albarracín, Javier; Fuster-Garcia, Elies; Manjón, José V.; Robles, Montserrat; Aparici, F.; Martí-Bonmatí, L.; García-Gómez, Juan M.

    2015-01-01

    Automatic brain tumour segmentation has become a key component for the future of brain tumour treatment. Currently, most of brain tumour segmentation approaches arise from the supervised learning standpoint, which requires a labelled training dataset from which to infer the models of the classes. The performance of these models is directly determined by the size and quality of the training corpus, whose retrieval becomes a tedious and time-consuming task. On the other hand, unsupervised approaches avoid these limitations but often do not reach comparable results than the supervised methods. In this sense, we propose an automated unsupervised method for brain tumour segmentation based on anatomical Magnetic Resonance (MR) images. Four unsupervised classification algorithms, grouped by their structured or non-structured condition, were evaluated within our pipeline. Considering the non-structured algorithms, we evaluated K-means, Fuzzy K-means and Gaussian Mixture Model (GMM), whereas as structured classification algorithms we evaluated Gaussian Hidden Markov Random Field (GHMRF). An automated postprocess based on a statistical approach supported by tissue probability maps is proposed to automatically identify the tumour classes after the segmentations. We evaluated our brain tumour segmentation method with the public BRAin Tumor Segmentation (BRATS) 2013 Test and Leaderboard datasets. Our approach based on the GMM model improves the results obtained by most of the supervised methods evaluated with the Leaderboard set and reaches the second position in the ranking. Our variant based on the GHMRF achieves the first position in the Test ranking of the unsupervised approaches and the seventh position in the general Test ranking, which confirms the method as a viable alternative for brain tumour segmentation. PMID:25978453

  6. Automated glioblastoma segmentation based on a multiparametric structured unsupervised classification.

    PubMed

    Juan-Albarracín, Javier; Fuster-Garcia, Elies; Manjón, José V; Robles, Montserrat; Aparici, F; Martí-Bonmatí, L; García-Gómez, Juan M

    2015-01-01

    Automatic brain tumour segmentation has become a key component for the future of brain tumour treatment. Currently, most of brain tumour segmentation approaches arise from the supervised learning standpoint, which requires a labelled training dataset from which to infer the models of the classes. The performance of these models is directly determined by the size and quality of the training corpus, whose retrieval becomes a tedious and time-consuming task. On the other hand, unsupervised approaches avoid these limitations but often do not reach comparable results than the supervised methods. In this sense, we propose an automated unsupervised method for brain tumour segmentation based on anatomical Magnetic Resonance (MR) images. Four unsupervised classification algorithms, grouped by their structured or non-structured condition, were evaluated within our pipeline. Considering the non-structured algorithms, we evaluated K-means, Fuzzy K-means and Gaussian Mixture Model (GMM), whereas as structured classification algorithms we evaluated Gaussian Hidden Markov Random Field (GHMRF). An automated postprocess based on a statistical approach supported by tissue probability maps is proposed to automatically identify the tumour classes after the segmentations. We evaluated our brain tumour segmentation method with the public BRAin Tumor Segmentation (BRATS) 2013 Test and Leaderboard datasets. Our approach based on the GMM model improves the results obtained by most of the supervised methods evaluated with the Leaderboard set and reaches the second position in the ranking. Our variant based on the GHMRF achieves the first position in the Test ranking of the unsupervised approaches and the seventh position in the general Test ranking, which confirms the method as a viable alternative for brain tumour segmentation. PMID:25978453

  7. Stratigraphic, structural and U-Pb geochronologic investigation of lower Paleozoic eugeoclinal strata in the Kootenay Arc, NE Washington and SE British Columbia

    SciTech Connect

    Smith, M.T.

    1990-01-01

    The Kootenay Arc in northwestern Washington and southeastern British Columbia is transitional between: (1) lower Paleozoic autochthonous miogeoclinal strata and Paleozoic to Mesozoic eugeoclinal terranes of uncertain paleogeographic affinity (e.g., the Quesnel terrane); and (2) areas where Devono-Mississippian tectonism was of a compressional nature, and areas in northern British Columbia and southern Yukon Territory where coeval deformation was evidently of an extensional nature. Stratigraphic, structural, and U-Pb geochronologic studies focussed primarily on portions of the Lardeau Group in the Trout Lake area in the northern Kootenay Arc and the Covada Group in the southern Kootenay Arc. As a result of these studies, the following concepts are proposed: (1) lower Paleozoic eugeoclinal strata can be correlated along the length of the Arc; (2) these strata are in fault contact with miogeoclinal strata along the length of the Arc; (3) a contractional event of pre-Mississippian and perhaps Devono-Mississippian age is recorded in the Kootenay Arc; (4) despite faulted contacts, the eugeoclinal strata are parautochthonous and derived from adjacent portions of North America; and (5) structures and stratigraphy in the Kootenay Arc are broadly correlative with those in the Roberts Mountains allochthon in central Nevada. Two important implications of this study are that: (1) through a series of stratigraphic linkages it can be demonstrated that the Quesnel terrane, a Mesozoic arc-related assemblage often regarded on the basis of faunal evidence to be exotic, is parautochthonous; and (2) the Antler Orogeny, often regarded as a localized disturbance, affected at least 1,200 km of the Cordilleran margin, and perhaps the entire Cordilleran margin.

  8. Teaching with Stratigraphic Profiles

    ERIC Educational Resources Information Center

    Stefanich, Greg P.

    1974-01-01

    Presents two exercises modeled after the ice age puzzle described in the ESCP textbook, including formation of terminal moraines and kettle lakes and intersection of normal faults with gold-quartz veins. Indicates that the stratigraphic profiles are usable in teaching earth science, geography, general science, and topographic problems. (CC)

  9. Automated optimum design of wing structures. Deterministic and probabilistic approaches

    NASA Technical Reports Server (NTRS)

    Rao, S. S.

    1982-01-01

    The automated optimum design of airplane wing structures subjected to multiple behavior constraints is described. The structural mass of the wing is considered the objective function. The maximum stress, wing tip deflection, root angle of attack, and flutter velocity during the pull up maneuver (static load), the natural frequencies of the wing structure, and the stresses induced in the wing structure due to landing and gust loads are suitably constrained. Both deterministic and probabilistic approaches are used for finding the stresses induced in the airplane wing structure due to landing and gust loads. A wing design is represented by a uniform beam with a cross section in the form of a hollow symmetric double wedge. The airfoil thickness and chord length are the design variables, and a graphical procedure is used to find the optimum solutions. A supersonic wing design is represented by finite elements. The thicknesses of the skin and the web and the cross sectional areas of the flanges are the design variables, and nonlinear programming techniques are used to find the optimum solution.

  10. Semi-Automated Discovery of Application Session Structure

    SciTech Connect

    Kannan, J.; Jung, J.; Paxson, V.; Koksal, C.

    2006-09-07

    While the problem of analyzing network traffic at the granularity of individual connections has seen considerable previous work and tool development, understanding traffic at a higher level---the structure of user-initiated sessions comprised of groups of related connections---remains much less explored. Some types of session structure, such as the coupling between an FTP control connection and the data connections it spawns, have prespecified forms, though the specifications do not guarantee how the forms appear in practice. Other types of sessions, such as a user reading email with a browser, only manifest empirically. Still other sessions might exist without us even knowing of their presence, such as a botnet zombie receiving instructions from its master and proceeding in turn to carry them out. We present algorithms rooted in the statistics of Poisson processes that can mine a large corpus of network connection logs to extract the apparent structure of application sessions embedded in the connections. Our methods are semi-automated in that we aim to present an analyst with high-quality information (expressed as regular expressions) reflecting different possible abstractions of an application's session structure. We develop and test our methods using traces from a large Internet site, finding diversity in the number of applications that manifest, their different session structures, and the presence of abnormal behavior. Our work has applications to traffic characterization and monitoring, source models for synthesizing network traffic, and anomaly detection.

  11. An automated method for the analysis of trabecular bone structure.

    PubMed

    Aaron, J E; Johnson, D R; Kanis, J A; Oakley, B A; O'Higgins, P; Paxton, S K

    1992-02-01

    Trabecular structure as well as bone mass is important in studies of bone disease and fracture. An automated method for the direct analysis of two-dimensional trabecular micro-anatomy and its application to human iliac crest bone biopsies is described. Compared with established methods which require expensive equipment and complex software, costs have been reduced and availability increased by using an image analyzer driven by a microcomputer. Routine histological sections are accepted and an editing function enables the removal of artifacts. An elastic window allows field expansion for large specimens. The program enables the rapid assessment of the bone volume and trabecular surface from the intact image, followed by image skeletonization and the deduction of the trabecular length, number, character, and spacing together with the number of trabecular junctions and discontinuities; the trabecular width is calculated indirectly. Images may be stored to disk or printed as permanent records for diagnostic or research purposes.

  12. An automated approach to network features of protein structure ensembles.

    PubMed

    Bhattacharyya, Moitrayee; Bhat, Chanda R; Vishveshwara, Saraswathi

    2013-10-01

    Network theory applied to protein structures provides insights into numerous problems of biological relevance. The explosion in structural data available from PDB and simulations establishes a need to introduce a standalone-efficient program that assembles network concepts/parameters under one hood in an automated manner. Herein, we discuss the development/application of an exhaustive, user-friendly, standalone program package named PSN-Ensemble, which can handle structural ensembles generated through molecular dynamics (MD) simulation/NMR studies or from multiple X-ray structures. The novelty in network construction lies in the explicit consideration of side-chain interactions among amino acids. The program evaluates network parameters dealing with topological organization and long-range allosteric communication. The introduction of a flexible weighing scheme in terms of residue pairwise cross-correlation/interaction energy in PSN-Ensemble brings in dynamical/chemical knowledge into the network representation. Also, the results are mapped on a graphical display of the structure, allowing an easy access of network analysis to a general biological community. The potential of PSN-Ensemble toward examining structural ensemble is exemplified using MD trajectories of an ubiquitin-conjugating enzyme (UbcH5b). Furthermore, insights derived from network parameters evaluated using PSN-Ensemble for single-static structures of active/inactive states of β2-adrenergic receptor and the ternary tRNA complexes of tyrosyl tRNA synthetases (from organisms across kingdoms) are discussed. PSN-Ensemble is freely available from http://vishgraph.mbu.iisc.ernet.in/PSN-Ensemble/psn_index.html.

  13. Automated segmentation of tissue structures in optical coherence tomography data.

    PubMed

    Gasca, Fernando; Ramrath, Lukas; Huettmann, Gereon; Schweikard, Achim

    2009-01-01

    Segmentation of optical coherence tomography (OCT) images provides useful information, especially in medical imaging applications. Because OCT images are subject to speckle noise, the identification of structures is complicated. Addressing this issue, two methods for the automated segmentation of arbitrary structures in OCT images are proposed. The methods perform a seeded region growing, applying a model-based analysis of OCT A-scans for the seed's acquisition. The segmentation therefore avoids any user-intervention dependency. The first region-growing algorithm uses an adaptive neighborhood homogeneity criterion based on a model of an OCT intensity course in tissue and a model of speckle noise corruption. It can be applied to an unfiltered OCT image. The second performs region growing on a filtered OCT image applying the local median as a measure for homogeneity in the region. Performance is compared through the quantitative evaluation of artificial data, showing the capabilities of both in terms of structures detected and leakage. The proposed methods were tested on real OCT data in different scenarios and showed promising results for their application in OCT imaging.

  14. Development of a machine vision system for automated structural assembly

    NASA Technical Reports Server (NTRS)

    Sydow, P. Daniel; Cooper, Eric G.

    1992-01-01

    Research is being conducted at the LaRC to develop a telerobotic assembly system designed to construct large space truss structures. This research program was initiated within the past several years, and a ground-based test-bed was developed to evaluate and expand the state of the art. Test-bed operations currently use predetermined ('taught') points for truss structural assembly. Total dependence on the use of taught points for joint receptacle capture and strut installation is neither robust nor reliable enough for space operations. Therefore, a machine vision sensor guidance system is being developed to locate and guide the robot to a passive target mounted on the truss joint receptacle. The vision system hardware includes a miniature video camera, passive targets mounted on the joint receptacles, target illumination hardware, and an image processing system. Discrimination of the target from background clutter is accomplished through standard digital processing techniques. Once the target is identified, a pose estimation algorithm is invoked to determine the location, in three-dimensional space, of the target relative to the robots end-effector. Preliminary test results of the vision system in the Automated Structural Assembly Laboratory with a range of lighting and background conditions indicate that it is fully capable of successfully identifying joint receptacle targets throughout the required operational range. Controlled optical bench test results indicate that the system can also provide the pose estimation accuracy to define the target position.

  15. Automated identification of elemental ions in macromolecular crystal structures

    SciTech Connect

    Echols, Nathaniel Morshed, Nader; Afonine, Pavel V.; McCoy, Airlie J.; Read, Randy J.; Terwilliger, Thomas C.; Adams, Paul D.

    2014-04-01

    The solvent-picking procedure in phenix.refine has been extended and combined with Phaser anomalous substructure completion and analysis of coordination geometry to identify and place elemental ions. Many macromolecular model-building and refinement programs can automatically place solvent atoms in electron density at moderate-to-high resolution. This process frequently builds water molecules in place of elemental ions, the identification of which must be performed manually. The solvent-picking algorithms in phenix.refine have been extended to build common ions based on an analysis of the chemical environment as well as physical properties such as occupancy, B factor and anomalous scattering. The method is most effective for heavier elements such as calcium and zinc, for which a majority of sites can be placed with few false positives in a diverse test set of structures. At atomic resolution, it is observed that it can also be possible to identify tightly bound sodium and magnesium ions. A number of challenges that contribute to the difficulty of completely automating the process of structure completion are discussed.

  16. Regional tectonic implications of seismic reflection, gravity, structural, and stratigraphic data from New Appalachian Ultradeep Core Hole (ADCOH) site study

    SciTech Connect

    Hatcher, R.D.; Williams, R.T.; Costain, J.K.; Phinney, R.A.; Hopson, J.L.; Stieve, A.L.; Roy-Chowdhury, K.

    1986-05-01

    The Appalachian Ultradeep Core Hole (ADCOH) site study area is located in the eastern Blue Ridge Mountains and western Piedmont of the Carolinas and northeastern Georgia. The goal of the proposed project is an ultradeep core hole that would penetrate and prove the existence of the main detachment thrust of the Blue Ridge-Piedmont (BRP) thrust sheet. Intermediate objectives include study of higher level faults and rock units within the thrust sheet, as well as investigation of the Paleozoic platform cover and basement beneath the BRP thrust sheet. Site study data have revealed that the level of the main BRP detachment may have shallowed rapidly west of the Brevard fault zone, possibly bringing lower Paleozoic carbonate platform rocks to within 3-4 km of the surface near Hayesville, North Carolina, in a large duplex structure. If so, there are implications here and farther west for possible hydrocarbon accumulations. Duplex structure appears to be a dominant style of deformation both within and beneath the BRP thrust sheet. A recently discovered shear zone on the Tallulah Falls dome may represent an imbricate from one of the blind duplexes.

  17. Automated web service composition supporting conditional branch structures

    NASA Astrophysics Data System (ADS)

    Wang, Pengwei; Ding, Zhijun; Jiang, Changjun; Zhou, Mengchu

    2014-01-01

    The creation of value-added services by automatic composition of existing ones is gaining a significant momentum as the potential silver bullet in service-oriented architecture. However, service composition faces two aspects of difficulties. First, users' needs present such characteristics as diversity, uncertainty and personalisation; second, the existing services run in a real-world environment that is highly complex and dynamically changing. These difficulties may cause the emergence of nondeterministic choices in the process of service composition, which has gone beyond what the existing automated service composition techniques can handle. According to most of the existing methods, the process model of composite service includes sequence constructs only. This article presents a method to introduce conditional branch structures into the process model of composite service when needed, in order to satisfy users' diverse and personalised needs and adapt to the dynamic changes of real-world environment. UML activity diagrams are used to represent dependencies in composite service. Two types of user preferences are considered in this article, which have been ignored by the previous work and a simple programming language style expression is adopted to describe them. Two different algorithms are presented to deal with different situations. A real-life case is provided to illustrate the proposed concepts and methods.

  18. Software design for automated assembly of truss structures

    NASA Technical Reports Server (NTRS)

    Herstrom, Catherine L.; Grantham, Carolyn; Allen, Cheryl L.; Doggett, William R.; Will, Ralph W.

    1992-01-01

    Concern over the limited intravehicular activity time has increased the interest in performing in-space assembly and construction operations with automated robotic systems. A technique being considered at LaRC is a supervised-autonomy approach, which can be monitored by an Earth-based supervisor that intervenes only when the automated system encounters a problem. A test-bed to support evaluation of the hardware and software requirements for supervised-autonomy assembly methods was developed. This report describes the design of the software system necessary to support the assembly process. The software is hierarchical and supports both automated assembly operations and supervisor error-recovery procedures, including the capability to pause and reverse any operation. The software design serves as a model for the development of software for more sophisticated automated systems and as a test-bed for evaluation of new concepts and hardware components.

  19. Automated alignment of serial thoracic scans using bone structure descriptors

    NASA Astrophysics Data System (ADS)

    Gavrielides, Marios A.; Petrick, Nicholas; Myers, Kyle J.

    2007-03-01

    In this manuscript we present an automated algorithm for the alignment of thoracic scans using descriptors of bone structures. Bone structures were utilized because they are expected to be less susceptible to sources of errors such as patient positioning and breath hold. The algorithm employed the positioning of ribs relative to the spinal cord along with a description of the scapula. The spinal cord centroid was detected by extracting local maxima of the distance transform followed by point tracing along consecutive slices. Ribs were segmented using adaptive thresholding followed by the watershed algorithm to detach ribs from the vertebra, and by imposing requirements of rib proximity to the lung border. The angles formed between the spinal cord centroid and segmented rib centroids were used to describe rib positioning. Additionally, the length of the scapula was extracted in each slice. A cost function incorporating the difference of features from rib positioning and scapula length between two slices was derived and used to match slices. The method was evaluated on a set of 12 pairs of full and partial CT scans acquired on the same day. Evaluation was based on whether the slices showing a nodule at its maximum diameter in each scan were matched. Full-to-partial and partial-to-full alignment were performed. Results showed that the proposed metric matched nodule slices within an average distance of 1.08 and 1.17 slices from the target for full-to-partial and partial-to-full alignment respectively. These preliminary results are encouraging for using this method as a first step in an overall process of temporally analyzing CT lung nodules.

  20. Automated construction of lightweight, simple, field-erected structures

    NASA Technical Reports Server (NTRS)

    Leonard, R. S.

    1980-01-01

    The feasibility of automation of construction processes which could result in mobile construction robots is examined. The construction of a large photovoltaic power plant with a peak power output of 100 MW is demonstrated. The reasons to automate the construction process, a conventional construction scenario as the reference for evaluation, and a list of potential cost benefits using robots are presented. The technical feasibility of using robots to construct SPS ground stations is addressed.

  1. Ordovician and Silurian Phi Kappa and Trail Creek formations, Pioneer Mountains, central Idaho; stratigraphic and structural revisions, and new data on graptolite faunas

    USGS Publications Warehouse

    Dover, James H.; Berry, William B.N.; Ross, Reuben James

    1980-01-01

    Recent geologic mapping in the northern Pioneer Mountains combined with the identification of graptolites from 116 new collections indicate that the Ordovician and Silurian Phi Kappa and Trail Creek Formations occur in a series of thrust-bounded slices within a broad zone of imbricate thrust faulting. Though confirming a deformational style first reported in a 1963 study by Michael Churkin, our data suggest that the complexity and regional extent of the thrust zone were not previously recognized. Most previously published sections of the Phi Kappa and Trail Creek Formations were measured across unrecognized thrust faults and therefore include not only structural repetitions of graptolitic Ordovician and Silurian rocks but also other tectonically juxtaposed lithostratigraphic units of diverse ages as well. Because of this discovery, the need to reconsider the stratigraphic validity of these formations and their lithology, nomenclature, structural distribution, facies relations, and graptolite faunas has arisen. The Phi Kappa Formation in most thrust slices has internal stratigraphic continuity despite the intensity of deformation to which it was subjected. As revised herein, the Phi Kappa Formation is restricted to a structurally repeated succession of predominantly black, carbonaceous, graptolitic argillite and shale. Some limy, light-gray-weathering shale occurs in the middle part of the section, and fine-grained locally pebbly quartzite is present at the base. The basal quartzite is here named the Basin Gulch Quartzite Member of the Phi Kappa. The Phi Kappa redefined on a lithologic basis represents the span of Ordovician time from W. B. N. Berry's graptolite zones 2-4 through 15 and also includes approximately 17 m of lithologically identical shale of Early and Middle Silurian age at the top. The lower contact of the formation as revised is tectonic. The Phi Kappa is gradationally overlain by the Trail Creek Formation as restricted herein. Most of the coarser

  2. Automated Eukaryotic Gene Structure Annotation Using EVidenceModeler and the Program to Assemble Spliced Alignments

    SciTech Connect

    Haas, B J; Salzberg, S L; Zhu, W; Pertea, M; Allen, J E; Orvis, J; White, O; Buell, C R; Wortman, J R

    2007-12-10

    EVidenceModeler (EVM) is presented as an automated eukaryotic gene structure annotation tool that reports eukaryotic gene structures as a weighted consensus of all available evidence. EVM, when combined with the Program to Assemble Spliced Alignments (PASA), yields a comprehensive, configurable annotation system that predicts protein-coding genes and alternatively spliced isoforms. Our experiments on both rice and human genome sequences demonstrate that EVM produces automated gene structure annotation approaching the quality of manual curation.

  3. Stratigraphic response across a structurally dynamic shelf: The latest guadalupian composite sequence at Walnut Canyon, New Mexico, U.S.A

    USGS Publications Warehouse

    Rush, J.; Kerans, C.

    2010-01-01

    The uppermost Yates and Tansill formations (Late Permian), as exposed along Walnut Canyon in Carlsbad Caverns National Park, New Mexico, USA, provide a unique opportunity to document the depositional architecture of a progradational, oversteepened, and mechanically failure-prone carbonate platform. Detailed facies mapping permitted critical assessment of depositional processes operating along this structurally dynamic platform margin. At the shelf crest, thick (12 m), vertically stacked fenestral-pisolite-tepee complexes indicate a stable shoreline. Early lithification of sediments and extensive cementation fostered rapid vertical accretion and allowed the shelf crest to easily adjust to base-level oscillations by stepping landward, stepping seaward, or aggrading. This production imbalance-in combination with syndepositional brittle failure and down-to-the-basin tilting(< 5??)-generated 22 m of depositional relief as measured from nearly horizontal (< 2??) shelf-crest toplap to an outer-shelf downlap surface (< 1??). Mechanical failure of Capitan-equivalent back-reef strata is constrained by stratigraphic architecture, fracture properties, and a highly refined fusulinid biostratigraphic framework. Where fractures tip out, down-to-the-basin rotation is often observed with concurrent seaward thickening of overlying beds, indicating that such fractures functioned as a syndepositional hinge. A facies disjunction and horizontally juxtaposed fusulinid zonation were documented across an 80?? seaward-dipping dilational fracture filled with polymict breccia. An overlying damage zone consisting of spar-cemented fractures nested within silt-filled fractures illustrates periodic reactivation. Field relationships indicate that the dilational fracture approximates a paleoescarpment that resulted from catastrophic failure of the Capitan platform margin. Younger strata onlapped the paleoescarpment and gradually filled the reentrant. This mechanically compromised paleoescarpment

  4. Upward-Facies Transition Analysis in Interpretation of Stratigraphic Sequence Within the Wetumpka Impact Structure, a Cretaceous marine impact in Alabama, USA

    NASA Astrophysics Data System (ADS)

    King, D. T.; Petruny, L. W.; Neathery, T. L.

    2002-12-01

    During 1998, two core holes were drilled near the geographic center of the Wetumpka impact structure (32°, 31.2 min N; 86°, 10.4 min W), a 7.6 km diameter, Late Cretaceous complex impact structure located in Elmore County, Alabama. The core holes were located ~ 200 m apart and both penetrated ~ 200 m of unconsolidated material and rock. The structure-filling stratigraphy consists of two units. (1) A ~ 60 m-thick, unconsolidated, cross-stratified, red gravelly sand forms an upper (surficial) unit that comprises nearly all mappable terrain within Wetumpka's crystalline rim. (In some locales, this surficial unit contains mega-blocks of target rock several 100 m2 in area -- but not at the drill sites). (2) A ~ 140 m-thick lower unit of inter-bedded, impact-related lithologies, which are not exposed well at the surface. The order of lithologies in the lower unit differed between wells; and there were three main lithologies: (1) sandy breccia and sand units (most common); (2) impact breccias (containing shocked quartz in matrix); and (3) target rock blocks. The latter consisted of 1 to 10 m blocks of (a) schist or gneiss (i.e., deep crystalline basement) or (b) sedimentary strata (i.e., clayey sands and sandy clays of the Upper Cretaceous target layers -- Tuscaloosa Group, Eutaw Formation, and Mooreville Chalk). In order to understand better what the significance of the order of lithologies drilled in the two wells, we used a classical method for upward facies-transition analysis employed in sedimentary stratigraphy. The original method of R. C. Selley was used in this instance to help envision stratigraphic relationships among the structure-filling lithologies of the lower unit. This technique is a 'first-order Markov process' wherein 'the probability of the process being in a given state at a particular time may be deduced from knowledge of the immediately preceding state.' Upward facies-transition analysis applied to the lower unit's interbedded lithologies

  5. Automated frequency domain system identification of a large space structure

    NASA Technical Reports Server (NTRS)

    Yam, Y.; Bayard, D. S.; Hadaegh, F. Y.; Mettler, E.; Milman, M. H.

    1989-01-01

    This paper presents the development and experimental results of an automated on-orbit system identification method for large flexible spacecraft that yields estimated quantities to support on-line design and tuning of robust high performance control systems. The procedure consists of applying an input to the plant, obtaining an output, and then conducting nonparametric identification to yield the spectral estimate of the system transfer function. A parametric model is determined by curve fitting the spectral estimate to a rational transfer function. The identification method has been demonstrated experimentally on the Large Spacecraft Control Laboratory in JPL.

  6. Finite element based electrostatic-structural coupled analysis with automated mesh morphing

    SciTech Connect

    OWEN,STEVEN J.; ZHULIN,V.I.; OSTERGAARD,D.F.

    2000-02-29

    A co-simulation tool based on finite element principles has been developed to solve coupled electrostatic-structural problems. An automated mesh morphing algorithm has been employed to update the field mesh after structural deformation. The co-simulation tool has been successfully applied to the hysteric behavior of a MEMS switch.

  7. Sequence stratigraphic and sedimentologic significance of biogenic structures from a late Paleozoic marginal- to open-marine reservoir, Morrow Sandstone, subsurface of southwest Kansas, USA

    USGS Publications Warehouse

    Buatois, L.A.; Mangano, M.G.; Alissa, A.; Carr, T.R.

    2002-01-01

    Integrated ichnologic, sedimentologic, and stratigraphic studies of cores and well logs from Lower Pennsylvanian oil and gas reservoirs (lower Morrow Sandstone, southwest Kansas) allow distinction between fluvio-estuarine and open marine deposits in the Gentzler and Arroyo fields. The fluvio-estuarine facies assemblage is composed of both interfluve and valley-fill deposits, encompassing a variety of depositional environments such as fluvial channel, interfluve paleosol, bay head delta, estuary bay, restricted tidal flat, intertidal channel, and estuary mouth. Deposition in a brackish-water estuarine valley is supported by the presence of a low diversity, opportunistic, impoverished marine ichnofaunal assemblage dominated by infaunal structures, representing an example of a mixed, depauperate Cruziana and Skolithos ichnofacies. Overall distribution of ichnofossils along the estuarine valley was mainly controlled by the salinity gradient, with other parameters, such as oxygenation, substrate and energy, acting at a more local scale. The lower Morrow estuarine system displays the classical tripartite division of wave-dominated estuaries (i.e. seaward-marine sand plug, fine-grained central bay, and sandy landward zone), but tidal action is also recorded. The estuarine valley displays a northwest-southeast trend, draining to the open sea in the southeast. Recognition of valley-fill sandstones in the lower Morrow has implications for reservoir characterization. While the open marine model predicts a "layer-cake" style of facies distribution as a consequence of strandline shoreline progradation, identification of valley-fill sequences points to more compartmentalized reservoirs, due to the heterogeneity created by valley incision and subsequent infill. The open-marine facies assemblage comprises upper, middle, and lower shoreface; offshore transition; offshore; and shelf deposits. In contrast to the estuarine assemblage, open marine ichnofaunas are characterized by a

  8. Sequence stratigraphic and sedimentologic significance of biogenic structures from a late Paleozoic marginal- to open-marine reservoir, Morrow Sandstone, subsurface of southwest Kansas, USA

    NASA Astrophysics Data System (ADS)

    Buatois, Luis A.; Mángano, M. Gabriela; Alissa, Abdulrahman; Carr, Timothy R.

    2002-09-01

    Integrated ichnologic, sedimentologic, and stratigraphic studies of cores and well logs from Lower Pennsylvanian oil and gas reservoirs (lower Morrow Sandstone, southwest Kansas) allow distinction between fluvio-estuarine and open marine deposits in the Gentzler and Arroyo fields. The fluvio-estuarine facies assemblage is composed of both interfluve and valley-fill deposits, encompassing a variety of depositional environments such as fluvial channel, interfluve paleosol, bay head delta, estuary bay, restricted tidal flat, intertidal channel, and estuary mouth. Deposition in a brackish-water estuarine valley is supported by the presence of a low diversity, opportunistic, impoverished marine ichnofaunal assemblage dominated by infaunal structures, representing an example of a mixed, depauperate Cruziana and Skolithos ichnofacies. Overall distribution of ichnofossils along the estuarine valley was mainly controlled by the salinity gradient, with other parameters, such as oxygenation, substrate and energy, acting at a more local scale. The lower Morrow estuarine system displays the classical tripartite division of wave-dominated estuaries (i.e. seaward-marine sand plug, fine-grained central bay, and sandy landward zone), but tidal action is also recorded. The estuarine valley displays a northwest-southeast trend, draining to the open sea in the southeast. Recognition of valley-fill sandstones in the lower Morrow has implications for reservoir characterization. While the open marine model predicts a "layer-cake" style of facies distribution as a consequence of strandline shoreline progradation, identification of valley-fill sequences points to more compartmentalized reservoirs, due to the heterogeneity created by valley incision and subsequent infill. The open-marine facies assemblage comprises upper, middle, and lower shoreface; offshore transition; offshore; and shelf deposits. In contrast to the estuarine assemblage, open marine ichnofaunas are characterized by a

  9. Integration of seismic-reflection and well data to assess the potential impact of stratigraphic and structural features on sustainable water supply from the Floridan aquifer system, Broward County, Florida

    USGS Publications Warehouse

    Cunningham, Kevin J.

    2014-01-01

    The U.S. Geological Survey and Broward County water managers commenced a 3.5-year cooperative study in July 2012 to refine the geologic and hydrogeologic framework of the Floridan aquifer system (FAS) in Broward County. A lack of advanced stratigraphic knowledge of the physical system and structural geologic anomalies (faults and fractures originating from tectonics and karst-collapse structures) within the FAS pose a risk to the sustainable management of the resource. The principal objective of the study is to better define the regional stratigraphic and structural setting of the FAS in Broward County. The objective will be achieved through the acquisition, processing, and interpretation of new seismic-reflection data along several canals in Broward County. The interpretation includes integration of the new seismic-reflection data with existing seismic-reflection profiles along Hillsboro Canal in Broward County and within northeast Miami-Dade County, as well as with data from nearby FAS wellbores. The scope of the study includes mapping the geologic, hydrogeologic, and seismic-reflection framework of the FAS, and identifying stratigraphic and structural characteristics that could either facilitate or preclude the sustainable use of the FAS as an alternate water supply or a treated effluent repository. In addition, the investigation offers an opportunity to: (1) improve existing groundwater flow models, (2) enhance the understanding of the sensitivity of the groundwater system to well-field development and upconing of saline fluids, and (3) support site selection for future FAS projects, such as Class I wells that would inject treated effluent into the deep Boulder Zone.

  10. Guiding automated NMR structure determination using a global optimization metric, the NMR DP score.

    PubMed

    Huang, Yuanpeng Janet; Mao, Binchen; Xu, Fei; Montelione, Gaetano T

    2015-08-01

    ASDP is an automated NMR NOE assignment program. It uses a distinct bottom-up topology-constrained network anchoring approach for NOE interpretation, with 2D, 3D and/or 4D NOESY peak lists and resonance assignments as input, and generates unambiguous NOE constraints for iterative structure calculations. ASDP is designed to function interactively with various structure determination programs that use distance restraints to generate molecular models. In the CASD-NMR project, ASDP was tested and further developed using blinded NMR data, including resonance assignments, either raw or manually-curated (refined) NOESY peak list data, and in some cases (15)N-(1)H residual dipolar coupling data. In these blinded tests, in which the reference structure was not available until after structures were generated, the fully-automated ASDP program performed very well on all targets using both the raw and refined NOESY peak list data. Improvements of ASDP relative to its predecessor program for automated NOESY peak assignments, AutoStructure, were driven by challenges provided by these CASD-NMR data. These algorithmic improvements include (1) using a global metric of structural accuracy, the discriminating power score, for guiding model selection during the iterative NOE interpretation process, and (2) identifying incorrect NOESY cross peak assignments caused by errors in the NMR resonance assignment list. These improvements provide a more robust automated NOESY analysis program, ASDP, with the unique capability of being utilized with alternative structure generation and refinement programs including CYANA, CNS, and/or Rosetta. PMID:26081575

  11. Texture analysis for automated classification of geologic structures

    USGS Publications Warehouse

    Shankar, V.; Rodriguez, J.J.; Gettings, M.E.

    2006-01-01

    Texture present in aeromagnetic anomaly images offers an abundance of useful geological information for discriminating between rock types, but current analysis of such images still relies on tedious, human interpretation. This study is believed to be the first effort to quantitatively assess the performance of texture-based digital image analysis for this geophysical exploration application. We computed several texture measures and determined the best subset using automated feature selection techniques. Pattern classification experiments measured the ability of various texture measures to automatically predict rock types. The classification accuracy was significantly better than a priori probability and prior weights-of-evidence results. The accuracy rates and choice of texture measures that minimize the error rate are reported. ?? 2006 IEEE.

  12. Aircraft wing structural design optimization based on automated finite element modelling and ground structure approach

    NASA Astrophysics Data System (ADS)

    Yang, Weizhu; Yue, Zhufeng; Li, Lei; Wang, Peiyan

    2016-01-01

    An optimization procedure combining an automated finite element modelling (AFEM) technique with a ground structure approach (GSA) is proposed for structural layout and sizing design of aircraft wings. The AFEM technique, based on CATIA VBA scripting and PCL programming, is used to generate models automatically considering the arrangement of inner systems. GSA is used for local structural topology optimization. The design procedure is applied to a high-aspect-ratio wing. The arrangement of the integral fuel tank, landing gear and control surfaces is considered. For the landing gear region, a non-conventional initial structural layout is adopted. The positions of components, the number of ribs and local topology in the wing box and landing gear region are optimized to obtain a minimum structural weight. Constraints include tank volume, strength, buckling and aeroelastic parameters. The results show that the combined approach leads to a greater weight saving, i.e. 26.5%, compared with three additional optimizations based on individual design approaches.

  13. Development and verification testing of automation and robotics for assembly of space structures

    NASA Technical Reports Server (NTRS)

    Rhodes, Marvin D.; Will, Ralph W.; Quach, Cuong C.

    1993-01-01

    A program was initiated within the past several years to develop operational procedures for automated assembly of truss structures suitable for large-aperture antennas. The assembly operations require the use of a robotic manipulator and are based on the principle of supervised autonomy to minimize crew resources. A hardware testbed was established to support development and evaluation testing. A brute-force automation approach was used to develop the baseline assembly hardware and software techniques. As the system matured and an operation was proven, upgrades were incorprated and assessed against the baseline test results. This paper summarizes the developmental phases of the program, the results of several assembly tests, the current status, and a series of proposed developments for additional hardware and software control capability. No problems that would preclude automated in-space assembly of truss structures have been encountered. The current system was developed at a breadboard level and continued development at an enhanced level is warranted.

  14. Formation of hyperextended rifted margins: Insights from flexural isostatic structural-stratigraphic modeling and observations from present-day rifted margins

    NASA Astrophysics Data System (ADS)

    Mohn, Geoffroy; Kusznir, Nick; Manatschal, Gianreto

    2014-05-01

    The understanding of how continental lithosphere extends, thins and ruptures leading to the formation of a new divergent plate boundary represent a fundamental question in Earth Sciences. In particular the mechanisms controlling the extreme pre-breakup stretching and thinning of the continental crust and lithosphere, documented at many present-day rifted margins, are still poorly known. Many questions remain of the fundamental processes controlling the extensional deformation of the continental crust and lithosphere, including fault geometries and their evolution in space and time, the occurrence of decoupling horizons within the continental crust and the importance of depth-dependent lithosphere thinning processes. We investigate the control of these key factors on continental crust and lithosphere thinning processes by combining seismic reflection and drill-hole observations from present-day Iberia-Newfoundland rifted margins with flexural isostatic forward tectonic and stratigraphic modeling. These observations made at present-day rifted margins constrain the input parameters used in the flexural isostatic forward modeling. At the same time, the forward tectonic and stratigraphic modeling provides validation of the interpretation of the seismic reflection data. Through this modeling, we produce isostatically and thermally balanced sections reproducing the geometries observed along the Iberia-Newfoundland rifted margins. Our results suggest that crustal and lithospheric thinning results from the combination of both pure- and simple-shear deformation. The model predicts the critical role of intra-crustal decoupling horizons confirming the importance of depth-dependent thinning through polyphased rifting events.

  15. About the automated pattern creation of 3D jacquard double needle bed warp knitted structures

    NASA Astrophysics Data System (ADS)

    Renkens, W.; Kyosev, Y.

    2016-07-01

    Three dimensional structures can be produced on jacquard warp knitting machines with double needle bed. This work presents theoretical considerations about the modelling and simulation of these structures. After that a method is described, how to obtain production parameters from the simulation data. The analysis demonstrates, that the automated pattern creation of 3D structures is not always possible and not all mathematical solutions of the problem can be knittable.

  16. Automated discovery of active motifs in multiple RNA secondary structures

    SciTech Connect

    Wang, J.T.L.; Chang, Chia-Yo; Shapiro, B.A.

    1996-12-31

    In this paper we present a method for discovering approximately common motifs (also known as active motifs) in multiple RNA secondary structures. The secondary structures can be represented as ordered trees (i.e., the order among siblings matters). Motifs in these trees are connected subgraphs that can differ in both substitutions and deletions/insertions. The proposed method consists of two steps: (1) find candidate motifs in a small sample of the secondary structures; (2) search all of the secondary structures to determine how frequently these motifs occur (within the allowed approximation) in the secondary structures. To reduce the running time, we develop two optimization heuristics based on sampling and pattern matching techniques. Experimental results obtained by running these algorithms on both generated data and RNA secondary structures show the good performance of the algorithms. To demonstrate the utility of our algorithms, we discuss their applications to conducting the phylogenetic study of RNA sequences obtained from GenBank.

  17. Automated Finite Element Modeling of Wing Structures for Shape Optimization

    NASA Technical Reports Server (NTRS)

    Harvey, Michael Stephen

    1993-01-01

    The displacement formulation of the finite element method is the most general and most widely used technique for structural analysis of airplane configurations. Modem structural synthesis techniques based on the finite element method have reached a certain maturity in recent years, and large airplane structures can now be optimized with respect to sizing type design variables for many load cases subject to a rich variety of constraints including stress, buckling, frequency, stiffness and aeroelastic constraints (Refs. 1-3). These structural synthesis capabilities use gradient based nonlinear programming techniques to search for improved designs. For these techniques to be practical a major improvement was required in computational cost of finite element analyses (needed repeatedly in the optimization process). Thus, associated with the progress in structural optimization, a new perspective of structural analysis has emerged, namely, structural analysis specialized for design optimization application, or.what is known as "design oriented structural analysis" (Ref. 4). This discipline includes approximation concepts and methods for obtaining behavior sensitivity information (Ref. 1), all needed to make the optimization of large structural systems (modeled by thousands of degrees of freedom and thousands of design variables) practical and cost effective.

  18. Development of a machine vision guidance system for automated assembly of space structures

    NASA Technical Reports Server (NTRS)

    Cooper, Eric G.; Sydow, P. Daniel

    1992-01-01

    The topics are presented in viewgraph form and include: automated structural assembly robot vision; machine vision requirements; vision targets and hardware; reflective efficiency; target identification; pose estimation algorithms; triangle constraints; truss node with joint receptacle targets; end-effector mounted camera and light assembly; vision system results from optical bench tests; and future work.

  19. Automated on-orbit frequency domain identification for large space structures

    NASA Technical Reports Server (NTRS)

    Bayard, D. S.; Hadaegh, F. Y.; Yam, Y.; Scheid, R. E.; Mettler, E.; Milman, M. H.

    1991-01-01

    Recent experiences in the field of flexible structure control in space have indicated a need for on-orbit system identification to support robust control redesign to avoid in-flight instabilities and maintain high spacecraft performance. This paper highlights an automated frequency domain system identification methodology recently developed to fulfill this need. The methodology is focused to support (1) the estimation of system quantities useful for robust control analysis and design; (2) experiment design tailored to performing system identification in a typically constrained on-orbit environment; and (3) the automation of operations to reduce 'human in the loop' requirements.

  20. Error tolerant NMR backbone resonance assignment and automated structure generation.

    PubMed

    Alipanahi, Babak; Gao, Xin; Karakoc, Emre; Li, Shuai Cheng; Balbach, Frank; Feng, Guangyu; Donaldson, Logan; Li, Ming

    2011-02-01

    Error tolerant backbone resonance assignment is the cornerstone of the NMR structure determination process. Although a variety of assignment approaches have been developed, none works sufficiently well on noisy fully automatically picked peaks to enable the subsequent automatic structure determination steps. We have designed an integer linear programming (ILP) based assignment system (IPASS) that has enabled fully automatic protein structure determination for four test proteins. IPASS employs probabilistic spin system typing based on chemical shifts and secondary structure predictions. Furthermore, IPASS extracts connectivity information from the inter-residue information and the (automatically picked) (15)N-edited NOESY peaks which are then used to fix reliable fragments. When applied to automatically picked peaks for real proteins, IPASS achieves an average precision and recall of 82% and 63%, respectively. In contrast, the next best method, MARS, achieves an average precision and recall of 77% and 36%, respectively. The assignments generated by IPASS are then fed into our protein structure calculation system, FALCON-NMR, to determine the 3D structures without human intervention. The final models have backbone RMSDs of 1.25Å, 0.88Å, 1.49Å, and 0.67Å to the reference native structures for proteins TM1112, CASKIN, VRAR, and HACS1, respectively. The web server is publicly available at http://monod.uwaterloo.ca/nmr/ipass.

  1. Radioactive waste isolation in salt: peer review of the Texas Bureau of Economic Geology's report on the Petrographic, Stratigraphic, and Structural Evidence for Dissolution of Upper Permian Bedded Salt, Texas Panhandle

    SciTech Connect

    Fenster, D.F.; Anderson, R.Y.; Gonzales, S.; Baker, V.R.; Edgar, D.E.; Harrison, W.

    1984-08-01

    The following recommendations for improving the Texas Bureau of Economic Geology (TBEG) report entitled Petrographic, Stratigraphic, and Structural Evidence for Dissolution of Upper Permian Bedded Salt, Texas Panhandle have been abstracted from the body of this review report. The TBEG report should be resided to conform to one of the following alternatives: (1) If the report is intended to be a review or summary of previous work, it should contain more raw data, be edited to give equal treatment to all types of data, and include summary tables and additional figures. (2) If the report is intended to be a description and interpretation of petrographic evidence for salt dissolution, supported by collateral stratigraphic and structural evidence, the relevant indirect and direct data should become the focal point of the report. The following recommendations apply to one or both of the options listed above. (1) The text should differentiate more carefully between the data and inferences based on those data. (2) The authors should retain the qualifiers present in cited works. Statements in the report that are based on earlier papers are sometimes stronger than those in the papers themselves. (3) The next revision should present more complete data. (4) The authors should achieve a more balanced presentation of alternative hypotheses and interpretations. They could then discuss the relative merits of the alternative interpretations. (5) More attention should be given to clear exposition.

  2. Norwegian Offshore Stratigraphic Lexicon (NORLEX)

    NASA Astrophysics Data System (ADS)

    Gradstein, Felix M.; Hammer, Oyvind; Brunstad, Harald; Charnock, Mike; Hellem, Terje; Sigve Lervik, Kjell; Anthonissen, Erik

    2010-05-01

    The Norwegian Offshore Stratigraphic Lexicon (NORLEX) provides a relational stratigraphic database for the North Sea, Norwegian Sea, Barents Sea and Svalbard. Both regional lithostratigraphy and biostratigraphy are being substantially updated, following guidelines laid out in the International Stratigraphic Guide. The main body of information developed is available as a petroleum consortium (oracle-style) database, and the new lithostratigraphic definitions as a public domain (paper) document. NORLEX is presented as a browsing website via the internet at http://www.nhm.uio.no/norlex. Seismic cross-sections, core photographs, well logs, field outcrops, microfossil occurrences and other vital attributes are relationally cross-linked. In addition, there are menus for instantly finding updated formation and member tops or microfossil events in all wells, plus a map contouring routine for unit thicknesses and depths. Several new initiatives will expand data and user coverage: 1. Overhaul of Mesozoic stratigraphy, especially Triassic and Cretaceous, in the Barents Sea. 2. Coverage of East Greenland 3. Linkage to UK and Belgium and The Netherlands surface and subsurface stratigraphy 4. Creation of a Sequence Stratigraphic Framework for specific regions. 5. A national microfossil atlas to support zonations 6. Tight linkage to the basin datapacks in TimeScaleCreator Pro, as developed for Australia, New Zealand, Brasil, Gulf of Mexico, Canada and Russia. NORLEX may thus evolve to become STRATLEX, covering many basin regions.

  3. MemProtMD: Automated Insertion of Membrane Protein Structures into Explicit Lipid Membranes

    PubMed Central

    Stansfeld, Phillip J.; Goose, Joseph E.; Caffrey, Martin; Carpenter, Elisabeth P.; Parker, Joanne L.; Newstead, Simon; Sansom, Mark S.P.

    2015-01-01

    Summary There has been exponential growth in the number of membrane protein structures determined. Nevertheless, these structures are usually resolved in the absence of their lipid environment. Coarse-grained molecular dynamics (CGMD) simulations enable insertion of membrane proteins into explicit models of lipid bilayers. We have automated the CGMD methodology, enabling membrane protein structures to be identified upon their release into the PDB and embedded into a membrane. The simulations are analyzed for protein-lipid interactions, identifying lipid binding sites, and revealing local bilayer deformations plus molecular access pathways within the membrane. The coarse-grained models of membrane protein/bilayer complexes are transformed to atomistic resolution for further analysis and simulation. Using this automated simulation pipeline, we have analyzed a number of recently determined membrane protein structures to predict their locations within a membrane, their lipid/protein interactions, and the functional implications of an enhanced understanding of the local membrane environment of each protein. PMID:26073602

  4. From bacterial to human dihydrouridine synthase: automated structure determination

    SciTech Connect

    Whelan, Fiona Jenkins, Huw T.; Griffiths, Samuel C.; Byrne, Robert T.; Dodson, Eleanor J.; Antson, Alfred A.

    2015-06-30

    The crystal structure of a human dihydrouridine synthase, an enzyme associated with lung cancer, with 18% sequence identity to a T. maritima enzyme, has been determined at 1.9 Å resolution by molecular replacement after extensive molecular remodelling of the template. The reduction of uridine to dihydrouridine at specific positions in tRNA is catalysed by dihydrouridine synthase (Dus) enzymes. Increased expression of human dihydrouridine synthase 2 (hDus2) has been linked to pulmonary carcinogenesis, while its knockdown decreased cancer cell line viability, suggesting that it may serve as a valuable target for therapeutic intervention. Here, the X-ray crystal structure of a construct of hDus2 encompassing the catalytic and tRNA-recognition domains (residues 1–340) determined at 1.9 Å resolution is presented. It is shown that the structure can be determined automatically by phenix.mr-rosetta starting from a bacterial Dus enzyme with only 18% sequence identity and a significantly divergent structure. The overall fold of the human Dus2 is similar to that of bacterial enzymes, but has a larger recognition domain and a unique three-stranded antiparallel β-sheet insertion into the catalytic domain that packs next to the recognition domain, contributing to domain–domain interactions. The structure may inform the development of novel therapeutic approaches in the fight against lung cancer.

  5. Reduced complexity structural modeling for automated airframe synthesis

    NASA Technical Reports Server (NTRS)

    Hajela, Prabhat

    1987-01-01

    A procedure is developed for the optimum sizing of wing structures based on representing the built-up finite element assembly of the structure by equivalent beam models. The reduced-order beam models are computationally less demanding in an optimum design environment which dictates repetitive analysis of several trial designs. The design procedure is implemented in a computer program requiring geometry and loading information to create the wing finite element model and its equivalent beam model, and providing a rapid estimate of the optimum weight obtained from a fully stressed design approach applied to the beam. The synthesis procedure is demonstrated for representative conventional-cantilever and joined wing configurations.

  6. Application of a hierarchical structure stochastic learning automation

    NASA Technical Reports Server (NTRS)

    Neville, R. G.; Chrystall, M. S.; Mars, P.

    1979-01-01

    A hierarchical structure automaton was developed using a two state stochastic learning automato (SLA) in a time shared model. Application of the hierarchical SLA to systems with multidimensional, multimodal performance criteria is described. Results of experiments performed with the hierarchical SLA using a performance index with a superimposed noise component of ? or - delta distributed uniformly over the surface are discussed.

  7. Automating the parallel processing of fluid and structural dynamics calculations

    NASA Technical Reports Server (NTRS)

    Arpasi, Dale J.; Cole, Gary L.

    1987-01-01

    The NASA Lewis Research Center is actively involved in the development of expert system technology to assist users in applying parallel processing to computational fluid and structural dynamic analysis. The goal of this effort is to eliminate the necessity for the physical scientist to become a computer scientist in order to effectively use the computer as a research tool. Programming and operating software utilities have previously been developed to solve systems of ordinary nonlinear differential equations on parallel scalar processors. Current efforts are aimed at extending these capabilties to systems of partial differential equations, that describe the complex behavior of fluids and structures within aerospace propulsion systems. This paper presents some important considerations in the redesign, in particular, the need for algorithms and software utilities that can automatically identify data flow patterns in the application program and partition and allocate calculations to the parallel processors. A library-oriented multiprocessing concept for integrating the hardware and software functions is described.

  8. Automating the parallel processing of fluid and structural dynamics calculations

    NASA Technical Reports Server (NTRS)

    Arpasi, Dale J.; Cole, Gary L.

    1987-01-01

    The NASA Lewis Research Center is actively involved in the development of expert system technology to assist users in applying parallel processing to computational fluid and structural dynamic analysis. The goal of this effort is to eliminate the necessity for the physical scientist to become a computer scientist in order to effectively use the computer as a research tool. Programming and operating software utilities have previously been developed to solve systems of ordinary nonlinear differential equations on parallel scalar processors. Current efforts are aimed at extending these capabilities to systems of partial differential equations, that describe the complex behavior of fluids and structures within aerospace propulsion systems. This paper presents some important considerations in the redesign, in particular, the need for algorithms and software utilities that can automatically identify data flow patterns in the application program and partition and allocate calculations to the parallel processors. A library-oriented multiprocessing concept for integrating the hardware and software functions is described.

  9. Automated protein model building combined with iterative structure refinement.

    PubMed

    Perrakis, A; Morris, R; Lamzin, V S

    1999-05-01

    In protein crystallography, much time and effort are often required to trace an initial model from an interpretable electron density map and to refine it until it best agrees with the crystallographic data. Here, we present a method to build and refine a protein model automatically and without user intervention, starting from diffraction data extending to resolution higher than 2.3 A and reasonable estimates of crystallographic phases. The method is based on an iterative procedure that describes the electron density map as a set of unconnected atoms and then searches for protein-like patterns. Automatic pattern recognition (model building) combined with refinement, allows a structural model to be obtained reliably within a few CPU hours. We demonstrate the power of the method with examples of a few recently solved structures.

  10. A Highly Flexible, Automated System Providing Reliable Sample Preparation in Element- and Structure-Specific Measurements.

    PubMed

    Vorberg, Ellen; Fleischer, Heidi; Junginger, Steffen; Liu, Hui; Stoll, Norbert; Thurow, Kerstin

    2016-10-01

    Life science areas require specific sample pretreatment to increase the concentration of the analytes and/or to convert the analytes into an appropriate form for the detection and separation systems. Various workstations are commercially available, allowing for automated biological sample pretreatment. Nevertheless, due to the required temperature, pressure, and volume conditions in typical element and structure-specific measurements, automated platforms are not suitable for analytical processes. Thus, the purpose of the presented investigation was the design, realization, and evaluation of an automated system ensuring high-precision sample preparation for a variety of analytical measurements. The developed system has to enable system adaption and high performance flexibility. Furthermore, the system has to be capable of dealing with the wide range of required vessels simultaneously, allowing for less cost and time-consuming process steps. However, the system's functionality has been confirmed in various validation sequences. Using element-specific measurements, the automated system was up to 25% more precise compared to the manual procedure and as precise as the manual procedure using structure-specific measurements.

  11. Three-dimensional visualization for evaluating automated, geomorphic pattern-recognition analyses of crustal structures

    NASA Astrophysics Data System (ADS)

    Foley, M. G.

    1991-02-01

    We are developing and applying a suite of automated remote geologic analysis (RGA) methods at Pacific Northwest Laboratory (PNL) for extracting structural and tectonic patterns from digital models of topography and other spatially registered geophysical data. In analyzing a map area, the geologist employs a variety of spatial representations (e.g., topographic maps; oblique, vertical and vertical stereographic aerial photographs; satellite-sensor images) in addition to actual field observations to provide a basis for recognizing features (patterns) diagnostic or suggestive of various geologic and geomorphic features. We intend that our automated analyses of digital models of elevation use the same photogeologic pattern-recognition methods as the geologist's; otherwise there is no direct basis for manually evaluating results of the automated analysis. Any system for automating geologic analysis should extend the geologist's pattern-recognition abilities and quantify them, rather than replace them. This requirement means that results of automated structural pattern-recognition analyses must be evaluated by geologists using the same method that would be employed in manual field checking: visual examination of the three-dimensional relationships among rocks, erosional patterns, and identifiable structures. Interactive computer-graphics in quantitative (i.e., spatially registered), simulated three-dimensional perspective and stereo are thus critical to the integration and interpretation of topography, imagery, point data, RGA-identified fracture/fault planes, stratigraphy, contoured geophysical data, nonplanar surfaces, boreholes, and three-dimensional zones (e.g., crush zones at fracture intersections). This graphical interaction presents the megabytes of digital geologic and geophysical data to the geologist in the same spatial format that field observations would take, permitting direct evaluation of RGA methods and results.

  12. Three-dimensional visualization for evaluating automated, geomorphic pattern-recognition analyses of crustal structures

    SciTech Connect

    Foley, M.G.

    1991-02-01

    We are developing and applying a suite of automated remote geologic analysis (RGA) methods at Pacific Northwest Laboratory (PNL) for extracting structural and tectonic patterns from digital models of topography and other spatially registered geophysical data. In analyzing a map area, the geologist employs a variety of spatial representations (e.g., topographic maps; oblique, vertical and vertical stereographic aerial photographs; satellite-sensor images) in addition to actual field observations to provide a basis for recognizing features (patterns) diagnostic or suggestive of various geologic and geomorphic features. We intend that our automated analyses of digital models of elevation use the same photogeologic pattern-recognition methods as the geologist's; otherwise there is no direct basis for manually evaluating results of the automated analysis. Any system for automating geologic analysis should extend the geologist's pattern-recognition abilities and quantify them, rather than replace them. This requirement means that results of automated structural pattern-recognition analyses must be evaluated by geologists using the same method that would be employed in manual field checking: visual examination of the three-dimensional relationships among rocks, erosional patterns, and identifiable structures. Interactive computer-graphics in quantitative (i.e., spatially registered), simulated three-dimensional perspective and stereo are thus critical to the integration and interpretation of topography, imagery, point data, RGA-identified fracture/fault planes, stratigraphy, contoured geophysical data, nonplanar surfaces, boreholes, and three-dimensional zones (e.g., crush zones at fracture intersections). This graphical interaction presents the megabytes of digital geologic and geophysical data to the geologist in the same spatial format that field observations would take, permitting direct evaluation of RGA methods and results. 5 refs., 2 figs.

  13. An automated procedure for covariation-based detection of RNA structure

    SciTech Connect

    Winker, S.; Overbeek, R.; Woese, C.R.; Olsen, G.J.; Pfluger, N.

    1989-12-01

    This paper summarizes our investigations into the computational detection of secondary and tertiary structure of ribosomal RNA. We have developed a new automated procedure that not only identifies potential bondings of secondary and tertiary structure, but also provides the covariation evidence that supports the proposed bondings, and any counter-evidence that can be detected in the known sequences. A small number of previously unknown bondings have been detected in individual RNA molecules (16S rRNA and 7S RNA) through the use of our automated procedure. Currently, we are systematically studying mitochondrial rRNA. Our goal is to detect tertiary structure within 16S rRNA and quaternary structure between 16S and 23S rRNA. Our ultimate hope is that automated covariation analysis will contribute significantly to a refined picture of ribosome structure. Our colleagues in biology have begun experiments to test certain hypotheses suggested by an examination of our program's output. These experiments involve sequencing key portions of the 23S ribosomal RNA for species in which the known 16S ribosomal RNA exhibits variation (from the dominant pattern) at the site of a proposed bonding. The hope is that the 23S ribosomal RNA of these species will exhibit corresponding complementary variation or generalized covariation. 24 refs.

  14. Stratigraphic Systems: Origin and Application

    NASA Astrophysics Data System (ADS)

    Galloway, William E.

    In Stratigraphic Systems: Origin and Application, Glenn S.Visher attempts to synthesize and organize the knowledge and integrated interpretation system developed over 35 years in sedimentary analysis. The book sets forth an extremely aggressive agenda: to bring together a knowledge base that includes basin tectonics, stratigraphy, sedimentology paleogeomorphology seismic interpretation, and petroleum geoscience.The book contains more than 700 figures. An enclosed CD-ROM provides many additional figures, 24 color plates, and an expert system program—DE-EXPERT—developed by Visher and colleagues. Visher's approach is inclusive and emphasizes regional synthesis of multiple data sets. The analysis of stratigraphic systems is condensed into a suite of 15 siliciclastic and 6 biochemical depositional themes that reflect deposition over extended time, geographic area, and depositional settings. The themes are built around geomorphic patterns and basin tectonic contexts. In the end, however, the book is disappointing.

  15. Stratigraphic Modelling of Continental Rifting

    NASA Astrophysics Data System (ADS)

    Mondy, Luke; Duclaux, Guillaume; Salles, Tristan; Thomas, Charmaine; Rey, Patrice

    2013-04-01

    Interlinks between deformation and sedimentation have long been recognised as an important factor in the evolution of continental rifts and basins development. However, determining the relative impact of tectonic and climatic forcing on the dynamics of these systems remains a major challenge. This problem in part derives from a lack of modelling tools capable of simulated high detailed surface processes within a large scale (spatially and temporally) tectonic setting. To overcome this issue an innovative framework has been designed using two existing numerical forward modelling codes: Underworld, capable of simulating 3D self-consistent tectonic and thermal lithospheric processes, and Tellus, a forward stratigraphic and geomorphic modelling framework dedicated to simulating highly detailed surface dynamics. The coupling framework enables Tellus to use Underworld outputs as internal and boundary conditions, thereby simulating the stratigraphic and geomorphic evolution of a realistic, active tectonic setting. The resulting models can provide high-resolution data on the stratigraphic record, grain-size variations, sediment provenance, fluvial hydrometric, and landscape evolution. Here we illustrate a one-way coupling method between active tectonics and surface processes in an example of 3D oblique rifting. Our coupled model enables us to visualise the distribution of sediment sources and sinks, and their evolution through time. From this we can extract and analyse at each simulation timestep the stratigraphic record anywhere within the model domain. We find that even from a generic oblique rift model, complex fluvial-deltaic and basin filling dynamics emerge. By isolating the tectonic activity from landscape dynamics with this one-way coupling, we are able to investigate the influence of changes in climate or geomorphic parameters on the sedimentary and landscape record. These impacts can be quantified in part via model post-processing to derive both instantaneous and

  16. Automated determination of fibrillar structures by simultaneous model building and fiber diffraction refinement.

    PubMed

    Potrzebowski, Wojciech; André, Ingemar

    2015-07-01

    For highly oriented fibrillar molecules, three-dimensional structures can often be determined from X-ray fiber diffraction data. However, because of limited information content, structure determination and validation can be challenging. We demonstrate that automated structure determination of protein fibers can be achieved by guiding the building of macromolecular models with fiber diffraction data. We illustrate the power of our approach by determining the structures of six bacteriophage viruses de novo using fiber diffraction data alone and together with solid-state NMR data. Furthermore, we demonstrate the feasibility of molecular replacement from monomeric and fibrillar templates by solving the structure of a plant virus using homology modeling and protein-protein docking. The generated models explain the experimental data to the same degree as deposited reference structures but with improved structural quality. We also developed a cross-validation method for model selection. The results highlight the power of fiber diffraction data as structural constraints.

  17. Automated determination of fibrillar structures by simultaneous model building and fiber diffraction refinement.

    PubMed

    Potrzebowski, Wojciech; André, Ingemar

    2015-07-01

    For highly oriented fibrillar molecules, three-dimensional structures can often be determined from X-ray fiber diffraction data. However, because of limited information content, structure determination and validation can be challenging. We demonstrate that automated structure determination of protein fibers can be achieved by guiding the building of macromolecular models with fiber diffraction data. We illustrate the power of our approach by determining the structures of six bacteriophage viruses de novo using fiber diffraction data alone and together with solid-state NMR data. Furthermore, we demonstrate the feasibility of molecular replacement from monomeric and fibrillar templates by solving the structure of a plant virus using homology modeling and protein-protein docking. The generated models explain the experimental data to the same degree as deposited reference structures but with improved structural quality. We also developed a cross-validation method for model selection. The results highlight the power of fiber diffraction data as structural constraints. PMID:25961412

  18. Knowledge structure representation and automated updates in intelligent information management systems

    NASA Technical Reports Server (NTRS)

    Corey, Stephen; Carnahan, Richard S., Jr.

    1990-01-01

    A continuing effort to apply rapid prototyping and Artificial Intelligence techniques to problems associated with projected Space Station-era information management systems is examined. In particular, timely updating of the various databases and knowledge structures within the proposed intelligent information management system (IIMS) is critical to support decision making processes. Because of the significantly large amounts of data entering the IIMS on a daily basis, information updates will need to be automatically performed with some systems requiring that data be incorporated and made available to users within a few hours. Meeting these demands depends first, on the design and implementation of information structures that are easily modified and expanded, and second, on the incorporation of intelligent automated update techniques that will allow meaningful information relationships to be established. Potential techniques are studied for developing such an automated update capability and IIMS update requirements are examined in light of results obtained from the IIMS prototyping effort.

  19. The AUDANA algorithm for automated protein 3D structure determination from NMR NOE data.

    PubMed

    Lee, Woonghee; Petit, Chad M; Cornilescu, Gabriel; Stark, Jaime L; Markley, John L

    2016-06-01

    We introduce AUDANA (Automated Database-Assisted NOE Assignment), an algorithm for determining three-dimensional structures of proteins from NMR data that automates the assignment of 3D-NOE spectra, generates distance constraints, and conducts iterative high temperature molecular dynamics and simulated annealing. The protein sequence, chemical shift assignments, and NOE spectra are the only required inputs. Distance constraints generated automatically from ambiguously assigned NOE peaks are validated during the structure calculation against information from an enlarged version of the freely available PACSY database that incorporates information on protein structures deposited in the Protein Data Bank (PDB). This approach yields robust sets of distance constraints and 3D structures. We evaluated the performance of AUDANA with input data for 14 proteins ranging in size from 6 to 25 kDa that had 27-98 % sequence identity to proteins in the database. In all cases, the automatically calculated 3D structures passed stringent validation tests. Structures were determined with and without database support. In 9/14 cases, database support improved the agreement with manually determined structures in the PDB and in 11/14 cases, database support lowered the r.m.s.d. of the family of 20 structural models.

  20. Automated refinement of macromolecular structures at low resolution using prior information

    PubMed Central

    Kovalevskiy, Oleg; Nicholls, Robert A.; Murshudov, Garib N.

    2016-01-01

    Since the ratio of the number of observations to adjustable parameters is small at low resolution, it is necessary to use complementary information for the analysis of such data. ProSMART is a program that can generate restraints for macromolecules using homologous structures, as well as generic restraints for the stabilization of secondary structures. These restraints are used by REFMAC5 to stabilize the refinement of an atomic model. However, the optimal refinement protocol varies from case to case, and it is not always obvious how to select appropriate homologous structure(s), or other sources of prior information, for restraint generation. After running extensive tests on a large data set of low-resolution models, the best-performing refinement protocols and strategies for the selection of homologous structures have been identified. These strategies and protocols have been implemented in the Low-Resolution Structure Refinement (LORESTR) pipeline. The pipeline performs auto-detection of twinning and selects the optimal scaling method and solvent parameters. LORESTR can either use user-supplied homologous structures, or run an automated BLAST search and download homologues from the PDB. The pipeline executes multiple model-refinement instances using different parameters in order to find the best protocol. Tests show that the automated pipeline improves R factors, geometry and Ramachandran statistics for 94% of the low-resolution cases from the PDB included in the test set. PMID:27710936

  1. Automated protein motif generation in the structure-based protein function prediction tool ProMOL.

    PubMed

    Osipovitch, Mikhail; Lambrecht, Mitchell; Baker, Cameron; Madha, Shariq; Mills, Jeffrey L; Craig, Paul A; Bernstein, Herbert J

    2015-12-01

    ProMOL, a plugin for the PyMOL molecular graphics system, is a structure-based protein function prediction tool. ProMOL includes a set of routines for building motif templates that are used for screening query structures for enzyme active sites. Previously, each motif template was generated manually and required supervision in the optimization of parameters for sensitivity and selectivity. We developed an algorithm and workflow for the automation of motif building and testing routines in ProMOL. The algorithm uses a set of empirically derived parameters for optimization and requires little user intervention. The automated motif generation algorithm was first tested in a performance comparison with a set of manually generated motifs based on identical active sites from the same 112 PDB entries. The two sets of motifs were equally effective in identifying alignments with homologs and in rejecting alignments with unrelated structures. A second set of 296 active site motifs were generated automatically, based on Catalytic Site Atlas entries with literature citations, as an expansion of the library of existing manually generated motif templates. The new motif templates exhibited comparable performance to the existing ones in terms of hit rates against native structures, homologs with the same EC and Pfam designations, and randomly selected unrelated structures with a different EC designation at the first EC digit, as well as in terms of RMSD values obtained from local structural alignments of motifs and query structures. This research is supported by NIH grant GM078077. PMID:26573864

  2. Automated fine structure image analysis method for discrimination of diabetic retinopathy stage using conjunctival microvasculature images

    PubMed Central

    Khansari, Maziyar M; O’Neill, William; Penn, Richard; Chau, Felix; Blair, Norman P; Shahidi, Mahnaz

    2016-01-01

    The conjunctiva is a densely vascularized mucus membrane covering the sclera of the eye with a unique advantage of accessibility for direct visualization and non-invasive imaging. The purpose of this study is to apply an automated quantitative method for discrimination of different stages of diabetic retinopathy (DR) using conjunctival microvasculature images. Fine structural analysis of conjunctival microvasculature images was performed by ordinary least square regression and Fisher linear discriminant analysis. Conjunctival images between groups of non-diabetic and diabetic subjects at different stages of DR were discriminated. The automated method’s discriminate rates were higher than those determined by human observers. The method allowed sensitive and rapid discrimination by assessment of conjunctival microvasculature images and can be potentially useful for DR screening and monitoring. PMID:27446692

  3. Automated detection of structural alerts (chemical fragments) in (eco)toxicology

    PubMed Central

    Lepailleur, Alban; Poezevara, Guillaume; Bureau, Ronan

    2013-01-01

    This mini-review describes the evolution of different algorithms dedicated to the automated discovery of chemical fragments associated to (eco)toxicological endpoints. These structural alerts correspond to one of the most interesting approach of in silico toxicology due to their direct link with specific toxicological mechanisms. A number of expert systems are already available but, since the first work in this field which considered a binomial distribution of chemical fragments between two datasets, new data miners were developed and applied with success in chemoinformatics. The frequency of a chemical fragment in a dataset is often at the core of the process for the definition of its toxicological relevance. However, recent progresses in data mining provide new insights into the automated discovery of new rules. Particularly, this review highlights the notion of Emerging Patterns that can capture contrasts between classes of data. PMID:24688706

  4. Automated segmentation of pulmonary structures in thoracic computed tomography scans: a review

    NASA Astrophysics Data System (ADS)

    van Rikxoort, Eva M.; van Ginneken, Bram

    2013-09-01

    Computed tomography (CT) is the modality of choice for imaging the lungs in vivo. Sub-millimeter isotropic images of the lungs can be obtained within seconds, allowing the detection of small lesions and detailed analysis of disease processes. The high resolution of thoracic CT and the high prevalence of lung diseases require a high degree of automation in the analysis pipeline. The automated segmentation of pulmonary structures in thoracic CT has been an important research topic for over a decade now. This systematic review provides an overview of current literature. We discuss segmentation methods for the lungs, the pulmonary vasculature, the airways, including airway tree construction and airway wall segmentation, the fissures, the lobes and the pulmonary segments. For each topic, the current state of the art is summarized, and topics for future research are identified.

  5. A two-level structure for advanced space power system automation

    NASA Technical Reports Server (NTRS)

    Loparo, Kenneth A.; Chankong, Vira

    1990-01-01

    The tasks to be carried out during the three-year project period are: (1) performing extensive simulation using existing mathematical models to build a specific knowledge base of the operating characteristics of space power systems; (2) carrying out the necessary basic research on hierarchical control structures, real-time quantitative algorithms, and decision-theoretic procedures; (3) developing a two-level automation scheme for fault detection and diagnosis, maintenance and restoration scheduling, and load management; and (4) testing and demonstration. The outlines of the proposed system structure that served as a master plan for this project, work accomplished, concluding remarks, and ideas for future work are also addressed.

  6. Integrating automated structured analysis and design with Ada programming support environments

    NASA Technical Reports Server (NTRS)

    Hecht, Alan; Simmons, Andy

    1986-01-01

    Ada Programming Support Environments (APSE) include many powerful tools that address the implementation of Ada code. These tools do not address the entire software development process. Structured analysis is a methodology that addresses the creation of complete and accurate system specifications. Structured design takes a specification and derives a plan to decompose the system subcomponents, and provides heuristics to optimize the software design to minimize errors and maintenance. It can also produce the creation of useable modules. Studies have shown that most software errors result from poor system specifications, and that these errors also become more expensive to fix as the development process continues. Structured analysis and design help to uncover error in the early stages of development. The APSE tools help to insure that the code produced is correct, and aid in finding obscure coding errors. However, they do not have the capability to detect errors in specifications or to detect poor designs. An automated system for structured analysis and design TEAMWORK, which can be integrated with an APSE to support software systems development from specification through implementation is described. These tools completement each other to help developers improve quality and productivity, as well as to reduce development and maintenance costs. Complete system documentation and reusable code also resultss from the use of these tools. Integrating an APSE with automated tools for structured analysis and design provide capabilities and advantages beyond those realized with any of these systems used by themselves.

  7. Stratigraphical characterization of the Anthropocene

    NASA Astrophysics Data System (ADS)

    Zalasiewicz, Jan

    2016-04-01

    The Anthropocene, currently under analysis as a potential addition to the Geological Time Scale, has been interpreted in a wide variety of ways since the term was first introduced into scientific debate by Paul Crutzen in 2000. If it is to become a formal geological time unit, it must be functional as both a geochronological unit (an 'abstract time' unit, for example, an Epoch) and a chronostratigraphical unit (the corresponding material 'time-rock' unit, a Series). The most compelling evidence collated to date by the Anthropocene Working Group comprises a range of stratigraphic proxies of physical (e.g. anthropogenic rock and mineral types), chemical (e.g. C, N isotopic changes, radionuclides, pesticides) and biological (species invasions, extinctions, assemblage changes) character; together these suggest that the most effective boundary may be placed around the mid-20th century. Formalisation will depend not just on the weight of stratigraphic evidence (already considerable) but also on perceived utility. As regards wider societal implications, the succession of phenomena associated with this concept strongly suggest that it will be associated with significant Earth system change for the foreseeable future, by contrast with the general stability of Holocene times.

  8. Automated High Throughput Protein Crystallization Screening at Nanoliter Scale and Protein Structural Study on Lactate Dehydrogenase

    SciTech Connect

    Li, Fenglei

    2006-08-09

    The purposes of our research were: (1) To develop an economical, easy to use, automated, high throughput system for large scale protein crystallization screening. (2) To develop a new protein crystallization method with high screening efficiency, low protein consumption and complete compatibility with high throughput screening system. (3) To determine the structure of lactate dehydrogenase complexed with NADH by x-ray protein crystallography to study its inherent structural properties. Firstly, we demonstrated large scale protein crystallization screening can be performed in a high throughput manner with low cost, easy operation. The overall system integrates liquid dispensing, crystallization and detection and serves as a whole solution to protein crystallization screening. The system can dispense protein and multiple different precipitants in nanoliter scale and in parallel. A new detection scheme, native fluorescence, has been developed in this system to form a two-detector system with a visible light detector for detecting protein crystallization screening results. This detection scheme has capability of eliminating common false positives by distinguishing protein crystals from inorganic crystals in a high throughput and non-destructive manner. The entire system from liquid dispensing, crystallization to crystal detection is essentially parallel, high throughput and compatible with automation. The system was successfully demonstrated by lysozyme crystallization screening. Secondly, we developed a new crystallization method with high screening efficiency, low protein consumption and compatibility with automation and high throughput. In this crystallization method, a gas permeable membrane is employed to achieve the gentle evaporation required by protein crystallization. Protein consumption is significantly reduced to nanoliter scale for each condition and thus permits exploring more conditions in a phase diagram for given amount of protein. In addition

  9. Stratigraphic modeling of sedimentary basins

    SciTech Connect

    Aigner, T. ); Lawrence, D.T. )

    1990-11-01

    A two-dimensional stratigraphic forward model has been successfully applied and calibrated in clastic, carbonate, and mixed clastic/carbonate regimes. Primary input parameters are subsidence, sea level, volume of clastics, and carbonate growth potential. Program output includes sequence geometries, facies distribution lithology distribution, chronostratigraphic plots, burial history plots, thermal and maturity histories, and crossplots. The program may be used to predict reservoir distribution, to constrain interpretations of well and seismic data, to rapidly test exploration scenarios in frontier basins, and to evaluate the fundamental controls on observed basin stratigraphy. Applications to data sets from Main Pass (US Gulf Coast), Offshore Sarawak (Malaysia), Rub'al Khali basin (Oman), Paris basin (France), and Baltimore Canyon (US East Coast) demonstrate that the program can be used to simulate stratigraphy on a basin-wide scale as well as on the scale of individual prospects.

  10. North American Commission on Stratigraphic Nomenclature Note 66: records of Stratigraphic Commission, 2003-2013

    USGS Publications Warehouse

    Easton, Robert M.; Catuneanu, Octavian; Donovan, Art D.; Fluegeman, Richard H.; Hamblin, A.P.; Harper, Howard; Lasca, Norman P.; Morrow, Jared R.; Orndorff, Randall C.; Sadler, Peter; Scott, Robert W.; Tew, Berry H.

    2014-01-01

    Note 66 summarizes activities of the North American Commission on Stratigraphic Nomenclature (NACSN) from November 2003 to October 2013 and is condensed from the minutes of the NACSN’s 58th to 68th annual meetings1. The purposes of the Commission are to develop statements of stratigraphic principles,recommend procedures applicable to the classification and nomenclature of stratigraphic and related units, review problems in classifying and naming stratigraphic and related units, and formulate expressions of judgment on these matters.

  11. Automating crystallographic structure solution and refinement of protein–ligand complexes

    SciTech Connect

    Echols, Nathaniel Moriarty, Nigel W. Klei, Herbert E.; Afonine, Pavel V.; Bunkóczi, Gábor; McCoy, Airlie J.; Oeffner, Robert D.; Read, Randy J.; Adams, Paul D.

    2014-01-01

    A software system for automated protein–ligand crystallography has been implemented in the Phenix suite. This significantly reduces the manual effort required in high-throughput crystallographic studies. High-throughput drug-discovery and mechanistic studies often require the determination of multiple related crystal structures that only differ in the bound ligands, point mutations in the protein sequence and minor conformational changes. If performed manually, solution and refinement requires extensive repetition of the same tasks for each structure. To accelerate this process and minimize manual effort, a pipeline encompassing all stages of ligand building and refinement, starting from integrated and scaled diffraction intensities, has been implemented in Phenix. The resulting system is able to successfully solve and refine large collections of structures in parallel without extensive user intervention prior to the final stages of model completion and validation.

  12. New tissue priors for improved automated classification of subcortical brain structures on MRI.

    PubMed

    Lorio, S; Fresard, S; Adaszewski, S; Kherif, F; Chowdhury, R; Frackowiak, R S; Ashburner, J; Helms, G; Weiskopf, N; Lutti, A; Draganski, B

    2016-04-15

    Despite the constant improvement of algorithms for automated brain tissue classification, the accurate delineation of subcortical structures using magnetic resonance images (MRI) data remains challenging. The main difficulties arise from the low gray-white matter contrast of iron rich areas in T1-weighted (T1w) MRI data and from the lack of adequate priors for basal ganglia and thalamus. The most recent attempts to obtain such priors were based on cohorts with limited size that included subjects in a narrow age range, failing to account for age-related gray-white matter contrast changes. Aiming to improve the anatomical plausibility of automated brain tissue classification from T1w data, we have created new tissue probability maps for subcortical gray matter regions. Supported by atlas-derived spatial information, raters manually labeled subcortical structures in a cohort of healthy subjects using magnetization transfer saturation and R2* MRI maps, which feature optimal gray-white matter contrast in these areas. After assessment of inter-rater variability, the new tissue priors were tested on T1w data within the framework of voxel-based morphometry. The automated detection of gray matter in subcortical areas with our new probability maps was more anatomically plausible compared to the one derived with currently available priors. We provide evidence that the improved delineation compensates age-related bias in the segmentation of iron rich subcortical regions. The new tissue priors, allowing robust detection of basal ganglia and thalamus, have the potential to enhance the sensitivity of voxel-based morphometry in both healthy and diseased brains. PMID:26854557

  13. New tissue priors for improved automated classification of subcortical brain structures on MRI☆

    PubMed Central

    Lorio, S.; Fresard, S.; Adaszewski, S.; Kherif, F.; Chowdhury, R.; Frackowiak, R.S.; Ashburner, J.; Helms, G.; Weiskopf, N.; Lutti, A.; Draganski, B.

    2016-01-01

    Despite the constant improvement of algorithms for automated brain tissue classification, the accurate delineation of subcortical structures using magnetic resonance images (MRI) data remains challenging. The main difficulties arise from the low gray-white matter contrast of iron rich areas in T1-weighted (T1w) MRI data and from the lack of adequate priors for basal ganglia and thalamus. The most recent attempts to obtain such priors were based on cohorts with limited size that included subjects in a narrow age range, failing to account for age-related gray-white matter contrast changes. Aiming to improve the anatomical plausibility of automated brain tissue classification from T1w data, we have created new tissue probability maps for subcortical gray matter regions. Supported by atlas-derived spatial information, raters manually labeled subcortical structures in a cohort of healthy subjects using magnetization transfer saturation and R2* MRI maps, which feature optimal gray-white matter contrast in these areas. After assessment of inter-rater variability, the new tissue priors were tested on T1w data within the framework of voxel-based morphometry. The automated detection of gray matter in subcortical areas with our new probability maps was more anatomically plausible compared to the one derived with currently available priors. We provide evidence that the improved delineation compensates age-related bias in the segmentation of iron rich subcortical regions. The new tissue priors, allowing robust detection of basal ganglia and thalamus, have the potential to enhance the sensitivity of voxel-based morphometry in both healthy and diseased brains. PMID:26854557

  14. Automated clustering of ensembles of alternative models in protein structure databases.

    PubMed

    Domingues, Francisco S; Rahnenführer, Jörg; Lengauer, Thomas

    2004-06-01

    Experimentally determined protein structures have been classified in different public databases according to their structural and evolutionary relationships. Frequently, alternative structural models, determined using X-ray crystallography or NMR spectroscopy, are available for a protein. These models can present significant structural dissimilarity. Currently there is no classification available for these alternative structures. In order to classify them, we developed STRuster, an automated method for clustering ensembles of structural models according to their backbone structure. The method is based on the calculation of carbon alpha (Calpha) distance matrices. Two filters are applied in the calculation of the dissimilarity measure in order to identify both large and small (but significant) backbone conformational changes. The resulting dissimilarity value is used for hierarchical clustering and partitioning around medoids (PAM). Hierarchical clustering reflects the hierarchy of similarities between all pairs of models, while PAM groups the models into the 'optimal' number of clusters. The method has been applied to cluster the structures in each SCOP species level and can be easily applied to any other sets of conformers. The results are available at: http://bioinf.mpi-sb.mpg.de/projects/struster/. PMID:15319469

  15. Automated measurement of CT noise in patient images with a novel structure coherence feature

    NASA Astrophysics Data System (ADS)

    Chun, Minsoo; Choi, Young Hun; Hyo Kim, Jong

    2015-12-01

    While the assessment of CT noise constitutes an important task for the optimization of scan protocols in clinical routine, the majority of noise measurements in practice still rely on manual operation, hence limiting their efficiency and reliability. This study presents an algorithm for the automated measurement of CT noise in patient images with a novel structure coherence feature. The proposed algorithm consists of a four-step procedure including subcutaneous fat tissue selection, the calculation of structure coherence feature, the determination of homogeneous ROIs, and the estimation of the average noise level. In an evaluation with 94 CT scans (16 517 images) of pediatric and adult patients along with the participation of two radiologists, ROIs were placed on a homogeneous fat region at 99.46% accuracy, and the agreement of the automated noise measurements with the radiologists’ reference noise measurements (PCC  =  0.86) was substantially higher than the within and between-rater agreements of noise measurements (PCCwithin  =  0.75, PCCbetween  =  0.70). In addition, the absolute noise level measurements matched closely the theoretical noise levels generated by a reduced-dose simulation technique. Our proposed algorithm has the potential to be used for examining the appropriateness of radiation dose and the image quality of CT protocols for research purposes as well as clinical routine.

  16. Sinkholes and caves related to evaporite dissolution in a stratigraphically and structurally complex setting, Fluvia Valley, eastern Spanish Pyrenees. Geological, geomorphological and environmental implications

    NASA Astrophysics Data System (ADS)

    Gutiérrez, Francisco; Fabregat, Ivan; Roqué, Carles; Carbonel, Domingo; Guerrero, Jesús; García-Hermoso, Fernando; Zarroca, Mario; Linares, Rogelio

    2016-08-01

    Evaporite karst and sinkhole development is analysed in a geologically complex area of NE Spain, including four evaporite units with different characteristics and affected by compressional and extensional tectonic structures. The exposed paleosinkholes, including remarkable Early Pleistocene paleontological sites, provide valuable information on the subsidence mechanisms and reveal the significant role played by interstratal karstification in the area. These gravitational deformation structures, including hectometre-scale bending folds and oversteepened normal faults, strongly suggest that the present-day compressional regime inferred in previous studies may be largely based on the analysis of non-tectonic structures. Two gypsum caves ca. 1 km long show that passages with restricted cross-sectional area may produce large breccia pipes and sinkholes thanks to the removal of breakdown boulders by high-competence episodic floods. Moreover, the upward progression of cave ceilings by paragenesis and condensation dissolution contributes to increase the probability of sinkhole occurrence. An inventory of 135 sinkholes together with their geological and geomorphological context has been developed. This data base has been used to infer several properties of the sinkholes with practical implications: a magnitude and frequency scaling relationship, spatial distribution patterns, dominant controlling factors and risk implications.

  17. Automated assembly of large space structures using an expert system executive

    NASA Technical Reports Server (NTRS)

    Allen, Cheryl L.

    1993-01-01

    NASA LaRC has developed a unique testbed for investigating the practical problems associated with the assembly of large space structures using robotic manipulators. The testbed is an interdisciplinary effort which considers the full spectrum of assembly problems from the design of mechanisms to the development of software. This paper will describe the automated structures assembly testbed and its operation, detail the expert system executive and its development, and discuss the planned system evolution. Emphasis will be placed on the expert system development of the program executive. The executive program must be capable of directing and reliably performing complex assembly tasks with the flexibility to recover from realistic system errors. By employing an expert system, information pertaining to the operation of the system was encapsulated concisely within a knowledge base. This lead to a substantial reduction in code, increased flexibility, eased software upgrades, and realized a savings in software maintenance costs.

  18. An expert system executive for automated assembly of large space truss structures

    NASA Technical Reports Server (NTRS)

    Allen, Cheryl L.

    1993-01-01

    Langley Research Center developed a unique test bed for investigating the practical problems associated with the assembly of large space truss structures using robotic manipulators. The test bed is the result of an interdisciplinary effort that encompasses the full spectrum of assembly problems - from the design of mechanisms to the development of software. The automated structures assembly test bed and its operation are described, the expert system executive and its development are detailed, and the planned system evolution is discussed. Emphasis is on the expert system implementation of the program executive. The executive program must direct and reliably perform complex assembly tasks with the flexibility to recover from realistic system errors. The employment of an expert system permits information that pertains to the operation of the system to be encapsulated concisely within a knowledge base. This consolidation substantially reduced code, increased flexibility, eased software upgrades, and realized a savings in software maintenance costs.

  19. Integrating edge detection and fuzzy connectedness for automated segmentation of anatomical branching structures.

    PubMed

    Skoura, Angeliki; Nuzhnaya, Tatyana; Megalooikonomou, Vasileios

    2014-01-01

    Image segmentation algorithms are critical components of medical image analysis systems. This paper presents a novel and fully automated methodology for segmenting anatomical branching structures in medical images. It is a hybrid approach which integrates the Canny edge detection to obtain a preliminary boundary of the structure and the fuzzy connectedness algorithm to handle efficiently the discontinuities of the returned edge map. To ensure efficient localisation of weak branches, the fuzzy connectedness framework is applied in a sliding window mode and using a voting scheme the optimal connection point is estimated. Finally, the image regions are labelled as tissue or background using a locally adaptive thresholding technique. The proposed methodology is applied and evaluated in segmenting ductal trees visualised in clinical X-ray galactograms and vasculature visualised in angiograms. The experimental results demonstrate the effectiveness of the proposed approach achieving high scores of detection rate and accuracy among state-of-the-art segmentation techniques.

  20. 12 CFR Appendix D to Part 360 - Sweep/Automated Credit Account File Structure

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... exists, then a null value for the Sweep/Automated Credit Account Identifiers should be provided, but the... be a null valueThe Sweep/Automated Credit Account Identifier may be composed of more than...

  1. Automating gene library synthesis by structure-based combinatorial protein engineering: examples from plant sesquiterpene synthases.

    PubMed

    Dokarry, Melissa; Laurendon, Caroline; O'Maille, Paul E

    2012-01-01

    Structure-based combinatorial protein engineering (SCOPE) is a homology-independent recombination method to create multiple crossover gene libraries by assembling defined combinations of structural elements ranging from single mutations to domains of protein structure. SCOPE was originally inspired by DNA shuffling, which mimics recombination during meiosis, where mutations from parental genes are "shuffled" to create novel combinations in the resulting progeny. DNA shuffling utilizes sequence identity between parental genes to mediate template-switching events (the annealing and extension of one parental gene fragment on another) in PCR reassembly reactions to generate crossovers and hence recombination between parental genes. In light of the conservation of protein structure and degeneracy of sequence, SCOPE was developed to enable the "shuffling" of distantly related genes with no requirement for sequence identity. The central principle involves the use of oligonucleotides to encode for crossover regions to choreograph template-switching events during PCR assembly of gene fragments to create chimeric genes. This approach was initially developed to create libraries of hybrid DNA polymerases from distantly related parents, and later developed to create a combinatorial mutant library of sesquiterpene synthases to explore the catalytic landscapes underlying the functional divergence of related enzymes. This chapter presents a simplified protocol of SCOPE that can be integrated with different mutagenesis techniques and is suitable for automation by liquid-handling robots. Two examples are presented to illustrate the application of SCOPE to create gene libraries using plant sesquiterpene synthases as the model system. In the first example, we outline how to create an active-site library as a series of complex mixtures of diverse mutants. In the second example, we outline how to create a focused library as an array of individual clones to distil minimal combinations of

  2. Application of TIMS data in stratigraphic analysis

    NASA Technical Reports Server (NTRS)

    Lang, H. R.

    1986-01-01

    An in-progress study demonstrates the utility of Thermal Infrared Multispectral Scanner (TIMS) data for unraveling the stratigraphic sequence of a western interior, North American foreland basin. The TIMS data can be used to determine the stratigraphic distribution of minerals that are diagnostic of specific depositional distribution. The thematic mapper (TM) and TIMS data were acquired in the Wind River/Bighorn area of central Wyoming in November 1982, and July 1983, respectively. Combined image processing, photogeologic, and spectral analysis methods were used to: map strata; construct stratigraphic columns; correlate data; and identify mineralogical facies.

  3. Automated torso organ segmentation from 3D CT images using structured perceptron and dual decomposition

    NASA Astrophysics Data System (ADS)

    Nimura, Yukitaka; Hayashi, Yuichiro; Kitasaka, Takayuki; Mori, Kensaku

    2015-03-01

    This paper presents a method for torso organ segmentation from abdominal CT images using structured perceptron and dual decomposition. A lot of methods have been proposed to enable automated extraction of organ regions from volumetric medical images. However, it is necessary to adjust empirical parameters of them to obtain precise organ regions. This paper proposes an organ segmentation method using structured output learning. Our method utilizes a graphical model and binary features which represent the relationship between voxel intensities and organ labels. Also we optimize the weights of the graphical model by structured perceptron and estimate the best organ label for a given image by dynamic programming and dual decomposition. The experimental result revealed that the proposed method can extract organ regions automatically using structured output learning. The error of organ label estimation was 4.4%. The DICE coefficients of left lung, right lung, heart, liver, spleen, pancreas, left kidney, right kidney, and gallbladder were 0.91, 0.95, 0.77, 0.81, 0.74, 0.08, 0.83, 0.84, and 0.03, respectively.

  4. A structural study of cyanotrichite from Dachang by conventional and automated electron diffraction

    NASA Astrophysics Data System (ADS)

    Ventruti, Gennaro; Mugnaioli, Enrico; Capitani, Giancarlo; Scordari, Fernando; Pinto, Daniela; Lausi, Andrea

    2015-09-01

    The crystal structure of cyanotrichite, having general formula Cu4Al2(SO4)(OH)12·2H2O, from the Dachang deposit (China) was studied by means of conventional transmission electron microscopy, automated electron diffraction tomography (ADT) and synchrotron X-ray powder diffraction (XRPD). ADT revealed the presence of two different cyanotrichite-like phases. The same phases were also recognized in the XRPD pattern, allowing the perfect indexing of all peaks leading, after refinement to the following cell parameters: (1) a = 12.417(2) Å, b = 2.907(1) Å, c = 10.157(1) Å and β = 98.12(1); (2) a = 12.660(2) Å, b = 2.897(1) Å, c = 10.162(1) Å and β = 92.42(1)°. Only for the former phase, labeled cyanotrichite-98, a partial structure, corresponding to the [Cu4Al2(OH){12/2+}] cluster, was obtained ab initio by direct methods in space group C2/ m on the basis of electron diffraction data. Geometric and charge-balance considerations allowed to reach the whole structure model for the cyanotrichite-98 phase. The sulfate group and water molecule result to be statistically disordered over two possible positions, but keeping the average structure consistent with the C-centering symmetry, in agreement with ADT results.

  5. Modelling and interpreting biologically crusted dryland soil sub-surface structure using automated micropenetrometry

    NASA Astrophysics Data System (ADS)

    Hoon, Stephen R.; Felde, Vincent J. M. N. L.; Drahorad, Sylvie L.; Felix-Henningsen, Peter

    2015-04-01

    Soil penetrometers are used routinely to determine the shear strength of soils and deformable sediments both at the surface and throughout a depth profile in disciplines as diverse as soil science, agriculture, geoengineering and alpine avalanche-safety (e.g. Grunwald et al. 2001, Van Herwijnen et al. 2009). Generically, penetrometers comprise two principal components: An advancing probe, and a transducer; the latter to measure the pressure or force required to cause the probe to penetrate or advance through the soil or sediment. The force transducer employed to determine the pressure can range, for example, from a simple mechanical spring gauge to an automatically data-logged electronic transducer. Automated computer control of the penetrometer step size and probe advance rate enables precise measurements to be made down to a resolution of 10's of microns, (e.g. the automated electronic micropenetrometer (EMP) described by Drahorad 2012). Here we discuss the determination, modelling and interpretation of biologically crusted dryland soil sub-surface structures using automated micropenetrometry. We outline a model enabling the interpretation of depth dependent penetration resistance (PR) profiles and their spatial differentials using the model equations, σ {}(z) ={}σ c0{}+Σ 1n[σ n{}(z){}+anz + bnz2] and dσ /dz = Σ 1n[dσ n(z) /dz{} {}+{}Frn(z)] where σ c0 and σ n are the plastic deformation stresses for the surface and nth soil structure (e.g. soil crust, layer, horizon or void) respectively, and Frn(z)dz is the frictional work done per unit volume by sliding the penetrometer rod an incremental distance, dz, through the nth layer. Both σ n(z) and Frn(z) are related to soil structure. They determine the form of σ {}(z){} measured by the EMP transducer. The model enables pores (regions of zero deformation stress) to be distinguished from changes in layer structure or probe friction. We have applied this method to both artificial calibration soils in the

  6. Stratigraphic Relationships on Husband Hill, Mars

    NASA Astrophysics Data System (ADS)

    Cole, S. B.; Watters, W. A.; Squyres, S. W.

    2011-03-01

    We measure bedding plane orientations of outcrops on Cumberland Ridge in the Columbia Hills. Our measurements are consistent with the hypotheses that the outcrops (1) form a stratigraphic section, and (2) drape the Husband Hill edifice.

  7. Vibration based structural health monitoring of an arch bridge: From automated OMA to damage detection

    NASA Astrophysics Data System (ADS)

    Magalhães, F.; Cunha, A.; Caetano, E.

    2012-04-01

    In order to evaluate the usefulness of approaches based on modal parameters tracking for structural health monitoring of bridges, in September of 2007, a dynamic monitoring system was installed in a concrete arch bridge at the city of Porto, in Portugal. The implementation of algorithms to perform the continuous on-line identification of modal parameters based on structural responses to ambient excitation (automated Operational Modal Analysis) has permitted to create a very complete database with the time evolution of the bridge modal characteristics during more than 2 years. This paper describes the strategy that was followed to minimize the effects of environmental and operational factors on the bridge natural frequencies, enabling, in a subsequent stage, the identification of structural anomalies. Alternative static and dynamic regression models are tested and complemented by a Principal Components Analysis. Afterwards, the identification of damages is tried with control charts. At the end, it is demonstrated that the adopted processing methodology permits the detection of realistic damage scenarios, associated with frequency shifts around 0.2%, which were simulated with a numerical model.

  8. Structure-Function relationships using the Cirrus Spectral Domain Optical Coherence Tomograph and Standard Automated Perimetry

    PubMed Central

    Leite, Mauro T.; Zangwill, Linda M.; Weinreb, Robert N.; Rao, Harsha L.; Alencar, Luciana M.; Medeiros, Felipe A.

    2012-01-01

    Purpose To evaluate the relationship between glaucomatous structural damage assessed by the Cirrus Spectral Domain OCT (SDOCT) and functional loss as measured by standard automated perimetry (SAP). Methods Four hundred twenty two eyes (78 healthy, 210 suspects, 134 glaucomatous) of 250 patients were recruited from the longitudinal Diagnostic Innovations in Glaucoma Study (DIGS) and from the African Descent and Glaucoma Evaluation Study (ADAGES). All eyes underwent testing with the Cirrus SDOCT and SAP within a 6-month period. The relationship between parapapillary retinal nerve fiber layer thickness (RNFL) sectors and corresponding topographic SAP locations was evaluated using locally weighted scatterplot smoothing (LOWESS) and regression analysis. SAP sensitivity values were evaluated using both linear as well as logarithmic scales. We also tested the fit of a model (Hood) for structure-function relationship in glaucoma. Results Structure was significantly related to function for all but the nasal thickness sector. The relationship was strongest for superotemporal RNFL thickness and inferonasal sensitivity (R2 = 0.314, P<0.001). The Hood model fitted the data relatively well with 88% of the eyes inside the 95% confidence interval predicted by the model. Conclusion RNFL thinning measured by the Cirrus SDOCT was associated with correspondent visual field loss in glaucoma. PMID:21952500

  9. Automated metric characterization of urban structure using building decomposition from very high resolution imagery

    NASA Astrophysics Data System (ADS)

    Heinzel, Johannes; Kemper, Thomas

    2015-03-01

    Classification approaches for urban areas are mostly of qualitative and semantic nature. They produce interpreted classes similar to those from land cover and land use classifications. As a complement to those classes, quantitative measures directly derived from the image could lead to a metric characterization of the urban area. While these metrics lack of qualitative interpretation they are able to provide objective measure of the urban structures. Such quantitative measures are especially important in rapidly growing cities since, beside of the growth in area, they can provide structural information for specific areas and detect changes. Rustenburg, which serves as test area for the present study, is amongst the fastest growing cities in South Africa. It reveals a heterogeneous face of housing and building structures reflecting social and/or economic differences often linked to the spatial distribution of industrial and local mining sites. Up to date coverage with aerial photographs is provided by aerial surveys in regular intervals. Also recent satellite systems provide imagery with suitable resolution. Using such set of very high resolution images a fully automated algorithm has been developed which outputs metric classes by systematically combining important measures of building structure. The measurements are gained by decomposition of buildings directly from the imagery and by using methods from mathematical morphology. The decomposed building objects serve as basis for the computation of grid statistics. Finally a systematic combination of the single features leads to combined metrical classes. For the dominant urban structures verification results indicate an overall accuracy of at least 80% on the single feature level and 70% for the combined classes.

  10. The Upgrade Programme for the Structural Biology beamlines at the European Synchrotron Radiation Facility - High throughput sample evaluation and automation

    NASA Astrophysics Data System (ADS)

    Theveneau, P.; Baker, R.; Barrett, R.; Beteva, A.; Bowler, M. W.; Carpentier, P.; Caserotto, H.; de Sanctis, D.; Dobias, F.; Flot, D.; Guijarro, M.; Giraud, T.; Lentini, M.; Leonard, G. A.; Mattenet, M.; McCarthy, A. A.; McSweeney, S. M.; Morawe, C.; Nanao, M.; Nurizzo, D.; Ohlsson, S.; Pernot, P.; Popov, A. N.; Round, A.; Royant, A.; Schmid, W.; Snigirev, A.; Surr, J.; Mueller-Dieckmann, C.

    2013-03-01

    Automation and advances in technology are the key elements in addressing the steadily increasing complexity of Macromolecular Crystallography (MX) experiments. Much of this complexity is due to the inter-and intra-crystal heterogeneity in diffraction quality often observed for crystals of multi-component macromolecular assemblies or membrane proteins. Such heterogeneity makes high-throughput sample evaluation an important and necessary tool for increasing the chances of a successful structure determination. The introduction at the ESRF of automatic sample changers in 2005 dramatically increased the number of samples that were tested for diffraction quality. This "first generation" of automation, coupled with advances in software aimed at optimising data collection strategies in MX, resulted in a three-fold increase in the number of crystal structures elucidated per year using data collected at the ESRF. In addition, sample evaluation can be further complemented using small angle scattering experiments on the newly constructed bioSAXS facility on BM29 and the micro-spectroscopy facility (ID29S). The construction of a second generation of automated facilities on the MASSIF (Massively Automated Sample Screening Integrated Facility) beam lines will build on these advances and should provide a paradigm shift in how MX experiments are carried out which will benefit the entire Structural Biology community.

  11. Some debatable problems of stratigraphic classification

    NASA Astrophysics Data System (ADS)

    Gladenkov, Yury

    2014-05-01

    Russian geologists perform large-scale geological mapping in Russia and abroad. Therefore we urge unification of legends of geological maps compiled in different countries. It seems important to continuously organize discussions on problems of stratigraphic classification. 1. The stratigraphic schools (conventionally called "European" and "American") define "stratigraphy" in different ways. The former prefers "single" stratigraphy that uses data proved by many methods. The latter divides stratigraphy into several independent stratigraphers (litho-, bio-, magneto- and others). Russian geologists classify stratigraphic units into general (chronostratigraphic) and special (in accordance with a method applied). 2. There exist different interpretations of chronostratigraphy. Some stratigraphers suppose that a chronostratigraphic unit corresponds to rock strata formed during a certain time interval (it is somewhat formalistic because a length of interval is frequently unspecified). Russian specialists emphasize the historical-geological background of chronostratigraphic units. Every stratigraphic unit (global and regional) reflects a stage of geological evolution of biosphere and stratisphere. 3. In the view of Russian stratigraphers, the main stratigraphic units may have different extent: a) global (stage), b) regional (regional stage,local zone), and c) local (suite). There is no such hierarchy in the ISG. 4. Russian specialists think that local "lithostratigraphic" units (formations) which may have diachronous boundaries are not chronostratigraphic ones in strict sense (actually they are lithological bodies). In this case "lithostratigraphy" can be considered as "prostratigraphy" and employed in initial studies of sequences. Therefore, a suite is a main local unit of the Russian Code and differs from a formation, although it is somewhat similar. It does not mean that lithostratigraphy is unnecessary. Usage of marker horizons, members and other bodies is of great help

  12. ABodyBuilder: Automated antibody structure prediction with data–driven accuracy estimation

    PubMed Central

    Leem, Jinwoo; Dunbar, James; Georges, Guy; Shi, Jiye; Deane, Charlotte M.

    2016-01-01

    ABSTRACT Computational modeling of antibody structures plays a critical role in therapeutic antibody design. Several antibody modeling pipelines exist, but no freely available methods currently model nanobodies, provide estimates of expected model accuracy, or highlight potential issues with the antibody's experimental development. Here, we describe our automated antibody modeling pipeline, ABodyBuilder, designed to overcome these issues. The algorithm itself follows the standard 4 steps of template selection, orientation prediction, complementarity-determining region (CDR) loop modeling, and side chain prediction. ABodyBuilder then annotates the ‘confidence’ of the model as a probability that a component of the antibody (e.g., CDRL3 loop) will be modeled within a root–mean square deviation threshold. It also flags structural motifs on the model that are known to cause issues during in vitro development. ABodyBuilder was tested on 4 separate datasets, including the 11 antibodies from the Antibody Modeling Assessment–II competition. ABodyBuilder builds models that are of similar quality to other methodologies, with sub–Angstrom predictions for the ‘canonical’ CDR loops. Its ability to model nanobodies, and rapidly generate models (∼30 seconds per model) widens its potential usage. ABodyBuilder can also help users in decision–making for the development of novel antibodies because it provides model confidence and potential sequence liabilities. ABodyBuilder is freely available at http://opig.stats.ox.ac.uk/webapps/abodybuilder. PMID:27392298

  13. Automated laser-based barely visible impact damage detection in honeycomb sandwich composite structures

    NASA Astrophysics Data System (ADS)

    Girolamo, D.; Girolamo, L.; Yuan, F. G.

    2015-03-01

    Nondestructive evaluation (NDE) for detection and quantification of damage in composite materials is fundamental in the assessment of the overall structural integrity of modern aerospace systems. Conventional NDE systems have been extensively used to detect the location and size of damages by propagating ultrasonic waves normal to the surface. However they usually require physical contact with the structure and are time consuming and labor intensive. An automated, contactless laser ultrasonic imaging system for barely visible impact damage (BVID) detection in advanced composite structures has been developed to overcome these limitations. Lamb waves are generated by a Q-switched Nd:YAG laser, raster scanned by a set of galvano-mirrors over the damaged area. The out-of-plane vibrations are measured through a laser Doppler Vibrometer (LDV) that is stationary at a point on the corner of the grid. The ultrasonic wave field of the scanned area is reconstructed in polar coordinates and analyzed for high resolution characterization of impact damage in the composite honeycomb panel. Two methodologies are used for ultrasonic wave-field analysis: scattered wave field analysis (SWA) and standing wave energy analysis (SWEA) in the frequency domain. The SWA is employed for processing the wave field and estimate spatially dependent wavenumber values, related to discontinuities in the structural domain. The SWEA algorithm extracts standing waves trapped within damaged areas and, by studying the spectrum of the standing wave field, returns high fidelity damage imaging. While the SWA can be used to locate the impact damage in the honeycomb panel, the SWEA produces damage images in good agreement with X-ray computed tomographic (X-ray CT) scans. The results obtained prove that the laser-based nondestructive system is an effective alternative to overcome limitations of conventional NDI technologies.

  14. Automated laser-based barely visible impact damage detection in honeycomb sandwich composite structures

    SciTech Connect

    Girolamo, D. Yuan, F. G.; Girolamo, L.

    2015-03-31

    Nondestructive evaluation (NDE) for detection and quantification of damage in composite materials is fundamental in the assessment of the overall structural integrity of modern aerospace systems. Conventional NDE systems have been extensively used to detect the location and size of damages by propagating ultrasonic waves normal to the surface. However they usually require physical contact with the structure and are time consuming and labor intensive. An automated, contactless laser ultrasonic imaging system for barely visible impact damage (BVID) detection in advanced composite structures has been developed to overcome these limitations. Lamb waves are generated by a Q-switched Nd:YAG laser, raster scanned by a set of galvano-mirrors over the damaged area. The out-of-plane vibrations are measured through a laser Doppler Vibrometer (LDV) that is stationary at a point on the corner of the grid. The ultrasonic wave field of the scanned area is reconstructed in polar coordinates and analyzed for high resolution characterization of impact damage in the composite honeycomb panel. Two methodologies are used for ultrasonic wave-field analysis: scattered wave field analysis (SWA) and standing wave energy analysis (SWEA) in the frequency domain. The SWA is employed for processing the wave field and estimate spatially dependent wavenumber values, related to discontinuities in the structural domain. The SWEA algorithm extracts standing waves trapped within damaged areas and, by studying the spectrum of the standing wave field, returns high fidelity damage imaging. While the SWA can be used to locate the impact damage in the honeycomb panel, the SWEA produces damage images in good agreement with X-ray computed tomographic (X-ray CT) scans. The results obtained prove that the laser-based nondestructive system is an effective alternative to overcome limitations of conventional NDI technologies.

  15. Automated Assignment of MS/MS Cleavable Cross-Links in Protein 3D-Structure Analysis

    NASA Astrophysics Data System (ADS)

    Götze, Michael; Pettelkau, Jens; Fritzsche, Romy; Ihling, Christian H.; Schäfer, Mathias; Sinz, Andrea

    2015-01-01

    CID-MS/MS cleavable cross-linkers hold an enormous potential for an automated analysis of cross-linked products, which is essential for conducting structural proteomics studies. The created characteristic fragment ion patterns can easily be used for an automated assignment and discrimination of cross-linked products. To date, there are only a few software solutions available that make use of these properties, but none allows for an automated analysis of cleavable cross-linked products. The MeroX software fills this gap and presents a powerful tool for protein 3D-structure analysis in combination with MS/MS cleavable cross-linkers. We show that MeroX allows an automatic screening of characteristic fragment ions, considering static and variable peptide modifications, and effectively scores different types of cross-links. No manual input is required for a correct assignment of cross-links and false discovery rates are calculated. The self-explanatory graphical user interface of MeroX provides easy access for an automated cross-link search platform that is compatible with commonly used data file formats, enabling analysis of data originating from different instruments. The combination of an MS/MS cleavable cross-linker with a dedicated software tool for data analysis provides an automated workflow for 3D-structure analysis of proteins. MeroX is available at www.StavroX.com .

  16. Automated Structure-Activity Relationship Mining: Connecting Chemical Structure to Biological Profiles.

    PubMed

    Wawer, Mathias J; Jaramillo, David E; Dančík, Vlado; Fass, Daniel M; Haggarty, Stephen J; Shamji, Alykhan F; Wagner, Bridget K; Schreiber, Stuart L; Clemons, Paul A

    2014-06-01

    Understanding the structure-activity relationships (SARs) of small molecules is important for developing probes and novel therapeutic agents in chemical biology and drug discovery. Increasingly, multiplexed small-molecule profiling assays allow simultaneous measurement of many biological response parameters for the same compound (e.g., expression levels for many genes or binding constants against many proteins). Although such methods promise to capture SARs with high granularity, few computational methods are available to support SAR analyses of high-dimensional compound activity profiles. Many of these methods are not generally applicable or reduce the activity space to scalar summary statistics before establishing SARs. In this article, we present a versatile computational method that automatically extracts interpretable SAR rules from high-dimensional profiling data. The rules connect chemical structural features of compounds to patterns in their biological activity profiles. We applied our method to data from novel cell-based gene-expression and imaging assays collected on more than 30,000 small molecules. Based on the rules identified for this data set, we prioritized groups of compounds for further study, including a novel set of putative histone deacetylase inhibitors.

  17. Application of an automated wireless structural monitoring system for long-span suspension bridges

    SciTech Connect

    Kurata, M.; Lynch, J. P.; Linden, G. W. van der; Hipley, P.; Sheng, L.-H.

    2011-06-23

    This paper describes an automated wireless structural monitoring system installed at the New Carquinez Bridge (NCB). The designed system utilizes a dense network of wireless sensors installed in the bridge but remotely controlled by a hierarchically designed cyber-environment. The early efforts have included performance verification of a dense network of wireless sensors installed on the bridge and the establishment of a cellular gateway to the system for remote access from the internet. Acceleration of the main bridge span was the primary focus of the initial field deployment of the wireless monitoring system. An additional focus of the study is on ensuring wireless sensors can survive for long periods without human intervention. Toward this end, the life-expectancy of the wireless sensors has been enhanced by embedding efficient power management schemes in the sensors while integrating solar panels for power harvesting. The dynamic characteristics of the NCB under daily traffic and wind loads were extracted from the vibration response of the bridge deck and towers. These results have been compared to a high-fidelity finite element model of the bridge.

  18. Combined computational metabolite prediction and automated structure-based analysis of mass spectrometric data.

    PubMed

    Stranz, David D; Miao, Shichang; Campbell, Scott; Maydwell, George; Ekins, Sean

    2008-01-01

    ABSTRACT As high-throughput technologies have developed in the pharmaceutical industry, the demand for identification of possible metabolites using predominantly liquid chromatographic/mass spectrometry-mass spectrometry/mass spectrometry (LC/MS-MS/MS) for a large number of molecules in drug discovery has also increased. In parallel, computational technologies have also been developed to generate predictions for metabolites alongside methods to predict MS spectra and score the quality of the match with experimental spectra. The goal of the current study was to generate metabolite predictions from molecular structure with a software product, MetaDrug. In vitro microsomal incubations were used to ultimately produce MS data that could be used to verify the predictions with Apex, which is a new software tool that can predict the molecular ion spectrum and a fragmentation spectrum, automating the detailed examination of both MS and MS/MS spectra. For the test molecule imipramine used to illustrate the combined in vitro/in silico process proposed, MetaDrug predicts 16 metabolites. Following rat microsomal incubations with imipramine and analysis of the MS(n) data using the Apex software, strong evidence was found for imipramine and five metabolites and weaker evidence for five additional metabolites. This study suggests a new approach to streamline MS data analysis using a combination of predictive computational approaches with software capable of comparing the predicted metabolite output with empirical data when looking at drug metabolites.

  19. Multiple computer-automated structure evaluation study of aquatic toxicity. 2. Fathead minnow

    SciTech Connect

    Klopman, G.; Saiakhov, R.; Rosenkranz, H.S.

    2000-02-01

    An acute toxicity model was constructed on the basis of experimental data for 685 chemicals tested for toxicity for fathead minnow. The multiple computer-automated structure evaluation (M-CASE) program was used for the construction of the model. Based on a comparison between the authors results and published results, the authors found that the methodology is able to describe acute toxicity for the fathead minnow with high accuracy. The model incorporates the concept of a baseline activity as one of the parameters for the correlation as well as other parameters such as the presence of biophores, hardness-softness parameters, and other characteristics determined from quantum mechanical calculations. By using its artificial intelligence algorithm, M-CASE chooses automatically the most suitable set of parameters for evaluating the minnow toxicity of any organic molecule. The authors found that M-CASE can correctly predict acute toxicity for minnow for 80% of organic compounds with an average error of only 0.4 log units of lethal dose. The main toxicophores, corresponding to polar narcosis and to other types of reactive chemicals, were identified.

  20. Automated cerebellar lobule segmentation with application to cerebellar structural analysis in cerebellar disease.

    PubMed

    Yang, Zhen; Ye, Chuyang; Bogovic, John A; Carass, Aaron; Jedynak, Bruno M; Ying, Sarah H; Prince, Jerry L

    2016-02-15

    The cerebellum plays an important role in both motor control and cognitive function. Cerebellar function is topographically organized and diseases that affect specific parts of the cerebellum are associated with specific patterns of symptoms. Accordingly, delineation and quantification of cerebellar sub-regions from magnetic resonance images are important in the study of cerebellar atrophy and associated functional losses. This paper describes an automated cerebellar lobule segmentation method based on a graph cut segmentation framework. Results from multi-atlas labeling and tissue classification contribute to the region terms in the graph cut energy function and boundary classification contributes to the boundary term in the energy function. A cerebellar parcellation is achieved by minimizing the energy function using the α-expansion technique. The proposed method was evaluated using a leave-one-out cross-validation on 15 subjects including both healthy controls and patients with cerebellar diseases. Based on reported Dice coefficients, the proposed method outperforms two state-of-the-art methods. The proposed method was then applied to 77 subjects to study the region-specific cerebellar structural differences in three spinocerebellar ataxia (SCA) genetic subtypes. Quantitative analysis of the lobule volumes shows distinct patterns of volume changes associated with different SCA subtypes consistent with known patterns of atrophy in these genetic subtypes. PMID:26408861

  1. Some New Constraints On The Stratigraphic And Structural Setting Of The Soda Lake Geothermal Field, Churchill County, Nevada - McLACHLAN, Holly S. and FAULDS, James E., Nevada Bureau of Mines and Geology, University of Nevada, Reno, NV 89557

    NASA Astrophysics Data System (ADS)

    McLachlan, H. S.

    2012-12-01

    consist of a thick (>1500 m) package of fine-grained altered basalts and interbedded sedimentary rocks. Within this package, in the central portion of the well field, a ~300-500 m thick marker of laminated siltstones + coarse-grained, porphyritic plagioclase basalt has been identified in cuttings. Variations in thickness within the marker suggest older faults with significant throw were primarily northwest striking. Large local variations in the thickness of the 5.11 Ma trachytic basalt body support this interpretation and indicate NW-striking faulting likely continued through ~5 Ma B.P. However, all evidence indicates near-surface (<1000 m depth) faults at the Soda Lake geothermal field strike NNE, perpendicular to the contemporary extension direction. Structural interpretation is in progress for the Soda Lake geothermal field. In conjunction with recently obtained 3D seismic and microgravity surveys, stratigraphic information obtained from cuttings broadly constrains the structural setting. These data may permit determination of the specific structural host environment and should allow for assessment of how the prevailing faults at the site correlate with regional scale trends.

  2. Revision and update of the stratigraphic nomenclature of Netherlands

    SciTech Connect

    Van Adrichem Boogaert, A. ); Kouwe, W. )

    1993-09-01

    In 1991, the Geological Survey of the Netherlands started a project for revision and updating of the pre-Quaternary lithostratigraphy of Netherlands. This had not been done systematically since 1980. Main objective of the study are (1) to bring the lithostratigraphic ideas into agreement with new findings and increased knowledge of Dutch subsurface geology (lithostratigraphy was extended into the Lower Carboniferous and Devonian), (2) expansion and standardization of the definitions and descriptions of existing lithostratigraphic units, (3) application of modern concepts (e.g. sequence stratigraphy) in order to describe better the distribution of reservoir-prone sediments, and (4) to reach consensus on a number of stratigraphy-related subjects, such as a chronological time frame, application of biozonations, and the designation of the behavior of main structural elements through time. Eight working groups were formed, each working on a specific aspect or stratigraphic interval, under the supervision of a steering committee. Both working groups and steering committee were composed of persons from the Geological Survey, several leading oil companies and, in some cases, universities. Several working groups have completed their tasks, and updates of these stratigraphic intervals are available at the conference. Posters will display stratigraphic updates of lithostratigraphy for the Carboniferous, Zechstein, Lower Triassic, and Upper Jurassic-Lower Cretaceous.

  3. Automated artery-venous classification of retinal blood vessels based on structural mapping method

    NASA Astrophysics Data System (ADS)

    Joshi, Vinayak S.; Garvin, Mona K.; Reinhardt, Joseph M.; Abramoff, Michael D.

    2012-03-01

    Retinal blood vessels show morphologic modifications in response to various retinopathies. However, the specific responses exhibited by arteries and veins may provide a precise diagnostic information, i.e., a diabetic retinopathy may be detected more accurately with the venous dilatation instead of average vessel dilatation. In order to analyze the vessel type specific morphologic modifications, the classification of a vessel network into arteries and veins is required. We previously described a method for identification and separation of retinal vessel trees; i.e. structural mapping. Therefore, we propose the artery-venous classification based on structural mapping and identification of color properties prominent to the vessel types. The mean and standard deviation of each of green channel intensity and hue channel intensity are analyzed in a region of interest around each centerline pixel of a vessel. Using the vector of color properties extracted from each centerline pixel, it is classified into one of the two clusters (artery and vein), obtained by the fuzzy-C-means clustering. According to the proportion of clustered centerline pixels in a particular vessel, and utilizing the artery-venous crossing property of retinal vessels, each vessel is assigned a label of an artery or a vein. The classification results are compared with the manually annotated ground truth (gold standard). We applied the proposed method to a dataset of 15 retinal color fundus images resulting in an accuracy of 88.28% correctly classified vessel pixels. The automated classification results match well with the gold standard suggesting its potential in artery-venous classification and the respective morphology analysis.

  4. Stratigraphic control of flow and transport characteristics.

    PubMed

    Edington, Dwaine; Poeter, Eileen

    2007-01-01

    Ground water flow and travel time are dependent on stratigraphic architecture, which is governed by competing processes that control the spatial and temporal distribution of accommodation and sediment supply. Accommodation is the amount of space in which sediment may accumulate as defined by the difference between the energy gradient and the topographic surface. The temporal and spatial distribution of accommodation is affected by processes that change the distribution of energy (e.g., sea level or subsidence). Fluvial stratigraphic units, generated by FLUVSIM (a stratigraphic simulator based on accommodation and sediment supply), with varying magnitudes and causes of accommodation, were incorporated into a hydraulic regime using MODFLOW (a ground water flow simulator), and particles were tracked using MODPATH (a particle-tracking algorithm). These experiments illustrate that the dominant type of accommodation process influences the degree of continuity of stratigraphic units and thus affects ground water flow and transport. When the hydraulic gradient is parallel to the axis of the fluvial system in the depositional environment, shorter travel times occur in low-total accommodation environments and longer travel times in high-total accommodation environments. Given the same total accommodation, travel times are longer when sea-level change is the dominant process than those in systems dominated by subsidence.

  5. Stratigraphic control of flow and transport characteristics.

    PubMed

    Edington, Dwaine; Poeter, Eileen

    2006-01-01

    Ground water flow and travel time are dependent on stratigraphic architecture, which is governed by competing processes that control the spatial and temporal distribution of accommodation and sediment supply. Accommodation is the amount of space in which sediment may accumulate as defined by the difference between the energy gradient and the topographic surface. The temporal and spatial distribution of accommodation is affected by processes that change the distribution of energy (e.g., sea level or subsidence). Fluvial stratigraphic units, generated by FLUVSIM (a stratigraphic simulator based on accommodation and sediment supply), with varying magnitudes and causes of accommodation, were incorporated into a hydraulic regime using MODFLOW (a ground water flow simulator), and particles were tracked using MODPATH (a particle-tracking algorithm). These experiments illustrate that the dominant type of accommodation process influences the degree of continuity of stratigraphic units and thus affects ground water flow and transport. When the hydraulic gradient is parallel to the axis of the fluvial system in the depositional environment, shorter travel times occur in low-total accommodation environments and longer travel times in high-total accommodation environments. Given the same total accommodation, travel times are longer when sea-level change is the dominant process than those in systems dominated by subsidence.

  6. Automated Sample Exchange Robots for the Structural Biology Beam Lines at the Photon Factory

    SciTech Connect

    Hiraki, Masahiko; Watanabe, Shokei; Yamada, Yusuke; Matsugaki, Naohiro; Igarashi, Noriyuki; Gaponov, Yurii; Wakatsuki, Soichi

    2007-01-19

    We are now developing automated sample exchange robots for high-throughput protein crystallographic experiments for onsite use at synchrotron beam lines. It is part of the fully automated robotics systems being developed at the Photon Factory, for the purposes of protein crystallization, monitoring crystal growth, harvesting and freezing crystals, mounting the crystals inside a hutch and for data collection. We have already installed the sample exchange robots based on the SSRL automated mounting system at our insertion device beam lines BL-5A and AR-NW12A at the Photon Factory. In order to reduce the time required for sample exchange further, a prototype of a double-tonged system was developed. As a result of preliminary experiments with double-tonged robots, the sample exchange time was successfully reduced from 70 seconds to 10 seconds with the exception of the time required for pre-cooling and warming up the tongs.

  7. Stratigraphic Architecture of Aeolian Dune Interactions

    NASA Astrophysics Data System (ADS)

    Brothers, S. C.; Kocurek, G.

    2015-12-01

    Dune interactions, which consist of collisions and detachments, are a known driver of changing dune morphology and provide the dynamics for field-scale patterning. Although interactions are ubiquitous in modern dune fields, the stratigraphic record of interactions has not been explored. This raises the possibility that an entire class of signature architectures of bounding surfaces and cross-strata has gone misidentified or unrecognized. A unique data set for the crescentic dunes of the White Sands Dune Field, New Mexico, allows for the coupling of dune interactions with their resultant stratigraphic architecture. Dune interactions are documented by a decadal time-series of aerial photos and LiDAR-derived digital elevation models. Plan-view cross-strata in interdune areas provide a record tying past dune positions and morphologies to the current dunes. Three-dimensional stratigraphic architecture is revealed by imaging of dune interiors with ground-penetrating radar. The architecture of a dune defect merging with a target dune downwind consists of lateral truncation of the target dune set by an interaction bounding surface. Defect cross-strata tangentially approach and downlap onto the surface. Downwind, the interaction surface curves, and defect and adjacent target dune sets merge into a continuous set. Predictable angular relationships reflect field-scale patterns of dune migration direction and approach angle of migrating defects. The discovery of interaction architectures emphasizes that although dunes appear as continuous forms on the surface, they consist of discrete segments, each with a distinct morphodynamic history. Bedform interactions result in the morphologic recombination of dune bodies, which is manifested stratigraphically within the sets of cross-strata.

  8. Stratigraphic framework of productive carbonate buildups

    SciTech Connect

    Greenlee, S.M.; Lehmann, P.J. )

    1990-05-01

    Hydrocarbon-productive carbonate buildups are found within a relatively narrow window of geologic time and stratigraphic settings. Because buildups are common exploration objectives in frontier and mature basins, an understanding of their stratigraphic occurrence permits them to be more accurately explored. Based on a worldwide survey, most production occurs in isolated periods of geologic time: Middle Silurian-Late Silurian, late Middle and Late Devonian, Late Pennsylvanian and Early Permian, Late Cretaceous, Paleocene, and Miocene. The authors results suggest that many factors of successful buildup plays are predictable on the basis of geohistory analysis and of basin-filling stratal patterns. Deposition of extensive source beds and thick buildups coincide with second-order eustatic rises. Other primary controls on the temporal distribution of buildups include reef-building organism type, mineralogy, and paleolatitude. Geohistory analysis indicates that periods immediately prior to or during the earliest portion of rapid increases of accommodation correspond to times of productive buildup growth. During this time, shelf margins step landward and buildups become progressively more areally restricted. Buildups eventually are unable to keep pace with high rates of accommodation increase and often are overlain by distal toes of clinoforms within regressive wedges deposited during subsequent periods with lower rates of accommodation increase. The result is a stratigraphic juxtaposition of mounded reservoir carbonate and deep-marine sealing shale. This basin-fill position accounts for over 70% of known buildup-reservoired hydrocarbons. Buildups deposited in overlying regressive wedges are often lower relief and prone to seal problems.

  9. Tectonic and stratigraphic evolution of Neuquen Basin, Argentina

    SciTech Connect

    Eisner, P.N. ); Bally, A.W.; Vail, P.R. )

    1993-02-01

    Neuquen Basin is a mature basin with a long history of hydrocarbon production. It is the most productive subandean basin of Argentina. It was a Mesozoic backarc basin which evolved into a foredeep basin when a fold and thrust belt was formed to the west in the upper Cretaceous. The sedimentary infill is Permo-Triassic to recent. It is continental and marine in origin and was deposited in a generally shallow, slowly subsiding basin. The main factors that help subdivide the stratigraphy of the basin were relative changes of sea level. Detailed sequence stratigraphic analysis of upper Jurassic to lower Cretaceous marine and continent clastics, carbonates and evaporites allowed to explain the mechanisms by which subtle stratigraphic traps may have been created. The Neuquen Dorsal, a positive east-west structure in the relatively undeformed basin, has been tentatively interpreted as an inversion. This hypothesis must be further analyzed using additional data. Deformation in the fold and thrust belt took place from the Companion to Pliocene, and shows three distinct zones. From east to west a broad arch is followed by an intricate series of tight anticlines formed by both east and west verging thrusts which use four different decollement surfaces. To the west of these, a east verging ramp anticlinal structure is identified, which involves a deeper decollement surface.

  10. Stratigraphic Paleobiology of the Taranto Area

    NASA Astrophysics Data System (ADS)

    Scarponi, Daniele; Angeletti, Lorenzo; Taviani, Marco; Huntley, John Warren; Amorosi, Alessandro; Negri, Alessandra; Battista Vai, Gian

    2015-04-01

    The area surrounding Taranto, Italy is chronostratigraphically very important, as it is one of the few areas in the world where Upper Pleistocene marine successions are well exposed, easily accessible, and relatively thick. Several outcrops in this area were investigated as suitable marine sections for defining the Late Pleistocene GSSP. At these locations, the late Pleistocene bathymetric history of the Taranto area was depicted using macrobenthic assemblages from a network of outcrops and cores. Outcrops at Pontile, Fronte, and Garitta, along with two cores drilled at Cimino and Cantoro were densely sampled to conduct quantitatively-derived paleobathymetric reconstructions. These deposits yielded relatively diverse mollusk associations (> 250 species and > 9.000 specimens distributed among 55 samples), dominated by extant mollusk species of known bathymetric distribution. Multiple analytical approaches were applied to the macrobenthic dataset in a comparative fashion: (i) direct calibration by weighted averaging of taxa with known preferred depth recovered in a sample, (ii) posteriori-calibrated ordination (DCA) using bathymetric data of key extant taxa. These analyses were conducted at both species and genus level. Regardless of the choice of the analytical method, mollusk assemblages yielded bathymetric trends congruent with previous qualitative and semi-quantitative paleoecological and stratigraphic analyses: the bathymetric range of sampled deposits is bracketed between 140 and 0 meters. Secondly, macrobenthos-derived proxies provided an improved characterization of the marine deposits in terms of sample bathymetry and by discriminating shallowing-upward (regressive) trends from deepening-upward (transgressive) tendencies. Thirdly, mollusk-derived bathymetric inferences suggest spatial bathymetric gradients that are coherent with the morphology of the study area. In conclusion, the results provided an improved characterization of coastal depositional facies

  11. Ichnofabric and siliciclastic depositional systems: Integration for sequence stratigraphic analysis

    SciTech Connect

    Bottjer, D.J. ); Droser, M.L. )

    1991-03-01

    Much previous research on biogenic sedimentary structures has established how ichnofacies (assemblages of discrete trace fossils) vary within marine depositional systems. However, studies aimed at understanding the distribution of ichnofabric (sedimentary rock fabric resulting from biogenic reworking) have only recently been attempted. Because ichnofabric can be recorded using a semi-quantitative series of ichnofabric indices (ii), its distribution in marine sedimentary rocks can be easily recorded through vertical sequence analysis. Thicknesses of strata recording different ichnofabric indices can be logged from stratigraphic sections or cores. These data are best displayed in histograms as percent of ii recorded from the total thickness measured. These ichnofabric histograms (ichnograms) show variable but distinctive distributions for genetic units such as facies within systems tracts of siliciclastic depositional sequences. An average ichnofabric index for any genetic sedimentary unit can also be computed from the data used to construct ichnograms. Because skeletal fossils are typically much less commonly preserved in siliciclastic than carbonate depositional systems, such ichnofabric analyses have the potential of providing an important new line of evidence for depositional systems and sequence stratigraphic analysis of siliciclastic strata. In petroleum exploration results from completing analyses of ichnofabric distribution could provide important information including: (1) systems tracts with fine-grained facies that have relatively low ichnofabric values are potential source beds; and (2) petroleum reservoirs that occur in coarse episodically deposited beds are more likely to from in systems tracts with facies that have low rather than high ichnofabric values.

  12. Latest Quaternary stratigraphic framework of the Mississippi River delta region

    USGS Publications Warehouse

    Kulp, Mark; Howell, Paul; Adiau, Sandra; Penland, Shea; Kindinger, Jack; Williams, S. Jeffress

    2002-01-01

    Previous researchers separated the uppermost Quaternary stratigraphy of the Mississippi River delta region into two major lithofacies. The stratigraphically lower of these, "substratum," primarily consists of coarse-grained sediment deposited within lowstand-incised stream valleys. Relatively finer-grained "topstratum" overlies substratum; above interfluves, topstratum directly overlies weathered late Pleistocene sediments. However, the onshore to offshore distribution and architecture of these lithofacies was not well constrained. This study integrates published and unpublished lithostratigraphic data with high-resolution seismic profiles from the continental shelf to aid in mapping the regional distribution of major substratum deposits and thickness of topstratum sediments. A transgressive sand sheet commonly marks the base of the topstratum deposits, providing a stratigraphic marker to aid in regional lithostratigraphic correlations. Radiocarbondated deposits and boreholes tied to oxygen isotope chronologies provide chronostratigraphic control. Excellent correlation between these multiple datasets has been found to exist, enabling construction of regional isopachous and structural elevation maps and cross sections detailing elements of the Late Quaternary stratigraphy.

  13. The second round of Critical Assessment of Automated Structure Determination of Proteins by NMR: CASD-NMR-2013.

    PubMed

    Rosato, Antonio; Vranken, Wim; Fogh, Rasmus H; Ragan, Timothy J; Tejero, Roberto; Pederson, Kari; Lee, Hsiau-Wei; Prestegard, James H; Yee, Adelinda; Wu, Bin; Lemak, Alexander; Houliston, Scott; Arrowsmith, Cheryl H; Kennedy, Michael; Acton, Thomas B; Xiao, Rong; Liu, Gaohua; Montelione, Gaetano T; Vuister, Geerten W

    2015-08-01

    The second round of the community-wide initiative Critical Assessment of automated Structure Determination of Proteins by NMR (CASD-NMR-2013) comprised ten blind target datasets, consisting of unprocessed spectral data, assigned chemical shift lists and unassigned NOESY peak and RDC lists, that were made available in both curated (i.e. manually refined) or un-curated (i.e. automatically generated) form. Ten structure calculation programs, using fully automated protocols only, generated a total of 164 three-dimensional structures (entries) for the ten targets, sometimes using both curated and un-curated lists to generate multiple entries for a single target. The accuracy of the entries could be established by comparing them to the corresponding manually solved structure of each target, which was not available at the time the data were provided. Across the entire data set, 71 % of all entries submitted achieved an accuracy relative to the reference NMR structure better than 1.5 Å. Methods based on NOESY peak lists achieved even better results with up to 100% of the entries within the 1.5 Å threshold for some programs. However, some methods did not converge for some targets using un-curated NOESY peak lists. Over 90% of the entries achieved an accuracy better than the more relaxed threshold of 2.5 Å that was used in the previous CASD-NMR-2010 round. Comparisons between entries generated with un-curated versus curated peaks show only marginal improvements for the latter in those cases where both calculations converged. PMID:26071966

  14. Automated Processing of Imaging Data through Multi-tiered Classification of Biological Structures Illustrated Using Caenorhabditis elegans.

    PubMed

    Zhan, Mei; Crane, Matthew M; Entchev, Eugeni V; Caballero, Antonio; Fernandes de Abreu, Diana Andrea; Ch'ng, QueeLim; Lu, Hang

    2015-04-01

    Quantitative imaging has become a vital technique in biological discovery and clinical diagnostics; a plethora of tools have recently been developed to enable new and accelerated forms of biological investigation. Increasingly, the capacity for high-throughput experimentation provided by new imaging modalities, contrast techniques, microscopy tools, microfluidics and computer controlled systems shifts the experimental bottleneck from the level of physical manipulation and raw data collection to automated recognition and data processing. Yet, despite their broad importance, image analysis solutions to address these needs have been narrowly tailored. Here, we present a generalizable formulation for autonomous identification of specific biological structures that is applicable for many problems. The process flow architecture we present here utilizes standard image processing techniques and the multi-tiered application of classification models such as support vector machines (SVM). These low-level functions are readily available in a large array of image processing software packages and programming languages. Our framework is thus both easy to implement at the modular level and provides specific high-level architecture to guide the solution of more complicated image-processing problems. We demonstrate the utility of the classification routine by developing two specific classifiers as a toolset for automation and cell identification in the model organism Caenorhabditis elegans. To serve a common need for automated high-resolution imaging and behavior applications in the C. elegans research community, we contribute a ready-to-use classifier for the identification of the head of the animal under bright field imaging. Furthermore, we extend our framework to address the pervasive problem of cell-specific identification under fluorescent imaging, which is critical for biological investigation in multicellular organisms or tissues. Using these examples as a guide, we envision

  15. Automated Processing of Imaging Data through Multi-tiered Classification of Biological Structures Illustrated Using Caenorhabditis elegans

    PubMed Central

    Zhan, Mei; Crane, Matthew M.; Entchev, Eugeni V.; Caballero, Antonio; Fernandes de Abreu, Diana Andrea; Ch’ng, QueeLim; Lu, Hang

    2015-01-01

    Quantitative imaging has become a vital technique in biological discovery and clinical diagnostics; a plethora of tools have recently been developed to enable new and accelerated forms of biological investigation. Increasingly, the capacity for high-throughput experimentation provided by new imaging modalities, contrast techniques, microscopy tools, microfluidics and computer controlled systems shifts the experimental bottleneck from the level of physical manipulation and raw data collection to automated recognition and data processing. Yet, despite their broad importance, image analysis solutions to address these needs have been narrowly tailored. Here, we present a generalizable formulation for autonomous identification of specific biological structures that is applicable for many problems. The process flow architecture we present here utilizes standard image processing techniques and the multi-tiered application of classification models such as support vector machines (SVM). These low-level functions are readily available in a large array of image processing software packages and programming languages. Our framework is thus both easy to implement at the modular level and provides specific high-level architecture to guide the solution of more complicated image-processing problems. We demonstrate the utility of the classification routine by developing two specific classifiers as a toolset for automation and cell identification in the model organism Caenorhabditis elegans. To serve a common need for automated high-resolution imaging and behavior applications in the C. elegans research community, we contribute a ready-to-use classifier for the identification of the head of the animal under bright field imaging. Furthermore, we extend our framework to address the pervasive problem of cell-specific identification under fluorescent imaging, which is critical for biological investigation in multicellular organisms or tissues. Using these examples as a guide, we envision

  16. Europa's Northern Trailing Hemisphere: Lineament Stratigraphic Framework

    NASA Technical Reports Server (NTRS)

    Figueredo, P. H.; Hare, T.; Ricq, E.; Strom, K.; Greeley, R.; Tanaka, K.; Senske, D.

    2004-01-01

    Knowledge of the global distribution of Europan geologic units in time and space is a necessary step for the synthesis of the results of the Galileo mission and in preparation for future exploration (namely, by JIMO) of the satellite. We have initiated the production of the first Global Geological Map of Europa. As a base map, we use the recently published global photomosaic of Europa (U.S.G.S. Map I-2757) and additional Galileo SSI images at their original resolution. The map is being produced entirely on GIS format for analysis and combination with other datasets [1]. One of the main objectives of this project is to establish a global stratigraphic framework for Europa. In the absence of a well-developed cratering record, this goal will be achieved using the satellite s global network of lineaments (ridges, ridge complexes and bands; cf. [2]). Here we present the preliminary stratigraphic framework synthesized from the sequence of lineaments derived for the northern trailing hemisphere of Europa (Figure 1, below), and we discuss its significance and some emerging implications.

  17. Automated structural design with aeroelastic constraints - A review and assessment of the state of the art

    NASA Technical Reports Server (NTRS)

    Stroud, W. J.

    1974-01-01

    A review and assessment of the state of the art in automated aeroelastic design is presented. Most of the aeroelastic design studies appearing in the literature deal with flutter, and, therefore, this paper also concentrates on flutter. The flutter design problem is divided into three cases: as isolated flutter mode, neighboring flutter modes, and a hump mode which can rise and cause a sudden, discontinuous change in the flutter velocity. Synthesis procedures are presented in terms of techniques that are appropriate for problems of various levels of difficulty. Current trends, which should result in more efficient, powerful and versatile design codes, are discussed. Approximate analysis procedures and the need for simultaneous consideration of multiple design requirements are emphasized.

  18. Stratigraphic signature of meso- and macrotidal coastal sand body sequences

    SciTech Connect

    Davis, R.A. Jr. . Dept. of Geology)

    1993-03-01

    Numerous cores up to 4.6 m in length from the Wadden Sea of Germany and Louisa Creek, Queensland coast, Australia show a marked absence of tidal structures although spring tides of these two environments are > 3 m and > 6 m respectively. Both areas accumulate well-sorted sand with small amounts of shell and mud drapes or flasers. In the Wadden Sea tidal bedding is present locally and tidal bundles are present in cores from channel margins where megaripples are prominent. Cores from the tidal flats show ripple cross-strata formed by waves. Cores from Louisa Creek show no tidal bundling and little bidirectional cross-strata although the surface of the sand bodies is dominated by megaripples that reverse direction with the tidal cycles. These data suggest that much of the tidally influenced sedimentation that is preserved in the stratigraphic record will probably not be interpreted as such.

  19. Application of sulphur isotopes for stratigraphic correlation.

    PubMed

    Paytan, Adina; Gray, Ellen T; Ma, Zhongwu; Erhardt, Andrea; Faul, Kristina

    2012-01-01

    The sulphur isotopic composition of dissolved sulphate in seawater has varied considerably through time. Certain time intervals are characterised by distinct variations and a relatively high rate of change. These relatively rapid fluctuations allow for correlation of sediment sections using sulphur isotopes. Sulphur isotope reconstructions based on the analysis of carbonate associated sulphate or marine barite result in sulphur isotope records with an age resolution of 1-5 million years (Ma), and for some age intervals the resolution is<0.25 Ma. At these specific time intervals, where higher resolution records exist and excursions in the record are identified, the trends could be used for stratigraphic correlations. Such records are particularly useful in sections from deep marine sites that lack biostratigraphic controls or where biozones do not provide sufficient resolution.

  20. Stratigraphic and structural data for the Conasauga Group and the Rome Formation on the Copper Creek fault block near Oak Ridge, Tennessee: preliminary results from test borehole ORNL-JOY No. 2

    SciTech Connect

    Haase, C.S.; Walls, E.C.; Farmer, C.D.

    1985-06-01

    To resolve long-standing problems with the stratigraphy of the Conasauga Group and the Rome Formation on the Copper Creek fault block near Oak Ridge National Laboratory (ORNL), an 828.5-m-deep test borehole was drilled. Continuous rock core was recovered from the 17.7- to 828.5-m-deep interval; temperature, caliper, neutron, gamma-ray, and acoustic (velocity and televiewer) logs were obtained. The Conasauga Group at the study site is 572.4 m thick and comprises six formations that are - in descending stratigraphic order - Maynardville Limestone (98.8 m), Nolichucky Shale (167.9 m), Maryville Limestone (141.1 m), Rogersville Shale (39.6 m), Rutledge Limestone (30.8 m), and Pumpkin Valley Shale (94.2 m). The formations are lithologically complex, ranging from clastics that consist of shales, mudstones, and siltstones to carbonates that consist of micrites, wackestones, packstones, and conglomerates. The Rome Formation is 188.1 m thick and consists of variably bedded mudstones, siltstones, and sandstones. The Rome Formation thickness represents 88.1 m of relatively undeformed section and 100.0 m of highly deformed, jumbled, and partially repeated section. The bottom of the Rome Formation is marked by a tectonic disconformity that occurs within a 46-m-thick, intensely deformed interval caused by motion along the Copper Creek fault. Results from this study establish the stratigraphy and the lithology of the Conasauga Group and the Rome Formation near ORNL and, for the first time, allow for the unambiguous correlation of cores and geophysical logs from boreholes elsewhere in the ORNL vicinity. 45 refs., 26 figs., 2 tabs.

  1. 3D Stratigraphic Modeling of Central Aachen

    NASA Astrophysics Data System (ADS)

    Dong, M.; Neukum, C.; Azzam, R.; Hu, H.

    2010-05-01

    Since 1980s, advanced computer hardware and software technologies, as well as multidisciplinary research have provided possibilities to develop advanced three dimensional (3D) simulation software for geosciences application. Some countries, such as USA1) and Canada2) 3), have built up regional 3D geological models based on archival geological data. Such models have played huge roles in engineering geology2), hydrogeology2) 3), geothermal industry1) and so on. In cooperating with the Municipality of Aachen, the Department of Engineering Geology of RWTH Aachen University have built up a computer-based 3D stratigraphic model of 50 meter' depth for the center of Aachen, which is a 5 km by 7 km geologically complex area. The uncorrelated data from multi-resources, discontinuous nature and unconformable connection of the units are main challenges for geological modeling in this area. The reliability of 3D geological models largely depends on the quality and quantity of data. Existing 1D and 2D geological data were collected, including 1) approximately 6970 borehole data of different depth compiled in Microsoft Access database and MapInfo database; 2) a Digital Elevation Model (DEM); 3) geological cross sections; and 4) stratigraphic maps in 1m, 2m and 5m depth. Since acquired data are of variable origins, they were managed step by step. The main processes are described below: 1) Typing errors of borehole data were identified and the corrected data were exported to Variowin2.2 to distinguish duplicate points; 2) The surface elevation of borehole data was compared to the DEM, and differences larger than 3m were eliminated. Moreover, where elevation data missed, it was read from the DEM; 3) Considerable data were collected from municipal constructions, such as residential buildings, factories, and roads. Therefore, many boreholes are spatially clustered, and only one or two representative points were picked out in such areas; After above procedures, 5839 boreholes with -x

  2. Sedimentological indicators of paleoenvironments and siliciclastic stratigraphic sequences in some Miocene deposits of the Calvert Cliffs, southern Maryland

    USGS Publications Warehouse

    Shideler, G.L.

    1994-01-01

    Middle Miocene siliciclastic deposits comprising the Calvert Cliffs section at the Baltimore Gas and Electric Company's (BG&E) nuclear power plant site in southern Maryland were analyzed in terms of lithostratigraphy, sedimentary structures, and granulometric parameters, to interprete paleo-environments within a sequence-stratigraphic framework. In terms of sequence-stratigraphic models, the BG&E section can be interpreted as consisting of two genetic stratigraphic sequences (Galloway model), namely, a shelf sequence and an overlying deltaic sequence. Using the Exxon model, the section consists of two third-order (1-5 m.y. duration) depositional sequences. The stratigraphic sequences of the BG&E section reflect both relatively short-term eustatic transgressive events, as well as a long-term regressive trend with associated local deltation and coastal progradation. The regression probably signified a regional basinward shift of depocenters within the Salisbury embayment during Miocene time. -from Author

  3. Automated retrieval of forest structure variables based on multi-scale texture analysis of VHR satellite imagery

    NASA Astrophysics Data System (ADS)

    Beguet, Benoit; Guyon, Dominique; Boukir, Samia; Chehata, Nesrine

    2014-10-01

    The main goal of this study is to design a method to describe the structure of forest stands from Very High Resolution satellite imagery, relying on some typical variables such as crown diameter, tree height, trunk diameter, tree density and tree spacing. The emphasis is placed on the automatization of the process of identification of the most relevant image features for the forest structure retrieval task, exploiting both spectral and spatial information. Our approach is based on linear regressions between the forest structure variables to be estimated and various spectral and Haralick's texture features. The main drawback of this well-known texture representation is the underlying parameters which are extremely difficult to set due to the spatial complexity of the forest structure. To tackle this major issue, an automated feature selection process is proposed which is based on statistical modeling, exploring a wide range of parameter values. It provides texture measures of diverse spatial parameters hence implicitly inducing a multi-scale texture analysis. A new feature selection technique, we called Random PRiF, is proposed. It relies on random sampling in feature space, carefully addresses the multicollinearity issue in multiple-linear regression while ensuring accurate prediction of forest variables. Our automated forest variable estimation scheme was tested on Quickbird and Pléiades panchromatic and multispectral images, acquired at different periods on the maritime pine stands of two sites in South-Western France. It outperforms two well-established variable subset selection techniques. It has been successfully applied to identify the best texture features in modeling the five considered forest structure variables. The RMSE of all predicted forest variables is improved by combining multispectral and panchromatic texture features, with various parameterizations, highlighting the potential of a multi-resolution approach for retrieving forest structure

  4. Subsurface geology of the Lusi region: preliminary results from a comprehensive seismic-stratigraphic study.

    NASA Astrophysics Data System (ADS)

    Moscariello, Andrea; Do Couto, Damien; Lupi, Matteo; Mazzini, Adriano

    2016-04-01

    We investigate the subsurface data of a large sector in the Sidoarjo district (East Java, Indonesia) where the sudden catastrophic Lusi eruption started the 26th May 2006. Our goal is to understand the stratigraphic and structural features which can be genetically related to the surface manifestations of deep hydrothermal fluids and thus allow us to predict possible future similar phenomena in the region. In the framework of the Lusi Lab project (ERC grant n° 308126) we examined a series of densely spaced 2D reflection commercial seismic lines This allowed the reconstruction of the lateral variability of key stratigraphic horizons as well as the main tectonic features. In particular, we shed light on the deep structure of the Watukosek fault system and the associated fracture corridors crossing the entire stratigraphic successions. To the South-West, when approaching the volcanic complex, we could identify a clear contrast in seismic facies between chaotic volcanoclastic wedges and clastic-prone sedimentary successions as well as between the deeper stratigraphic units consisting of carbonates and lateral shales units. The latter show possible ductile deformation associated to fault-controlled diapirism which control in turns deformation of overlying stratigraphic units and deep geo-fluids circulation. Large collapse structures recognized in the study area (e.g. well PRG-1) are interpreted as the results of shale movement at depth. Similarly to Lusi, vertical deformation zones ("pipes"), likely associated with deeply rooted strike-slip systems seem to be often located at the interface between harder carbonate rocks forming isolated build ups and the laterally nearby clastic (shale-prone)-units. The mechanisms of deformation of structural features (strike vs dip slip systems) which may affect either the basement rock or the overlying deeper stratigraphic rocks is also being investigated to understand the relationship between deep and shallower (i.e. meteoric) fluid

  5. The role of social and ecological processes in structuring animal populations: a case study from automated tracking of wild birds.

    PubMed

    Farine, Damien R; Firth, Josh A; Aplin, Lucy M; Crates, Ross A; Culina, Antica; Garroway, Colin J; Hinde, Camilla A; Kidd, Lindall R; Milligan, Nicole D; Psorakis, Ioannis; Radersma, Reinder; Verhelst, Brecht; Voelkl, Bernhard; Sheldon, Ben C

    2015-04-01

    Both social and ecological factors influence population process and structure, with resultant consequences for phenotypic selection on individuals. Understanding the scale and relative contribution of these two factors is thus a central aim in evolutionary ecology. In this study, we develop a framework using null models to identify the social and spatial patterns that contribute to phenotypic structure in a wild population of songbirds. We used automated technologies to track 1053 individuals that formed 73 737 groups from which we inferred a social network. Our framework identified that both social and spatial drivers contributed to assortment in the network. In particular, groups had a more even sex ratio than expected and exhibited a consistent age structure that suggested local association preferences, such as preferential attachment or avoidance. By contrast, recent immigrants were spatially partitioned from locally born individuals, suggesting differential dispersal strategies by phenotype. Our results highlight how different scales of social decision-making, ranging from post-natal dispersal settlement to fission-fusion dynamics, can interact to drive phenotypic structure in animal populations.

  6. The role of social and ecological processes in structuring animal populations: a case study from automated tracking of wild birds

    PubMed Central

    Farine, Damien R.; Firth, Josh A.; Aplin, Lucy M.; Crates, Ross A.; Culina, Antica; Garroway, Colin J.; Hinde, Camilla A.; Kidd, Lindall R.; Milligan, Nicole D.; Psorakis, Ioannis; Radersma, Reinder; Verhelst, Brecht; Voelkl, Bernhard; Sheldon, Ben C.

    2015-01-01

    Both social and ecological factors influence population process and structure, with resultant consequences for phenotypic selection on individuals. Understanding the scale and relative contribution of these two factors is thus a central aim in evolutionary ecology. In this study, we develop a framework using null models to identify the social and spatial patterns that contribute to phenotypic structure in a wild population of songbirds. We used automated technologies to track 1053 individuals that formed 73 737 groups from which we inferred a social network. Our framework identified that both social and spatial drivers contributed to assortment in the network. In particular, groups had a more even sex ratio than expected and exhibited a consistent age structure that suggested local association preferences, such as preferential attachment or avoidance. By contrast, recent immigrants were spatially partitioned from locally born individuals, suggesting differential dispersal strategies by phenotype. Our results highlight how different scales of social decision-making, ranging from post-natal dispersal settlement to fission–fusion dynamics, can interact to drive phenotypic structure in animal populations. PMID:26064644

  7. Cockpit automation

    NASA Technical Reports Server (NTRS)

    Wiener, Earl L.

    1988-01-01

    The aims and methods of aircraft cockpit automation are reviewed from a human-factors perspective. Consideration is given to the mixed pilot reception of increased automation, government concern with the safety and reliability of highly automated aircraft, the formal definition of automation, and the ground-proximity warning system and accidents involving controlled flight into terrain. The factors motivating automation include technology availability; safety; economy, reliability, and maintenance; workload reduction and two-pilot certification; more accurate maneuvering and navigation; display flexibility; economy of cockpit space; and military requirements.

  8. Advances in inspection automation

    NASA Astrophysics Data System (ADS)

    Weber, Walter H.; Mair, H. Douglas; Jansen, Dion; Lombardi, Luciano

    2013-01-01

    This new session at QNDE reflects the growing interest in inspection automation. Our paper describes a newly developed platform that makes the complex NDE automation possible without the need for software programmers. Inspection tasks that are tedious, error-prone or impossible for humans to perform can now be automated using a form of drag and drop visual scripting. Our work attempts to rectify the problem that NDE is not keeping pace with the rest of factory automation. Outside of NDE, robots routinely and autonomously machine parts, assemble components, weld structures and report progress to corporate databases. By contrast, components arriving in the NDT department typically require manual part handling, calibrations and analysis. The automation examples in this paper cover the development of robotic thickness gauging and the use of adaptive contour following on the NRU reactor inspection at Chalk River.

  9. Fully Automated and Robust Tracking of Transient Waves in Structured Anatomies Using Dynamic Programming.

    PubMed

    Akkus, Zeynettin; Bayat, Mahdi; Cheong, Mathew; Viksit, Kumar; Erickson, Bradley J; Alizad, Azra; Fatemi, Mostafa

    2016-10-01

    Tissue stiffness is often linked to underlying pathology and can be quantified by measuring the mechanical transient transverse wave speed (TWS) within the medium. Time-of-flight methods based on correlation of the transient signals or tracking of peaks have been used to quantify the TWS from displacement maps obtained with ultrasound pulse-echo techniques. However, it is challenging to apply these methods to in vivo data because of tissue inhomogeneity, noise and artifacts that produce outliers. In this study, we introduce a robust and fully automated method based on dynamic programming to estimate TWS in tissues with known geometries. The method is validated using ultrasound bladder vibrometry data from an in vivo study. We compared the results of our method with those of time-of-flight techniques. Our method performs better than time-of-flight techniques. In conclusion, we present a robust and accurate TWS detection method that overcomes the difficulties of time-of-flight methods.

  10. Fully Automated and Robust Tracking of Transient Waves in Structured Anatomies Using Dynamic Programming.

    PubMed

    Akkus, Zeynettin; Bayat, Mahdi; Cheong, Mathew; Viksit, Kumar; Erickson, Bradley J; Alizad, Azra; Fatemi, Mostafa

    2016-10-01

    Tissue stiffness is often linked to underlying pathology and can be quantified by measuring the mechanical transient transverse wave speed (TWS) within the medium. Time-of-flight methods based on correlation of the transient signals or tracking of peaks have been used to quantify the TWS from displacement maps obtained with ultrasound pulse-echo techniques. However, it is challenging to apply these methods to in vivo data because of tissue inhomogeneity, noise and artifacts that produce outliers. In this study, we introduce a robust and fully automated method based on dynamic programming to estimate TWS in tissues with known geometries. The method is validated using ultrasound bladder vibrometry data from an in vivo study. We compared the results of our method with those of time-of-flight techniques. Our method performs better than time-of-flight techniques. In conclusion, we present a robust and accurate TWS detection method that overcomes the difficulties of time-of-flight methods. PMID:27425150

  11. Deposit3D: a tool for automating structure depositions to the Protein Data Bank

    SciTech Connect

    Badger, J. Hendle, J.; Burley, S. K.; Kissinger, C. R.

    2005-09-01

    This paper describes a Python script that may be used to gather all required structure-annotation information into an mmCIF file for upload through the RCSB PDB ADIT structure-deposition interface. Almost all successful protein structure-determination projects in the public sector culminate in a structure deposition to the Protein Data Bank (PDB). In order to expedite the deposition proces, Deposit3D has been developed. This command-line script calculates or gathers all the required structure-deposition information and outputs this data into a mmCIF file for subsequent upload through the RCSB PDB ADIT interface. Deposit3D might be particularly useful for structural genomics pipeline projects because it allows workers involved with various stages of a structure-determination project to pool their different categories of annotation information before starting a deposition session.

  12. Spectral stratigraphy: multispectral remote sensing as a stratigraphic tool, Wind River/Big Horn basin, Wyoming

    SciTech Connect

    Lang, H.R.; Paylor, E.D.

    1987-05-01

    Stratigraphic and structural analyses of the Wind River and Big Horn basins areas of central Wyoming are in progress. One result has been the development of a new approach to stratigraphic and structural analysis that uses photogeologic and spectral interpretation of multispectral image data to remotely characterize the attitude, thickness, and lithology of strata. New multispectral systems that have only been available since 1982 are used with topographic data to map upper paleozoic and Mesozoic strata exposed on the southern margin of the Bighorn Mountains. Thematic Mapper (TM) satellite data together with topographic data are used to map lithologic contacts, measure dip and strike, and develop a stratigraphic column that is correlated with conventional surface and subsurface sections. Aircraft-acquired Airborne Imaging Spectrometer and Thermal Infrared Multispectral Scanner data add mineralogical information to the TM column, including the stratigraphic distribution of quartz, calcite, dolomite, montmorillonite, and gypsum. Results illustrate an approach that has general applicability in other geologic investigations that could benefit from remotely acquired information about areal variations in attitude, sequence, thickness, and lithology of strata exposed at the Earth's surface. Application of their methods elsewhere is limited primarily by availability of multispectral and topographic data and quality of bedrock exposures.

  13. Method and system for automated on-chip material and structural certification of MEMS devices

    DOEpatents

    Sinclair, Michael B.; DeBoer, Maarten P.; Smith, Norman F.; Jensen, Brian D.; Miller, Samuel L.

    2003-05-20

    A new approach toward MEMS quality control and materials characterization is provided by a combined test structure measurement and mechanical response modeling approach. Simple test structures are cofabricated with the MEMS devices being produced. These test structures are designed to isolate certain types of physical response, so that measurement of their behavior under applied stress can be easily interpreted as quality control and material properties information.

  14. Seismic attenuation of the inner core: Viscoelastic or stratigraphic?

    USGS Publications Warehouse

    Cormier, V.F.; Xu, L.; Choy, G.L.

    1998-01-01

    Broadband velocity waveforms of PKIKP in the distance range 150??to 180??are inverted for inner core attenuation. A mean Q?? of 244 is determined at 1 Hz from 8 polar and 9 equatorial paths. The scatter in measured Q-1 exceeds individual error estimates, suggesting significant variation in attenuation with path. These results are interpreted by (1) viscoelasticity, in which the relaxation spectrum has a low-frequency corner near or slightly above the frequency band of short-period body waves, and by (2) stratigraphic (scattering) attenuation, in which attenuation and pulse broadening are caused by the interference of scattered multiples in a velocity structure having rapid fluctuations along a PKIKP path. In the scattering interpretation, PKIKP attenuation is only weakly affected by the intrinsic shear attenuation measured in the free-oscillation band. Instead, its frequency dependence, path variations, and fluctuations are all explained by scattering attenuation in a heterogeneous fabric resulting from solidification texturing of intrinsically anisotropic iron. The requisite fabric may consist of either single or ordered groups of crystals with P velocity differences of at least 5% and as much as 12% between two crystallographic axes at scale lengths of 0.5 to 2 km in the direction parallel to the axis of rotation and longer in the cylindrically radial direction, perpendicular to the axis of rotation.Broadband velocity waveforms of PKIKP in the distance range 150?? to 180?? are inverted for inner core attenuation. A mean Q?? of 244 is determined at 1 Hz from 8 polar and 9 equatorial paths. The scatter in the measured Q-1 exceeds individual error estimates, indicating significant variation in attenuation with path. The results are interpreted by viscoelasticity and stratigraphic (scattering) attenuation.

  15. Automated detection and labeling of high-density EEG electrodes from structural MR images

    NASA Astrophysics Data System (ADS)

    Marino, Marco; Liu, Quanying; Brem, Silvia; Wenderoth, Nicole; Mantini, Dante

    2016-10-01

    Objective. Accurate knowledge about the positions of electrodes in electroencephalography (EEG) is very important for precise source localizations. Direct detection of electrodes from magnetic resonance (MR) images is particularly interesting, as it is possible to avoid errors of co-registration between electrode and head coordinate systems. In this study, we propose an automated MR-based method for electrode detection and labeling, particularly tailored to high-density montages. Approach. Anatomical MR images were processed to create an electrode-enhanced image in individual space. Image processing included intensity non-uniformity correction, background noise and goggles artifact removal. Next, we defined a search volume around the head where electrode positions were detected. Electrodes were identified as local maxima in the search volume and registered to the Montreal Neurological Institute standard space using an affine transformation. This allowed the matching of the detected points with the specific EEG montage template, as well as their labeling. Matching and labeling were performed by the coherent point drift method. Our method was assessed on 8 MR images collected in subjects wearing a 256-channel EEG net, using the displacement with respect to manually selected electrodes as performance metric. Main results. Average displacement achieved by our method was significantly lower compared to alternative techniques, such as the photogrammetry technique. The maximum displacement was for more than 99% of the electrodes lower than 1 cm, which is typically considered an acceptable upper limit for errors in electrode positioning. Our method showed robustness and reliability, even in suboptimal conditions, such as in the case of net rotation, imprecisely gathered wires, electrode detachment from the head, and MR image ghosting. Significance. We showed that our method provides objective, repeatable and precise estimates of EEG electrode coordinates. We hope our work

  16. ArchDB: automated protein loop classification as a tool for structural genomics.

    PubMed

    Espadaler, Jordi; Fernandez-Fuentes, Narcis; Hermoso, Antonio; Querol, Enrique; Aviles, Francesc X; Sternberg, Michael J E; Oliva, Baldomero

    2004-01-01

    The annotation of protein function has become a crucial problem with the advent of sequence and structural genomics initiatives. A large body of evidence suggests that protein structural information is frequently encoded in local sequences, and that folds are mainly made up of a number of simple local units of super-secondary structural motifs, consisting of a few secondary structures and their connecting loops. Moreover, protein loops play an important role in protein function. Here we present ArchDB, a classification database of structural motifs, consisting of one loop plus its bracing secondary structures. ArchDB currently contains 12,665 super-secondary elements classified into 1496 motif subclasses. The database provides an easy way to retrieve functional information from protein structures sharing a common motif, to search motifs found in a given SCOP family, superfamily or fold, or to search by keywords on proteins with classified loops. The ArchDB database of loops is located at http://sbi.imim.es/archdb. PMID:14681390

  17. Semi-automated measurement of anatomical structures using statistical and morphological priors

    NASA Astrophysics Data System (ADS)

    Ashton, Edward A.; Du, Tong

    2004-05-01

    Rapid, accurate and reproducible delineation and measurement of arbitrary anatomical structures in medical images is a widely held goal, with important applications in both clinical diagnostics and, perhaps more significantly, pharmaceutical trial evaluation. This process requires the ability first to localize a structure within the body, and then to find a best approximation of the structure"s boundaries within a given scan. Structures that are tortuous and small in cross section, such as the hippocampus in the brain or the abdominal aorta, present a particular challenge. Their apparent shape and position can change significantly from slice to slice, and accurate prior shape models for such structures are often difficult to form. In this work, we have developed a system that makes use of both a user-defined shape model and a statistical maximum likelihood classifier to identify and measure structures of this sort in MRI and CT images. Experiments show that this system can reduce analysis time by 75% or more with respect to manual tracing with no loss of precision or accuracy.

  18. A semi-automated system for the characterization of NLC accelerating structures

    SciTech Connect

    Hanna, S.M.; Bowden, G.B.; Hoag, H.A.; Loewen, R.; Vlieks, A.E.; Wang, J.W.

    1995-06-01

    *A system for characterizing the phase shift per cell of a long X-band accelerator structure is described. The fields within the structure are perturbed by a small cylindrical metal bead pulled along the axis. A computer controls the bead position and processes the data from a network analyzer connected to the accelerator section. Measurements made on prototype accelerator sections are described, and they are shown to be in good agreement with theory.

  19. Automated Lipid A Structure Assignment from Hierarchical Tandem Mass Spectrometry Data

    NASA Astrophysics Data System (ADS)

    Ting, Ying S.; Shaffer, Scott A.; Jones, Jace W.; Ng, Wailap V.; Ernst, Robert K.; Goodlett, David R.

    2011-05-01

    Infusion-based electrospray ionization (ESI) coupled to multiple-stage tandem mass spectrometry (MS n ) is a standard methodology for investigating lipid A structural diversity (Shaffer et al. J. Am. Soc. Mass. Spectrom. 18(6), 1080-1092, 2007). Annotation of these MS n spectra, however, has remained a manual, expert-driven process. In order to keep up with the data acquisition rates of modern instruments, we devised a computational method to annotate lipid A MS n spectra rapidly and automatically, which we refer to as hierarchical tandem mass spectrometry (HiTMS) algorithm. As a first-pass tool, HiTMS aids expert interpretation of lipid A MS n data by providing the analyst with a set of candidate structures that may then be confirmed or rejected. HiTMS deciphers the signature ions (e.g., A-, Y-, and Z-type ions) and neutral losses of MS n spectra using a species-specific library based on general prior structural knowledge of the given lipid A species under investigation. Candidates are selected by calculating the correlation between theoretical and acquired MS n spectra. At a false discovery rate of less than 0.01, HiTMS correctly assigned 85% of the structures in a library of 133 manually annotated Francisella tularensis subspecies novicida lipid A structures. Additionally, HiTMS correctly assigned 85% of the structures in a smaller library of lipid A species from Yersinia pestis demonstrating that it may be used across species.

  20. Stratigraphic evolution of paleozoic erathem, northern Florida

    SciTech Connect

    Coleman, J.L. Jr.

    1985-02-01

    Unmetamorphosed Paleozoic sedimentary and volcanic rocks have been drilled in numerous wells throughout northern Florida and southern Georgia, in what is today a gently folded and block-faulted relict continental fragment of northwest Africa and northeast South America. Stratigraphic and lithologic equivalents of these North American Paleozoic units are prolific hydrocarbon producers in North Africa. The northern Florida Paleozoic sediments were deposited on Pan-African and Cadoman basement. Widespread continental glaciation from late Precambrian to Early Cambrian introduced a thick sequence of fine-grained marine sandstones (glacial flour), which overlie medium to coarse-grained glaciofluvial sandstones. Basinward of the sand shelf, the accretion of a volcanic island arc complex began during the Ordovician. A fluctuating transgression, accompanying a major glacial minimum, brought open-marine, graptolitic, black shales onto the sand shelf, producing an interbedded shoreface-shelf sand and black shale section during the Middle and Late Ordovician. At the Ordovician-Silurian boundary, renewed continental glaciation lowered sea level, producing a widespread unconformity. A Late Silurian major marine transgression returned black, graptolitic, highly organic shales onto the sand shelf. Devonian deltaic sands from Avalonia(.) to the north and the craton to the south closed the Paleozoic sedimentary record of northern Florida.

  1. Economics of Developing Hot Stratigraphic Reservoirs

    SciTech Connect

    Greg Mines; Hillary Hanson; Rick Allis; Joseph Moore

    2014-09-01

    Stratigraphic geothermal reservoirs at 3 – 4 km depth in high heat-flow basins are capable of sustaining 100 MW-scale power plants at about 10 c/kWh. This paper examines the impacts on the levelized cost of electricity (LCOE) of reservoir depth and temperature, reservoir productivity, and drillhole/casing options. For a reservoir at 3 km depth with a moderate productivity index by hydrothermal reservoir standards (about 50 L/s/MPa, 5.6 gpm/psi), an LCOE of 10c/kWh requires the reservoir to be at about 200°C. This is the upper temperature limit for pumps. The calculations assume standard hydrothermal drilling costs, with the production interval completed with a 7 inch liner in an 8.5 inch hole. If a reservoir at 4 km depth has excellent permeability characteristics with a productivity index of 100 L/s/MPa (11.3 gpm/psi), then the LCOE is about 11 c/kWh assuming the temperature decline rate with development is not excessive (< 1%/y, with first thermal breakthrough delayed by about 10 years). Completing wells with modest horizontal legs (e.g. several hundred meters) may be important for improving well productivity because of the naturally high, sub-horizontal permeability in this type of reservoir. Reducing the injector/producer well ratio may also be cost-effective if the injectors are drilled as larger holes.

  2. Stratigraphic test well, Nantucket Island, Massachusetts

    USGS Publications Warehouse

    Folger, David W.; Hathaway, J.C.; Christopher, R.A.; Valentine, P.C.; Poag, C.W.

    1978-01-01

    The U.S. Geological Survey, in cooperation with the Massachusetts Water Resources Commission and the Nantucket Conservation Foundation, continuously cored 514 m of sediment and volcanic rock in a stratigraphic and water-quality test near the geographic center of Nantucket Island. Stratified sediments were divided texturally into three zones: the upper zone (0-128 m) contains mostly coarse sand and gravel; the middle zone (128-349 m) contains mostly silty clay and a few beds of sand and silt; and the lower zone (349-457 m) contains soft, unconsolidated, clayey sand. Below the lower zone, a saprolite, composed mostly of clay, grades abruptly downward at 470 m into partially altered basalt that extends to the bottom of the hole at 514 m. Calculations based on the Ghyben-Herzberg principle predicted a zone of freshwater 120-150 m thick. This principle is the theory of hydrostatic equilibrium between freshwater and more dense seawater in a coastal aquifer; it states that for each meter of ground-water elevation above sea level, the freshwater lens will depress the saltwater interface about 40 m below sea level. Freshwater or low-salinity brackish water was found in sediments far below the depth predicted by the Ghyben-Herzberg principle. These interstitial waters are probably relict ground water emplaced during times of low sea level during the Pleistocene. (Woodard-USGS)

  3. Tectono-stratigraphic terrane map of Alaska

    SciTech Connect

    Nokleberg, W.J.; Brew, D.A.; Grantz, A.; Plafker, G.; Moore, T.E.; Patton, W.W. Jr. ); Mollstalcup, E.J. ); Miller, T.P. )

    1993-04-01

    A new terrane map compelled at a scale of 2.5 million is a comprehensive portrayal of the major tectono-stratigraphic terranes, pre-accretionary plutonic rocks, faults or sutures that bound terranes, and younger overlap sedimentary , volcanic, and plutonic assemblages of Alaska. Terranes are divided by tectonic affinity into cratonal, passive continental margin, metamorphosed continental margin, continental margin arc, island arc, oceanic crust, sea mount, ophiolite, accretionary wedge, subduction zone, turbidite basin, and metamorphic environments. Overlap assemblages consist of sequences of sedimentary, volcanic, and plutonic rocks that link or weld together adjacent terranes after emplacement, and provide important constraints on the timing of tectonic juxtaposition. Groups of terranes and overlap assemblages, with similar tectonic environments and geologic histories, can be correlated within Alaska and into the adjacent Canadian Cordillera. These groups include: (1) highly deformed and metamorphosed continental margin terranes (Seward, Coldfoot, Ruby, Yukon-Tanana, Kootenay) that are interpreted either as displaced fragments of the North American or other continental margins; (2) ophiolite terranes (Angayucham, Tozitna, Inoko, Seventymile, Slide Mountain) that are interpreted as remnants of one or more major, long-lived, Paleozoic and early Mesozoic oceanic basins; (3) Jurassic and Early Cretaceous island arc terranes (Koyukuk, Togiak, Nyac) that are interpreted as remnants of a discontinuous, short-lived, Mesoxoic island arc system; and (4) the Late Jurassic and Early Cretaceous Kahiltna and Gravina-Nutzotin overlap assemblages that are interpreted as parts of a major arc and flysch sequence.

  4. Probabilistic sequence alignment of stratigraphic records

    NASA Astrophysics Data System (ADS)

    Lin, Luan; Khider, Deborah; Lisiecki, Lorraine E.; Lawrence, Charles E.

    2014-10-01

    The assessment of age uncertainty in stratigraphically aligned records is a pressing need in paleoceanographic research. The alignment of ocean sediment cores is used to develop mutually consistent age models for climate proxies and is often based on the δ18O of calcite from benthic foraminifera, which records a global ice volume and deep water temperature signal. To date, δ18O alignment has been performed by manual, qualitative comparison or by deterministic algorithms. Here we present a hidden Markov model (HMM) probabilistic algorithm to find 95% confidence bands for δ18O alignment. This model considers the probability of every possible alignment based on its fit to the δ18O data and transition probabilities for sedimentation rate changes obtained from radiocarbon-based estimates for 37 cores. Uncertainty is assessed using a stochastic back trace recursion to sample alignments in exact proportion to their probability. We applied the algorithm to align 35 late Pleistocene records to a global benthic δ18O stack and found that the mean width of 95% confidence intervals varies between 3 and 23 kyr depending on the resolution and noisiness of the record's δ18O signal. Confidence bands within individual cores also vary greatly, ranging from ~0 to >40 kyr. These alignment uncertainty estimates will allow researchers to examine the robustness of their conclusions, including the statistical evaluation of lead-lag relationships between events observed in different cores.

  5. Comparison of the bacterial community structure within the equine hindgut and faeces using Automated Ribosomal Intergenic Spacer Analysis (ARISA).

    PubMed

    Sadet-Bourgeteau, S; Philippeau, C; Dequiedt, S; Julliand, V

    2014-12-01

    The horse's hindgut bacterial ecosystem has often been studied using faecal samples. However few studies compared both bacterial ecosystems and the validity of using faecal samples may be questionable. Hence, the present study aimed to compare the structure of the equine bacterial community in the hindgut (caecum, right ventral colon) and faeces using a fingerprint technique known as Automated Ribosomal Intergenic Spacer Analysis (ARISA). Two DNA extraction methods were also assessed. Intestinal contents and faeces were sampled 3 h after the morning meal on four adult fistulated horses fed meadow hay and pelleted concentrate. Irrespective of the intestinal segment, Principal Component Analysis of ARISA profiles showed a strong individual effect (P<0.0001). However, across the study, faecal bacterial community structure significantly (P<0.001) differed from those of the caecum and colon, while there was no difference between the two hindgut communities. The use of a QIAamp(®) DNA Stool Mini kit increased the quality of DNA extracted irrespective of sample type. The differences observed between faecal and hindgut bacterial communities challenge the use of faeces as a representative for hindgut activity. Further investigations are necessary to compare bacterial activity between the hindgut and faeces in order to understand the validity of using faecal samples. PMID:25075719

  6. Shearing along faults and stratigraphic joints controlled by land subsidence in the Valley of Queretaro, Mexico

    NASA Astrophysics Data System (ADS)

    Carreón-Freyre, D.; Cerca, M.; Ochoa-González, G.; Teatini, P.; Zuñiga, F. R.

    2016-05-01

    Slip of nearly vertical faults or horizontal stratigraphic joints has provoked the shearing of at least 16 well casings in a period of over 10 years in the Valley of Queretaro aquifer, Mexico. Evidence integrated from field observations, remote surface-deformation monitoring, in-situ monitoring, stratigraphic correlation, and numerical modeling indicate that groundwater depletion and land subsidence induce shearing. Two main factors conditioning the stress distribution and the location of sheared well casings have been identified: (1) slip on fault planes, and (2) slip on stratigraphic joints. Additionally, the distribution of piezometric gradients may be a factor that enhances shearing. Slip on faults can be generated either by the compaction of sedimentary units (passive faulting) or by slip of blocks delimited by pre-existing faults (reactivation). Major piezometric-level declines and the distribution of hydraulic gradients can also be associated with slip at stratigraphic joints. Faults and hydraulic contrasts in the heterogeneous rock sequence, along with groundwater extraction, influence the distribution of the gradients and delimit the compartments of groundwater in the aquifer. Analogue modeling allowed assessment of the distribution of stress-strain and displacements associated with the increase of the vertical stress. Fault-bounded aquifers in grabens are common in the central part of Mexico and the results obtained can be applied to other subsiding, structurally controlled aquifer systems elsewhere.

  7. Integration of the stratigraphic aspects of very large sea-floor databases using information processing

    USGS Publications Warehouse

    Jenkins, Clinton N.; Flocks, J.; Kulp, M.; ,

    2006-01-01

    Information-processing methods are described that integrate the stratigraphic aspects of large and diverse collections of sea-floor sample data. They efficiently convert common types of sea-floor data into database and GIS (geographical information system) tables, visual core logs, stratigraphic fence diagrams and sophisticated stratigraphic statistics. The input data are held in structured documents, essentially written core logs that are particularly efficient to create from raw input datasets. Techniques are described that permit efficient construction of regional databases consisting of hundreds of cores. The sedimentological observations in each core are located by their downhole depths (metres below sea floor - mbsf) and also by a verbal term that describes the sample 'situation' - a special fraction of the sediment or position in the core. The main processing creates a separate output event for each instance of top, bottom and situation, assigning top-base mbsf values from numeric or, where possible, from word-based relative locational information such as 'core catcher' in reference to sampler device, and recovery or penetration length. The processing outputs represent the sub-bottom as a sparse matrix of over 20 sediment properties of interest, such as grain size, porosity and colour. They can be plotted in a range of core-log programs including an in-built facility that better suits the requirements of sea-floor data. Finally, a suite of stratigraphic statistics are computed, including volumetric grades, overburdens, thicknesses and degrees of layering. ?? The Geological Society of London 2006.

  8. Using Structure-Based Organic Chemistry Online Tutorials with Automated Correction for Student Practice and Review

    ERIC Educational Resources Information Center

    O'Sullivan, Timothy P.; Hargaden, Gra´inne C.

    2014-01-01

    This article describes the development and implementation of an open-access organic chemistry question bank for online tutorials and assessments at University College Cork and Dublin Institute of Technology. SOCOT (structure-based organic chemistry online tutorials) may be used to supplement traditional small-group tutorials, thereby allowing…

  9. Automated global structure extraction for effective local building block processing in XCS.

    PubMed

    Butz, Martin V; Pelikan, Martin; Llorà, Xavier; Goldberg, David E

    2006-01-01

    Learning Classifier Systems (LCSs), such as the accuracy-based XCS, evolve distributed problem solutions represented by a population of rules. During evolution, features are specialized, propagated, and recombined to provide increasingly accurate subsolutions. Recently, it was shown that, as in conventional genetic algorithms (GAs), some problems require efficient processing of subsets of features to find problem solutions efficiently. In such problems, standard variation operators of genetic and evolutionary algorithms used in LCSs suffer from potential disruption of groups of interacting features, resulting in poor performance. This paper introduces efficient crossover operators to XCS by incorporating techniques derived from competent GAs: the extended compact GA (ECGA) and the Bayesian optimization algorithm (BOA). Instead of simple crossover operators such as uniform crossover or one-point crossover, ECGA or BOA-derived mechanisms are used to build a probabilistic model of the global population and to generate offspring classifiers locally using the model. Several offspring generation variations are introduced and evaluated. The results show that it is possible to achieve performance similar to runs with an informed crossover operator that is specifically designed to yield ideal problem-dependent exploration, exploiting provided problem structure information. Thus, we create the first competent LCSs, XCS/ECGA and XCS/BOA, that detect dependency structures online and propagate corresponding lower-level dependency structures effectively without any information about these structures given in advance.

  10. Automated assignment of NMR chemical shifts based on a known structure and 4D spectra.

    PubMed

    Trautwein, Matthias; Fredriksson, Kai; Möller, Heiko M; Exner, Thomas E

    2016-08-01

    Apart from their central role during 3D structure determination of proteins the backbone chemical shift assignment is the basis for a number of applications, like chemical shift perturbation mapping and studies on the dynamics of proteins. This assignment is not a trivial task even if a 3D protein structure is known and needs almost as much effort as the assignment for structure prediction if performed manually. We present here a new algorithm based solely on 4D [(1)H,(15)N]-HSQC-NOESY-[(1)H,(15)N]-HSQC spectra which is able to assign a large percentage of chemical shifts (73-82 %) unambiguously, demonstrated with proteins up to a size of 250 residues. For the remaining residues, a small number of possible assignments is filtered out. This is done by comparing distances in the 3D structure to restraints obtained from the peak volumes in the 4D spectrum. Using dead-end elimination, assignments are removed in which at least one of the restraints is violated. Including additional information from chemical shift predictions, a complete unambiguous assignment was obtained for Ubiquitin and 95 % of the residues were correctly assigned in the 251 residue-long N-terminal domain of enzyme I. The program including source code is available at https://github.com/thomasexner/4Dassign . PMID:27484442

  11. Low-Cost Impact Detection and Location for Automated Inspections of 3D Metallic Based Structures

    PubMed Central

    Morón, Carlos; Portilla, Marina P.; Somolinos, José A.; Morales, Rafael

    2015-01-01

    This paper describes a new low-cost means to detect and locate mechanical impacts (collisions) on a 3D metal-based structure. We employ the simple and reasonably hypothesis that the use of a homogeneous material will allow certain details of the impact to be automatically determined by measuring the time delays of acoustic wave propagation throughout the 3D structure. The location of strategic piezoelectric sensors on the structure and an electronic-computerized system has allowed us to determine the instant and position at which the impact is produced. The proposed automatic system allows us to fully integrate impact point detection and the task of inspecting the point or zone at which this impact occurs. What is more, the proposed method can be easily integrated into a robot-based inspection system capable of moving over 3D metallic structures, thus avoiding (or minimizing) the need for direct human intervention. Experimental results are provided to show the effectiveness of the proposed approach. PMID:26029951

  12. Automated antibody structure prediction using Accelrys tools: Results and best practices

    PubMed Central

    Fasnacht, Marc; Butenhof, Ken; Goupil-Lamy, Anne; Hernandez-Guzman, Francisco; Huang, Hongwei; Yan, Lisa

    2014-01-01

    We describe the methodology and results from our participation in the second Antibody Modeling Assessment experiment. During the experiment we predicted the structure of eleven unpublished antibody Fv fragments. Our prediction methods centered on template-based modeling; potential templates were selected from an antibody database based on their sequence similarity to the target in the framework regions. Depending on the quality of the templates, we constructed models of the antibody framework regions either using a single, chimeric or multiple template approach. The hypervariable loop regions in the initial models were rebuilt by grafting the corresponding regions from suitable templates onto the model. For the H3 loop region, we further refined models using ab initio methods. The final models were subjected to constrained energy minimization to resolve severe local structural problems. The analysis of the models submitted show that Accelrys tools allow for the construction of quite accurate models for the framework and the canonical CDR regions, with RMSDs to the X-ray structure on average below 1 Å for most of these regions. The results show that accurate prediction of the H3 hypervariable loops remains a challenge. Furthermore, model quality assessment of the submitted models show that the models are of quite high quality, with local geometry assessment scores similar to that of the target X-ray structures. Proteins 2014; 82:1583–1598. © 2014 The Authors. Proteins published by Wiley Periodicals, Inc. PMID:24833271

  13. Semi-automated structural analysis of high resolution magnetic and gamma-ray spectrometry airborne surveys

    NASA Astrophysics Data System (ADS)

    Debeglia, N.; Martelet, G.; Perrin, J.; Truffert, C.; Ledru, P.; Tourlière, B.

    2005-08-01

    A user-controlled procedure was implemented for the structural analysis of geophysical maps. Local edge segments are first extracted using a suitable edge detector function, then linked into straight discontinuities and, finally, organised in complex boundary lines best delineating geophysical features. Final boundary lines may be attributed by a geologist to lithological contacts and/or structural geological features. Tests of some edge detectors, (i) horizontal gradient magnitude (HGM), (ii) various orders of the analytic signal ( An), reduced to the pole or not, (iii) enhanced horizontal derivative (EHD), (iv) composite analytic signal (CAS), were performed on synthetic magnetic data (with and without noise). As a result of these comparisons, the horizontal gradient appears to remain the best operator for the analysis of magnetic data. Computation of gradients in the frequency domain, including filtering and upward continuation of noisy data, is well-suited to the extraction of magnetic gradients associated to deep sources, while space-domain smoothing and differentiation techniques is generally preferable in the case of shallow magnetic sources, or for gamma-ray spectrometry analysis. Algorithms for edge extraction, segment linking, and line following can be controlled by choosing adequate edge detector and processing parameters which allows adaptation to a desired scale of interpretation. Tests on synthetic and real case data demonstrate the adaptability of the procedure and its ability to produce basic layer for multi-data analysis. The method was applied to the interpretation of high-resolution airborne magnetic and gamma-ray spectrometry data collected in northern Namibia. It allowed the delineation of dyke networks concealed by superficial weathering and demonstrated the presence of lithological variations in alluvial flows. The output from the structural analysis procedure are compatible with standard GIS softwares and enable the geologist to (i) compare

  14. Automating unambiguous NOE data usage in NVR for NMR protein structure-based assignments.

    PubMed

    Akhmedov, Murodzhon; Çatay, Bülent; Apaydın, Mehmet Serkan

    2015-12-01

    Nuclear Magnetic Resonance (NMR) Spectroscopy is an important technique that allows determining protein structure in solution. An important problem in protein structure determination using NMR spectroscopy is the mapping of peaks to corresponding amino acids, also known as the assignment problem. Structure-Based Assignment (SBA) is an approach to solve this problem using a template structure that is homologous to the target. Our previously developed approach Nuclear Vector Replacement-Binary Integer Programming (NVR-BIP) computed the optimal solution for small proteins, but was unable to solve the assignments of large proteins. NVR-Ant Colony Optimization (ACO) extended the applicability of the NVR approach for such proteins. One of the input data utilized in these approaches is the Nuclear Overhauser Effect (NOE) data. NOE is an interaction observed between two protons if the protons are located close in space. These protons could be amide protons, protons attached to the alpha-carbon atom in the backbone of the protein, or side chain protons. NVR only uses backbone protons. In this paper, we reformulate the NVR-BIP model to distinguish the type of proton in NOE data and use the corresponding proton coordinates in the extended formulation. In addition, the threshold value over interproton distances is set in a standard manner for all proteins by extracting the NOE upper bound distance information from the data. We also convert NOE intensities into distance thresholds. Our new approach thus handles the NOE data correctly and without manually determined parameters. We accordingly adapt NVR-ACO solution methodology to these changes. Computational results show that our approaches obtain optimal solutions for small proteins. For the large proteins our ant colony optimization-based approach obtains promising results.

  15. Automating unambiguous NOE data usage in NVR for NMR protein structure-based assignments.

    PubMed

    Akhmedov, Murodzhon; Çatay, Bülent; Apaydın, Mehmet Serkan

    2015-12-01

    Nuclear Magnetic Resonance (NMR) Spectroscopy is an important technique that allows determining protein structure in solution. An important problem in protein structure determination using NMR spectroscopy is the mapping of peaks to corresponding amino acids, also known as the assignment problem. Structure-Based Assignment (SBA) is an approach to solve this problem using a template structure that is homologous to the target. Our previously developed approach Nuclear Vector Replacement-Binary Integer Programming (NVR-BIP) computed the optimal solution for small proteins, but was unable to solve the assignments of large proteins. NVR-Ant Colony Optimization (ACO) extended the applicability of the NVR approach for such proteins. One of the input data utilized in these approaches is the Nuclear Overhauser Effect (NOE) data. NOE is an interaction observed between two protons if the protons are located close in space. These protons could be amide protons, protons attached to the alpha-carbon atom in the backbone of the protein, or side chain protons. NVR only uses backbone protons. In this paper, we reformulate the NVR-BIP model to distinguish the type of proton in NOE data and use the corresponding proton coordinates in the extended formulation. In addition, the threshold value over interproton distances is set in a standard manner for all proteins by extracting the NOE upper bound distance information from the data. We also convert NOE intensities into distance thresholds. Our new approach thus handles the NOE data correctly and without manually determined parameters. We accordingly adapt NVR-ACO solution methodology to these changes. Computational results show that our approaches obtain optimal solutions for small proteins. For the large proteins our ant colony optimization-based approach obtains promising results. PMID:26260854

  16. Stratigraphic evolution of Blake Outer Ridge

    SciTech Connect

    Markl, R.G.; Bryan, G.M.

    1983-04-01

    Multichannel seismic data from a reconnaissance survey of the Blake Outer Ridge reveal the seismic stratigraphy down to oceanic basement, as well as intracrustal and mantle reflections. The depositional history of the outer ridge can now be subdivided into four principal phases, based on seismic stratigraphic style: (1) Jurassic-Early Cretaceous sedimentation which filled in basement irregularities and leveled the sea floor by horizon ..beta.. (Barremian) time, (2) Early Cretaceous-Late Cretaceous deposition of a seaward-thinning wedge typical of Atlantic-type margins; its deeply eroded surface is probably equivalent to the Late Cretaceous-Miocene hiatus reflected by horizon A'', (3) earlies Miocene current-controlled deposits preferentially deposited along the axis of the incipient Blake Outer Ridge; these prograding strata, which thin and dip downridge and laterally away from the ridge axis, are attributed to the interaction of the Florida Current and Western Boundary Undercurrent, and (4) continuing early Miocene preferential deposition on the ridge axis and sculpting by the Western Boundary Undercurrent; this phase is characterized by strata thinning and dipping upridge and toward the ridge axis. The reversal of dip is explained to a first approximation by a steady-state contour-current model in which the current position is progressively shifted by the deposition. Five angular unconformities and associated bathymetric terraces west of the ridge crest are mapped using all Lamont-Doherty seismic data and interpreted as having formed penecontemporaneously during phase four. The areal extent of the gas hydrate (clathrate) horizon is also delineated; it is continuous across the northern Blake Outer Ridge, and the multichannel seismic data presented here show it to extend onto the shallow Blake Plateau as well.

  17. Submarine fans in a sequence stratigraphic framework

    SciTech Connect

    Posamentier, H.W.; Erskine, R.D.; Mitchum, R.M.; Vail, P.R.

    1987-05-01

    Submarine fans are fan- or cone-shaped turbiditic deposits formed in upper bathyal or deeper water depths. Within a sequence stratigraphic framework, these basin-floor turbidites can occur during lowstand-fan or lowstand-wedge systems tract time. During lowstand fan time, streams are rejuvenated and depocenters shift from the coastal plain to the upper slope, causing retrogradational slope failure and canyon formation. The sediment delivered here bypasses the canyon and continues down the slope as a succession of gravity flows and is deposited as fan-shaped turbiditic deposits at the base of the slope. Seismic and outcrop evidence suggest that these sand-prone deposits are abruptly introduced into the basin and are generally characterized by subtle external mounding and internal bidirectionally down lapping seismic reflections where seismically resolvable. Deep-water sediment deposited during this interval has no coeval shelf equivalent. During lowstand wedge time, streams cease down cutting and valleys which have been freshly incised begin to fill. Because coarse sediment will preferentially be deposited within these incised valleys, the sand-to-mud ratio delivered to the upper slope will be decreased and, consequently, there is an inherent difference between submarine fans deposited at this time and those deposited during lowstand fan time. Deposition during lowstand wedge time is characterized seismically by slope front fill or wedge-shaped geometries down lapping the earlier submarine fan (i.e., deposited during lowstand fan time). These shale-prone deposits are largely comprised of thinner-bedded turbidites as well as the occasional leveed channel.

  18. Stratigraphic sequence analysis of the Antler foreland

    SciTech Connect

    Silberling, N.J.; Nichols, K.M.; Macke, D.L. )

    1993-04-01

    Mid-Upper Devonian to Upper Mississippian strata in western Utah were deposited in the distal Antler foreland. They record lateral and vertical changes in depositional environments that define five successive stratigraphic sequences, each representing a third-order transgressive-regressive cycle. In ascending order, these sequences are informally named the Langenheim (LA) of late Frasnian to mid-Famennian age, the Gutschick (GU) of late Famennian to early Kinderhookian age, the Morris (MO) of late Kinderhookian age; the Sadlick (SA) of Osagean to early Meramecian age, and the Maughan (MA) of mid-Meramecian to Chesterian age. MO is widespread and recognized within carbonate rocks of the Fitchville Formation and Joana Limestone. SA formed in concert with and to the east and south of the Wendover foreland high; the Delle phosphatic event marks maximum marine flooding during SA deposition. The transgressive systems tract of MA includes rhythmic-bedded limestone in the upper part of the Deseret Limestone in west-central Utah and, farther west, the hypoxic limestone and black shale of the Skunk Spring Limestone Bed and part of the overlying Chainman Shale. Traced westward into Nevada, MA first oversteps SA and then MO. Lithostratigraphic correlation of these sequences still farther west into the Eureka thrust belt (ETB) could mean that the youngest strata truncated by the Roberts Mountains thrust belong to the MA and that this thrust is simply part of the post-Mississippian ETB. However, some strata in central Nevada that lithically resemble those of the MA are paleontologically dated as Early Mississippian, the age of sequences overstepped by MA not far to the east. Thus, at least some imbricates of the ETB may contain a sequence stratigraphy which reflects local tectonic control.

  19. A Machine Learning Approach to Automated Structural Network Analysis: Application to Neonatal Encephalopathy

    PubMed Central

    Ziv, Etay; Tymofiyeva, Olga; Ferriero, Donna M.; Barkovich, A. James; Hess, Chris P.; Xu, Duan

    2013-01-01

    Neonatal encephalopathy represents a heterogeneous group of conditions associated with life-long developmental disabilities and neurological deficits. Clinical measures and current anatomic brain imaging remain inadequate predictors of outcome in children with neonatal encephalopathy. Some studies have suggested that brain development and, therefore, brain connectivity may be altered in the subgroup of patients who subsequently go on to develop clinically significant neurological abnormalities. Large-scale structural brain connectivity networks constructed using diffusion tractography have been posited to reflect organizational differences in white matter architecture at the mesoscale, and thus offer a unique tool for characterizing brain development in patients with neonatal encephalopathy. In this manuscript we use diffusion tractography to construct structural networks for a cohort of patients with neonatal encephalopathy. We systematically map these networks to a high-dimensional space and then apply standard machine learning algorithms to predict neurological outcome in the cohort. Using nested cross-validation we demonstrate high prediction accuracy that is both statistically significant and robust over a broad range of thresholds. Our algorithm offers a novel tool to evaluate neonates at risk for developing neurological deficit. The described approach can be applied to any brain pathology that affects structural connectivity. PMID:24282501

  20. Automated procedure for design of wing structures to satisfy strength and flutter requirements

    NASA Technical Reports Server (NTRS)

    Haftka, R. T.

    1973-01-01

    A pilot computer program was developed for the design of minimum mass wing structures under flutter, strength, and minimum gage constraints. The wing structure is idealized by finite elements, and second-order piston theory aerodynamics is used in the flutter calculation. Mathematical programing methods are used for the optimization. Computation times during the design process are reduced by three techniques. First, iterative analysis methods used to reduce significantly reanalysis times. Second, the number of design variables is kept small by not using a one-to-one correspondence between finite elements and design variables. Third, a technique for using approximate second derivatives with Newton's method for the optimization is incorporated. The program output is compared witH previous published results. It is found that some flutter characteristics, such as the flutter speed, can display discontinous dependence on the design variables (which are the thicknesses of the structural elements). It is concluded that it is undesirable to use such quantities in the formulation of the flutter constraint.

  1. CHEM-PATH-TRACKER: An automated tool to analyze chemical motifs in molecular structures.

    PubMed

    Ribeiro, João V; Cerqueira, N M F S A; Fernandes, Pedro A; Ramos, Maria J

    2014-07-01

    In this article, we propose a method for locating functionally relevant chemical motifs in protein structures. The chemical motifs can be a small group of residues or structure protein fragments with highly conserved properties that have important biological functions. However, the detection of chemical motifs is rather difficult because they often consist of a set of amino acid residues separated by long, variable regions, and they only come together to form a functional group when the protein is folded into its three-dimensional structure. Furthermore, the assemblage of these residues is often dependent on non-covalent interactions among the constituent amino acids that are difficult to detect or visualize. To simplify the analysis of these chemical motifs and give access to a generalized use for all users, we developed chem-path-tracker. This software is a VMD plug-in that allows the user to highlight and reveal potential chemical motifs requiring only a few selections. The analysis is based on atoms/residues pair distances applying a modified version of Dijkstra's algorithm, and it makes possible to monitor the distances of a large pathway, even during a molecular dynamics simulation. This tool turned out to be very useful, fast, and user-friendly in the performed tests. The chem-path-tracker package is distributed as an independent platform and can be found at http://www.fc.up.pt/PortoBioComp/database/doku.php?id=chem-path-tracker. PMID:24775806

  2. Automated preliminary design of simplified wing structures to satisfy strength and flutter requirements

    NASA Technical Reports Server (NTRS)

    Stroud, W. J.; Dexter, C. B.; Stein, M.

    1972-01-01

    A simple structural model of an aircraft wing is used to show the effects of strength (stress) and flutter requirements on the design of minimum-weight aircraft-wing structures. The wing is idealized as an isotropic sandwich plate with a variable cover thickness distribution and a variable depth between covers. Plate theory is used for the structural analysis, and piston theory is used for the unsteady aerodynamics in the flutter analysis. Mathematical programming techniques are used to find the minimum-weight cover thickness distribution which satisfies flutter, strength, and minimum-gage constraints. The method of solution, some sample results, and the computer program used to obtain these results are presented. The results indicate that the cover thickness distribution obtained when designing for the strength requirement alone may be quite different from the cover thickness distribution obtained when designing for either the flutter requirement alone or for both the strength and flutter requirements concurrently. This conclusion emphasizes the need for designing for both flutter and strength from the outset.

  3. Automated Voxel Model from Point Clouds for Structural Analysis of Cultural Heritage

    NASA Astrophysics Data System (ADS)

    Bitelli, G.; Castellazzi, G.; D'Altri, A. M.; De Miranda, S.; Lambertini, A.; Selvaggi, I.

    2016-06-01

    In the context of cultural heritage, an accurate and comprehensive digital survey of a historical building is today essential in order to measure its geometry in detail for documentation or restoration purposes, for supporting special studies regarding materials and constructive characteristics, and finally for structural analysis. Some proven geomatic techniques, such as photogrammetry and terrestrial laser scanning, are increasingly used to survey buildings with different complexity and dimensions; one typical product is in form of point clouds. We developed a semi-automatic procedure to convert point clouds, acquired from laserscan or digital photogrammetry, to a filled volume model of the whole structure. The filled volume model, in a voxel format, can be useful for further analysis and also for the generation of a Finite Element Model (FEM) of the surveyed building. In this paper a new approach is presented with the aim to decrease operator intervention in the workflow and obtain a better description of the structure. In order to achieve this result a voxel model with variable resolution is produced. Different parameters are compared and different steps of the procedure are tested and validated in the case study of the North tower of the San Felice sul Panaro Fortress, a monumental historical building located in San Felice sul Panaro (Modena, Italy) that was hit by an earthquake in 2012.

  4. Automated method for the identification and analysis of vascular tree structures in retinal vessel network

    NASA Astrophysics Data System (ADS)

    Joshi, Vinayak S.; Garvin, Mona K.; Reinhardt, Joseph M.; Abramoff, Michael D.

    2011-03-01

    Structural analysis of retinal vessel network has so far served in the diagnosis of retinopathies and systemic diseases. The retinopathies are known to affect the morphologic properties of retinal vessels such as course, shape, caliber, and tortuosity. Whether the arteries and the veins respond to these changes together or in tandem has always been a topic of discussion. However the diseases such as diabetic retinopathy and retinopathy of prematurity have been diagnosed with the morphologic changes specific either to arteries or to veins. Thus a method describing the separation of retinal vessel trees imaged in a two dimensional color fundus image may assist in artery-vein classification and quantitative assessment of morphologic changes particular to arteries or veins. We propose a method based on mathematical morphology and graph search to identify and label the retinal vessel trees, which provides a structural mapping of vessel network in terms of each individual primary vessel, its branches and spatial positions of branching and cross-over points. The method was evaluated on a dataset of 15 fundus images resulting into an accuracy of 92.87 % correctly assigned vessel pixels when compared with the manual labeling of separated vessel trees. Accordingly, the structural mapping method performs well and we are currently investigating its potential in evaluating the characteristic properties specific to arteries or veins.

  5. Automated polyp measurement based on colon structure decomposition for CT colonography

    NASA Astrophysics Data System (ADS)

    Wang, Huafeng; Li, Lihong C.; Han, Hao; Peng, Hao; Song, Bowen; Wei, Xinzhou; Liang, Zhengrong

    2014-03-01

    Accurate assessment of colorectal polyp size is of great significance for early diagnosis and management of colorectal cancers. Due to the complexity of colon structure, polyps with diverse geometric characteristics grow from different landform surfaces. In this paper, we present a new colon decomposition approach for polyp measurement. We first apply an efficient maximum a posteriori expectation-maximization (MAP-EM) partial volume segmentation algorithm to achieve an effective electronic cleansing on colon. The global colon structure is then decomposed into different kinds of morphological shapes, e.g. haustral folds or haustral wall. Meanwhile, the polyp location is identified by an automatic computer aided detection algorithm. By integrating the colon structure decomposition with the computer aided detection system, a patch volume of colon polyps is extracted. Thus, polyp size assessment can be achieved by finding abnormal protrusion on a relative uniform morphological surface from the decomposed colon landform. We evaluated our method via physical phantom and clinical datasets. Experiment results demonstrate the feasibility of our method in consistently quantifying the size of polyp volume and, therefore, facilitating characterizing for clinical management.

  6. SDAR 1.0 a New Quantitative Toolkit for Analyze Stratigraphic Data

    NASA Astrophysics Data System (ADS)

    Ortiz, John; Moreno, Carlos; Cardenas, Andres; Jaramillo, Carlos

    2015-04-01

    Since the foundation of stratigraphy geoscientists have recognized that data obtained from stratigraphic columns (SC), two dimensional schemes recording descriptions of both geological and paleontological features (e.g., thickness of rock packages, grain size, fossil and lithological components, and sedimentary structures), are key elements for establishing reliable hypotheses about the distribution in space and time of rock sequences, and ancient sedimentary environmental and paleobiological dynamics. Despite the tremendous advances on the way geoscientists store, plot, and quantitatively analyze sedimentological and paleontological data (e.g., Macrostrat [http://www.macrostrat.org/], Paleobiology Database [http://www.paleodb.org/], respectively), there is still a lack of computational methodologies designed to quantitatively examine data from a highly detailed SCs. Moreover, frequently the stratigraphic information is plotted "manually" using vector graphics editors (e.g., Corel Draw, Illustrator), however, this information although store on a digital format, cannot be used readily for any quantitative analysis. Therefore, any attempt to examine the stratigraphic data in an analytical fashion necessarily takes further steps. Given these issues, we have developed the sofware 'Stratigraphic Data Analysis in R' (SDAR), which stores in a database all sedimentological, stratigraphic, and paleontological information collected from a SC, allowing users to generate high-quality graphic plots (including one or multiple features stored in the database). SDAR also encompasses quantitative analyses helping users to quantify stratigraphic information (e.g. grain size, sorting and rounding, proportion of sand/shale). Finally, given that the SDAR analysis module, has been written in the open-source high-level computer language "R graphics/statistics language" [R Development Core Team, 2014], it is already loaded with many of the crucial features required to accomplish basic and

  7. Automated tracing of open-field coronal structures for an optimized large-scale magnetic field reconstruction

    NASA Astrophysics Data System (ADS)

    Uritsky, V. M.; Davila, J. M.; Jones, S. I.

    2014-12-01

    Solar Probe Plus and Solar Orbiter will provide detailed measurements in the inner heliosphere magnetically connected with the topologically complex and eruptive solar corona. Interpretation of these measurements will require accurate reconstruction of the large-scale coronal magnetic field. In a related presentation by S. Jones et al., we argue that such reconstruction can be performed using photospheric extrapolation methods constrained by white-light coronagraph images. Here, we present the image-processing component of this project dealing with an automated segmentation of fan-like coronal loop structures. In contrast to the existing segmentation codes designed for detecting small-scale closed loops in the vicinity of active regions, we focus on the large-scale geometry of the open-field coronal features observed at significant radial distances from the solar surface. The coronagraph images used for the loop segmentation are transformed into a polar coordinate system and undergo radial detrending and initial noise reduction. The preprocessed images are subject to an adaptive second order differentiation combining radial and azimuthal directions. An adjustable thresholding technique is applied to identify candidate coronagraph features associated with the large-scale coronal field. A blob detection algorithm is used to extract valid features and discard noisy data pixels. The obtained features are interpolated using higher-order polynomials which are used to derive empirical directional constraints for magnetic field extrapolation procedures based on photospheric magnetograms.

  8. Upper-mantle shear-wave structure under East and Southeast Asia from Automated Multimode Inversion of waveforms

    NASA Astrophysics Data System (ADS)

    Legendre, C. P.; Zhao, L.; Chen, Q.-F.

    2015-10-01

    We present a new Sv-velocity model of the upper mantle under East and Southeast Asia constrained by the inversion of seismic waveforms recorded by broad-band stations. Seismograms from earthquakes occurred between 1977 and 2012 are collected from about 4786 permanent and temporary stations in the region whenever and wherever available. Automated Multimode Inversion of surface and multiple-S waveforms is applied to extract structural information from the seismograms, in the form of linear equations with uncorrelated uncertainties. The equations are then solved for the seismic velocity perturbations in the crust and upper mantle with respect to a three-dimensional (3-D) reference model and a realistic crust. Major features of the lithosphere-asthenosphere system in East and Southeast Asia are identified in the resulting model. At lithospheric depth, low velocities can be seen beneath Tibet, whereas high velocities are found beneath cratonic regions, such as the Siberian, North China, Yangtze,) Tarim, and Dharwarand cratons. A number of microplates are mapped and the interaction with neighbouring plates is discussed. Slabs from the Pacific and Indian Oceans can be seen in the upper mantle. Passive marginal basins and subduction zones are also properly resolved.

  9. Informatics in radiology: automated structured reporting of imaging findings using the AIM standard and XML.

    PubMed

    Zimmerman, Stefan L; Kim, Woojin; Boonn, William W

    2011-01-01

    Quantitative and descriptive imaging data are a vital component of the radiology report and are frequently of paramount importance to the ordering physician. Unfortunately, current methods of recording these data in the report are both inefficient and error prone. In addition, the free-text, unstructured format of a radiology report makes aggregate analysis of data from multiple reports difficult or even impossible without manual intervention. A structured reporting work flow has been developed that allows quantitative data created at an advanced imaging workstation to be seamlessly integrated into the radiology report with minimal radiologist intervention. As an intermediary step between the workstation and the reporting software, quantitative and descriptive data are converted into an extensible markup language (XML) file in a standardized format specified by the Annotation and Image Markup (AIM) project of the National Institutes of Health Cancer Biomedical Informatics Grid. The AIM standard was created to allow image annotation data to be stored in a uniform machine-readable format. These XML files containing imaging data can also be stored on a local database for data mining and analysis. This structured work flow solution has the potential to improve radiologist efficiency, reduce errors, and facilitate storage of quantitative and descriptive imaging data for research. PMID:21357413

  10. Informatics in radiology: automated structured reporting of imaging findings using the AIM standard and XML.

    PubMed

    Zimmerman, Stefan L; Kim, Woojin; Boonn, William W

    2011-01-01

    Quantitative and descriptive imaging data are a vital component of the radiology report and are frequently of paramount importance to the ordering physician. Unfortunately, current methods of recording these data in the report are both inefficient and error prone. In addition, the free-text, unstructured format of a radiology report makes aggregate analysis of data from multiple reports difficult or even impossible without manual intervention. A structured reporting work flow has been developed that allows quantitative data created at an advanced imaging workstation to be seamlessly integrated into the radiology report with minimal radiologist intervention. As an intermediary step between the workstation and the reporting software, quantitative and descriptive data are converted into an extensible markup language (XML) file in a standardized format specified by the Annotation and Image Markup (AIM) project of the National Institutes of Health Cancer Biomedical Informatics Grid. The AIM standard was created to allow image annotation data to be stored in a uniform machine-readable format. These XML files containing imaging data can also be stored on a local database for data mining and analysis. This structured work flow solution has the potential to improve radiologist efficiency, reduce errors, and facilitate storage of quantitative and descriptive imaging data for research.

  11. The stratigraphic filter and bias in measurement of geologic rates

    USGS Publications Warehouse

    Schumer, R.; Jerolmack, D.; McElroy, B.

    2011-01-01

    Erosion and deposition rates estimated from the stratigraphic record frequently exhibit a power-law dependence on measurement interval. This dependence can result from a power-law distribution of stratigraphic hiatuses. By representing the stratigraphic filter as a stochastic process called a reverse ascending ladder, we describe a likely origin of power-law hiatuses, and thus, rate scaling. While power-law hiatuses in certain environments can be a direct result of power-law periods of stasis (no deposition or erosion), they are more generally the result of randomness in surface fluctuations irrespective of mean subsidence or uplift. Autocorrelation in fluctuations can make hiatuses more or less heavy-tailed, but still exhibit power-law characteristics. In addition we show that by passing stratigraphic data backward through the filter, certain statistics of surface kinematics from their formative environments can be inferred. Copyright ?? 2011 by the American Geophysical Union.

  12. Stratigraphic Architectures in Southern Melas Basin, Valles Marineris, Mars

    NASA Astrophysics Data System (ADS)

    Dromart, G.; Quantin, C.; Broucke, O.

    2007-03-01

    We report an identification of stratigraphic architectures (MOC images) of layered material in Melas Chasma. Strata are arranged in three depositional sequences bounded by unconformities. Insights into deposit geometries point to deep-water, possibly sub-

  13. The stratigraphic filter and bias in measurement of geologic rates

    USGS Publications Warehouse

    Schumer, Rina; Jerolmack, Douglas; McElroy, Brandon

    2011-01-01

    Erosion and deposition rates estimated from the stratigraphic record frequently exhibit a power-law dependence on measurement interval. This dependence can result from a power-law distribution of stratigraphic hiatuses. By representing the stratigraphic filter as a stochastic process called a reverse ascending ladder, we describe a likely origin of power-law hiatuses, and thus, rate scaling. While power-law hiatuses in certain environments can be a direct result of power-law periods of stasis (no deposition or erosion), they are more generally the result of randomness in surface fluctuations irrespective of mean subsidence or uplift. Autocorrelation in fluctuations can make hiatuses more or less heavy-tailed, but still exhibit power-law characteristics. In addition we show that by passing stratigraphic data backward through the filter, certain statistics of surface kinematics from their formative environments can be inferred.

  14. Development of a Genetic Algorithm to Automate Clustering of a Dependency Structure Matrix

    NASA Technical Reports Server (NTRS)

    Rogers, James L.; Korte, John J.; Bilardo, Vincent J.

    2006-01-01

    Much technology assessment and organization design data exists in Microsoft Excel spreadsheets. Tools are needed to put this data into a form that can be used by design managers to make design decisions. One need is to cluster data that is highly coupled. Tools such as the Dependency Structure Matrix (DSM) and a Genetic Algorithm (GA) can be of great benefit. However, no tool currently combines the DSM and a GA to solve the clustering problem. This paper describes a new software tool that interfaces a GA written as an Excel macro with a DSM in spreadsheet format. The results of several test cases are included to demonstrate how well this new tool works.

  15. Endoscopic system for automated high dynamic range inspection of moving periodic structures

    NASA Astrophysics Data System (ADS)

    Hahlweg, Cornelius; Rothe, Hendrik

    2015-09-01

    In the current paper an advanced endoscopic system for high resolution and high dynamic range inspection of periodic structures in rotating machines is presented. We address the system architecture, short time illumination, special optical problems, such as excluding the specular reflex, image processing, forward velocity prediction and metrological image processing. There are several special requirements to be met, such as the thermal stability above 100°C, robustness of the image field, illumination in view direction and the separation of metallic surface diffuse scatter. To find a compromise between image resolution and frame rate, an external sensor system was applied for synchronization with the moving target. The system originally was intended for inspection of thermal engines, but turned out to be of a more general use. Beside the theoretical part and dimensioning issues, practical examples and measurement results are included.

  16. Automated segmentation of intramacular layers in Fourier domain optical coherence tomography structural images from normal subjects

    PubMed Central

    Zhang, Xusheng; Yousefi, Siavash; An, Lin

    2012-01-01

    Abstract. Segmentation of optical coherence tomography (OCT) cross-sectional structural images is important for assisting ophthalmologists in clinical decision making in terms of both diagnosis and treatment. We present an automatic approach for segmenting intramacular layers in Fourier domain optical coherence tomography (FD-OCT) images using a searching strategy based on locally weighted gradient extrema, coupled with an error-removing technique based on statistical error estimation. A two-step denoising preprocess in different directions is also employed to suppress random speckle noise while preserving the layer boundary as intact as possible. The algorithms are tested on the FD-OCT volume images obtained from four normal subjects, which successfully identify the boundaries of seven physiological layers, consistent with the results based on manual determination of macular OCT images. PMID:22559689

  17. Direct evidence of intra- and interhemispheric corticomotor network degeneration in amyotrophic lateral sclerosis: an automated MRI structural connectivity study.

    PubMed

    Rose, Stephen; Pannek, Kerstin; Bell, Christopher; Baumann, Fusun; Hutchinson, Nicole; Coulthard, Alan; McCombe, Pamela; Henderson, Robert

    2012-02-01

    Although the pathogenesis of amyotrophic lateral sclerosis (ALS) is uncertain, there is mounting neuroimaging evidence to suggest a mechanism involving the degeneration of multiple white matter (WM) motor and extramotor neural networks. This insight has been achieved, in part, by using MRI Diffusion Tensor Imaging (DTI) and the voxelwise analysis of anisotropy indices, along with DTI tractography to determine which specific motor pathways are involved with ALS pathology. Automated MRI structural connectivity analyses, which probe WM connections linking various functionally discrete cortical regions, have the potential to provide novel information about degenerative processes within multiple white matter (WM) pathways. Our hypothesis is that measures of altered intra- and interhemispheric structural connectivity of the primary motor and somatosensory cortex will provide an improved assessment of corticomotor involvement in ALS. To test this hypothesis, we acquired High Angular Resolution Diffusion Imaging (HARDI) scans along with high resolution structural images (sMRI) on 15 patients with clinical evidence of upper and lower motor neuron involvement, and 20 matched control participants. Whole brain probabilistic tractography was applied to define specific WM pathways connecting discrete corticomotor targets generated from anatomical parcellation of sMRI of the brain. The integrity of these connections was interrogated by comparing the mean fractional anisotropy (FA) derived for each WM pathway. To assist in the interpretation of results, we measured the reproducibility of the FA summary measures over time (6months) in control participants. We also incorporated into our analysis pipeline the evaluation and replacement of outlier voxels due to head motion and physiological noise. When assessing corticomotor connectivity, we found a significant reduction in mean FA within a number of intra- and interhemispheric motor pathways in ALS patients. The abnormal

  18. Automation or De-automation

    NASA Astrophysics Data System (ADS)

    Gorlach, Igor; Wessel, Oliver

    2008-09-01

    In the global automotive industry, for decades, vehicle manufacturers have continually increased the level of automation of production systems in order to be competitive. However, there is a new trend to decrease the level of automation, especially in final car assembly, for reasons of economy and flexibility. In this research, the final car assembly lines at three production sites of Volkswagen are analysed in order to determine the best level of automation for each, in terms of manufacturing costs, productivity, quality and flexibility. The case study is based on the methodology proposed by the Fraunhofer Institute. The results of the analysis indicate that fully automated assembly systems are not necessarily the best option in terms of cost, productivity and quality combined, which is attributed to high complexity of final car assembly systems; some de-automation is therefore recommended. On the other hand, the analysis shows that low automation can result in poor product quality due to reasons related to plant location, such as inadequate workers' skills, motivation, etc. Hence, the automation strategy should be formulated on the basis of analysis of all relevant aspects of the manufacturing process, such as costs, quality, productivity and flexibility in relation to the local context. A more balanced combination of automated and manual assembly operations provides better utilisation of equipment, reduces production costs and improves throughput.

  19. Process automation

    SciTech Connect

    Moser, D.R.

    1986-01-01

    Process automation technology has been pursued in the chemical processing industries and to a very limited extent in nuclear fuel reprocessing. Its effective use has been restricted in the past by the lack of diverse and reliable process instrumentation and the unavailability of sophisticated software designed for process control. The Integrated Equipment Test (IET) facility was developed by the Consolidated Fuel Reprocessing Program (CFRP) in part to demonstrate new concepts for control of advanced nuclear fuel reprocessing plants. A demonstration of fuel reprocessing equipment automation using advanced instrumentation and a modern, microprocessor-based control system is nearing completion in the facility. This facility provides for the synergistic testing of all chemical process features of a prototypical fuel reprocessing plant that can be attained with unirradiated uranium-bearing feed materials. The unique equipment and mission of the IET facility make it an ideal test bed for automation studies. This effort will provide for the demonstration of the plant automation concept and for the development of techniques for similar applications in a full-scale plant. A set of preliminary recommendations for implementing process automation has been compiled. Some of these concepts are not generally recognized or accepted. The automation work now under way in the IET facility should be useful to others in helping avoid costly mistakes because of the underutilization or misapplication of process automation. 6 figs.

  20. Automated grid generation from models of complex geologic structure and stratigraphy

    SciTech Connect

    Gable, C.; Trease, H.; Cherry, T.

    1996-04-01

    The construction of computational grids which accurately reflect complex geologic structure and stratigraphy for flow and transport models poses a formidable task. With an understanding of stratigraphy, material properties and boundary and initial conditions, the task of incorporating this data into a numerical model can be difficult and time consuming. Most GIS tools for representing complex geologic volumes and surfaces are not designed for producing optimal grids for flow and transport computation. We have developed a tool, GEOMESH, for generating finite element grids that maintain the geometric integrity of input volumes, surfaces, and geologic data and produce an optimal (Delaunay) tetrahedral grid that can be used for flow and transport computations. GEOMESH also satisfies the constraint that the geometric coupling coefficients of the grid are positive for all elements. GEOMESH generates grids for two dimensional cross sections, three dimensional regional models, represents faults and fractures, and has the capability of including finer grids representing tunnels and well bores into grids. GEOMESH also permits adaptive grid refinement in three dimensions. The tools to glue, merge and insert grids together demonstrate how complex grids can be built from simpler pieces. The resulting grid can be utilized by unstructured finite element or integrated finite difference computational physics codes.

  1. Automated Structure- and Sequence-Based Design of Proteins for High Bacterial Expression and Stability.

    PubMed

    Goldenzweig, Adi; Goldsmith, Moshe; Hill, Shannon E; Gertman, Or; Laurino, Paola; Ashani, Yacov; Dym, Orly; Unger, Tamar; Albeck, Shira; Prilusky, Jaime; Lieberman, Raquel L; Aharoni, Amir; Silman, Israel; Sussman, Joel L; Tawfik, Dan S; Fleishman, Sarel J

    2016-07-21

    Upon heterologous overexpression, many proteins misfold or aggregate, thus resulting in low functional yields. Human acetylcholinesterase (hAChE), an enzyme mediating synaptic transmission, is a typical case of a human protein that necessitates mammalian systems to obtain functional expression. We developed a computational strategy and designed an AChE variant bearing 51 mutations that improved core packing, surface polarity, and backbone rigidity. This variant expressed at ∼2,000-fold higher levels in E. coli compared to wild-type hAChE and exhibited 20°C higher thermostability with no change in enzymatic properties or in the active-site configuration as determined by crystallography. To demonstrate broad utility, we similarly designed four other human and bacterial proteins. Testing at most three designs per protein, we obtained enhanced stability and/or higher yields of soluble and active protein in E. coli. Our algorithm requires only a 3D structure and several dozen sequences of naturally occurring homologs, and is available at http://pross.weizmann.ac.il. PMID:27425410

  2. Stratigraphically sound use of commercial well history data bases for geologic mapping - Michigan basin case history

    SciTech Connect

    Stark, P.H. )

    1989-03-01

    Sound project planning and application of rock unit stratigraphic principles are essential to assure optimal use of commercial well history data bases for geologic mapping. Project planning should consider data base content, stratigraphy, and maps that are required to achieve project objectives. Stratigraphic audits that record the number of wells that report tops, production, tests, cores, and shows for each formation are a fundamental planning tool. Operator-reported formation-top nomenclature reflects local mappable rock units. With knowledge of regional stratigraphic relationships, the logic for appropriate retrieval algorithms and formation-top file structures can be established from the audits. In complex facies, such as reef trends, as many as five synonymous formations may be required to identify a single mappable unit. Formation-top files should accommodate the hierarchical selection of synonymous formations and their identification by an alphabetic code. These principles are illustrated with an example from the Niagaran reef trend in Antrim and Kalkaska Counties, Michigan. In this example, 16 rock units were selected to map six formations from the Silurian A2 carbonate to the Clinton dolomite. Structure, isopach, trend, residual, and subcrop maps with shows and lithologic designations demonstrate the utility of sound planning and flexible formation-top file structures to generate successful geologic mapping results from commercial well files.

  3. Coupling Thermo-Mecanical Simulation and Stratigraphic Modelling: Impact of Lithosphere Deformation on Stratigraphic Architecture of Passive Margin Basins

    NASA Astrophysics Data System (ADS)

    Rouby, D.; Huismans, R. S.; Braun, J.

    2013-12-01

    The aim of this study is to revise the view of the long-term stratigraphic trends of passive margins to include the impact of the coupling between the lithosphere deformation and the surface processes. However, modeling coupling lithosphere deformation and surface processes usually address large-scale deformation processes, i.e. they cannot resolve the stratigraphic trend of the simulated basins. On the other hand, models dedicated to stratigraphic simulation do not include these feedbacks of erosion/sedimentation on deformation processes. The recent development of a numerical modeling tool, coupling the thermal and flexural evolution of the lithosphere and including the (un)loading effects of surface processes in 3D (Flex3D; J. Braun), allows us to propose a new procedure to investigate, in 3D, the evolution of passive margins, from the scale of the lithosphere to the detailed stratigraphic architecture, including syn- and post-rift phases and onshore and offshore domains. To do this, we first simulate the syn-rift phase of lithosphere stretching by thermo-mechanical modeling (Sopal, R. Huismans). We use the resulting lithosphere geometry as input of the 3D flexural modeling to simulate the post-rift evolution of the margin. We then use the resulting accumulation and subsidence histories as input of the stratigraphic simulation (Dionisos, D. Granjeon) to model the detailed stratigraphic architecture of the basin. Using this procedure, we evaluate the signature of various boundary conditions (lithosphere geometries and thermal states, stretching distributions, surface processes efficiencies and drainage organization) in the uplift/subsidence and denudation histories as well as the stratigraphic architecture of the associated sedimentary basins. We apply the procedure to the case study of passives margins surrounding the West African craton, for which we have compiled data constraining the denudation and accumulation history, and the long term stratigraphic

  4. Structures' validation profiles in Transmission of Imaging and Data (TRIAD) for automated National Clinical Trials Network (NCTN) clinical trial digital data quality assurance.

    PubMed

    Giaddui, Tawfik; Yu, Jialu; Manfredi, Denise; Linnemann, Nancy; Hunter, Joanne; O'Meara, Elizabeth; Galvin, James; Bialecki, Brian; Xiao, Ying

    2016-01-01

    Transmission of Imaging and Data (TRIAD) is a standard-based system built by the American College of Radiology to provide the seamless exchange of images and data for accreditation of clinical trials and registries. Scripts of structures' names validation profiles created in TRIAD are used in the automated submission process. It is essential for users to understand the logistics of these scripts for successful submission of radiation therapy cases with less iteration.

  5. Pleistocene sediments of Lake Baikal: Lithology and stratigraphic correlation

    NASA Astrophysics Data System (ADS)

    Akulov, N. I.; Mashchuk, I. M.; Akulova, V. V.

    2015-01-01

    The Cenozoic sediments of Lake Baikal penetrated by boreholes and investigated by the manned submersible Pisces, as well as coeval deposits cropping out in beach scarps, recovered by mine workings, and drilled in the coastal zone were the object of this investigation. The main attention was paid to Pleistocene bottom sediments penetrated by Borehole BDP-99-2. The investigations included the detailed analysis of the lithology (grain-size composition, immersion mineralogy of light and heavy fractions, X-ray structural analysis of clayey fraction) and palynological assemblages to specify facies features of Cenozoic sediments, correlate all their known stratigraphic units constituting the sedimentary section of the lake with their analogs in the onshore part of the Baikal rift zone, and compile the composite Cenozoic section. The following features of these sediments are noted: (1) as a whole, Pleistocene sediments are characterized by the hydromica-smectite composition of their clayey fraction with an insignificant share of kaoline; (2) the heavy fraction is dominated by the terrigenous epidote-amphibole association poorly resistant to weathering; (3) Pleistocene sediments of the lake contain siderite, vivianite, pyrite, and goethite concretions and micrometeorites, in addition to well-known ferromanganese nodules; (4) the presence of relict palynomorphs in Pleistocene sediments of Baikal is determined by their erosion from Miocene and Pliocene cavernous clays cropping out on underwater slopes of the Posol'skaya Bank and subsequent reburial along with Pleistocene palynological assemblages.

  6. The ocean-continent transition zones: Stratigraphic and paleoecosystem studies

    SciTech Connect

    Gladenkov, Yu.B. )

    1993-03-01

    The author uses the Cenozoic of the Russian Pacific coast, drawing particularly on his 30-year experience with the molluscan faunas, as the source of examples of the ways that regional and global changes in the inorganic world affect the living world, as reflected in the stratigraphic and paleontologic record. The shelf ecosystem, despite its relative stability, shows periods of rapid change, reflecting both migration and accelerated evolution. The shelf ecosystem of the boreal belt evolved during Cenozoic time in an environment of changing paleoclimatic and paleogeographic phenomena. In spite of all their complexity and the considerable stressed nature of situations during individual moments in geological time, the ecosystem displayed a relative stability. The composition and structure of biotic communities, judging by the mollusks, changed with a definite trend (since Oligocene time, mainly on the species level), with gradual replacement through time of some forms by others, and with an increase in the percentage of Holocene species. This linear process was complicated by moments when the process accelerated. The problems encountered require wider discussion. The observed patterns of development of abiotic and biotic phenomena in this region, with its definite cyclicity and synchroneity, may be valuable in deciphering such patterns in other regions of the globe. The trends seen in the evolution of the biotic communities during Cenozoic time may also provide a basis for predicting the development of shelf ecosystems in the forthcoming decades and centuries. 46 refs., 2 figs., 2 tabs.

  7. Digital tabulation of stratigraphic data from oil and gas wells in Cuyama Valley and surrounding areas, central California

    USGS Publications Warehouse

    Sweetkind, Donald S.; Bova, Shiera C.; Langenheim, V.E.; Shumaker, Lauren E.; Scheirer, Daniel S.

    2013-01-01

    Stratigraphic information from 391 oil and gas exploration wells from Cuyama Valley, California, and surrounding areas are herein compiled in digital form from reports that were released originally in paper form. The Cuyama Basin is located within the southeasternmost part of the Coast Ranges and north of the western Transverse Ranges, west of the San Andreas fault. Knowledge of the location and elevation of stratigraphic tops of formations throughout the basin is a first step toward understanding depositional trends and the structural evolution of the basin through time, and helps in understanding the slip history and partitioning of slip on San Andreas and related faults.

  8. Seismic model study of Patrick Draw field, Wyoming: a stratigraphic trap in the Upper Cretaceous Almond Formation

    USGS Publications Warehouse

    Anderson, Robert C.; Ryder, Robert T.

    1978-01-01

    The Patrick Draw field, located on the eastern flank of the Rock Springs uplift in the Washakie basin of southwestern Wyoming, was discovered in 1959 without the use of geophysical methods. The field is a classic example of a stratigraphic trap, where Upper Cretaceous porous sandstone units pinch out on a structural nose. Two-dimensional seismic modeling was used to construct the seismic waveform expressions of the Patrick Draw field, and to better understand how to explore for other 'Patrick Draw' fields. Interpretation of the model shows that the detection of the reservoir sand is very difficult, owing to a combination of acoustic contrasts and bed thickness. Because the model included other major stratigraphic units in the subsurface, several stratigraphic traps are suggested as potential exploration targets.

  9. Internal Transcribed Spacer 2 (nu ITS2 rRNA) Sequence-Structure Phylogenetics: Towards an Automated Reconstruction of the Green Algal Tree of Life

    PubMed Central

    Buchheim, Mark A.; Keller, Alexander; Koetschan, Christian; Förster, Frank; Merget, Benjamin; Wolf, Matthias

    2011-01-01

    Background Chloroplast-encoded genes (matK and rbcL) have been formally proposed for use in DNA barcoding efforts targeting embryophytes. Extending such a protocol to chlorophytan green algae, though, is fraught with problems including non homology (matK) and heterogeneity that prevents the creation of a universal PCR toolkit (rbcL). Some have advocated the use of the nuclear-encoded, internal transcribed spacer two (ITS2) as an alternative to the traditional chloroplast markers. However, the ITS2 is broadly perceived to be insufficiently conserved or to be confounded by introgression or biparental inheritance patterns, precluding its broad use in phylogenetic reconstruction or as a DNA barcode. A growing body of evidence has shown that simultaneous analysis of nucleotide data with secondary structure information can overcome at least some of the limitations of ITS2. The goal of this investigation was to assess the feasibility of an automated, sequence-structure approach for analysis of IT2 data from a large sampling of phylum Chlorophyta. Methodology/Principal Findings Sequences and secondary structures from 591 chlorophycean, 741 trebouxiophycean and 938 ulvophycean algae, all obtained from the ITS2 Database, were aligned using a sequence structure-specific scoring matrix. Phylogenetic relationships were reconstructed by Profile Neighbor-Joining coupled with a sequence structure-specific, general time reversible substitution model. Results from analyses of the ITS2 data were robust at multiple nodes and showed considerable congruence with results from published phylogenetic analyses. Conclusions/Significance Our observations on the power of automated, sequence-structure analyses of ITS2 to reconstruct phylum-level phylogenies of the green algae validate this approach to assessing diversity for large sets of chlorophytan taxa. Moreover, our results indicate that objections to the use of ITS2 for DNA barcoding should be weighed against the utility of an automated

  10. Improving the correlation of structural FEA models by the application of automated high density robotized laser Doppler vibrometry

    NASA Astrophysics Data System (ADS)

    Chowanietz, Maximilian; Bhangaonkar, Avinash; Semken, Michael; Cockrill, Martin

    2016-06-01

    Sound has had an intricate relation with the wellbeing of humans since time immemorial. It has the ability to enhance the quality of life immensely when present as music; at the same time, it can degrade its quality when manifested as noise. Hence, understanding its sources and the processes by which it is produced gains acute significance. Although various theories exist with respect to evolution of bells, it is indisputable that they carry millennia of cultural significance, and at least a few centuries of perfection with respect to design, casting and tuning. Despite the science behind its design, the nuances pertaining to founding and tuning have largely been empirical, and conveyed from one generation to the next. Post-production assessment for bells remains largely person-centric and traditional. However, progressive bell manufacturers have started adopting methods such as finite element analysis (FEA) for informing and optimising their future model designs. To establish confidence in the FEA process it is necessary to correlate the virtual model against a physical example. This is achieved by performing an experimental modal analysis (EMA) and comparing the results with those from FEA. Typically to collect the data for an EMA, the vibratory response of the structure is measured with the application of accelerometers. This technique has limitations; principally these are the observer effect and limited geometric resolution. In this paper, 3-dimensional laser Doppler vibrometry (LDV) has been used to measure the vibratory response with no observer effect due to the non-contact nature of the technique; resulting in higher accuracy measurements as the input to the correlation process. The laser heads were mounted on an industrial robot that enables large objects to be measured and extensive data sets to be captured quickly through an automated process. This approach gives previously unobtainable geometric resolution resulting in a higher confidence EMA. This is

  11. Human brain atlas for automated region of interest selection in quantitative susceptibility mapping: application to determine iron content in deep gray matter structures.

    PubMed

    Lim, Issel Anne L; Faria, Andreia V; Li, Xu; Hsu, Johnny T C; Airan, Raag D; Mori, Susumu; van Zijl, Peter C M

    2013-11-15

    The purpose of this paper is to extend the single-subject Eve atlas from Johns Hopkins University, which currently contains diffusion tensor and T1-weighted anatomical maps, by including contrast based on quantitative susceptibility mapping. The new atlas combines a "deep gray matter parcellation map" (DGMPM) derived from a single-subject quantitative susceptibility map with the previously established "white matter parcellation map" (WMPM) from the same subject's T1-weighted and diffusion tensor imaging data into an MNI coordinate map named the "Everything Parcellation Map in Eve Space," also known as the "EvePM." It allows automated segmentation of gray matter and white matter structures. Quantitative susceptibility maps from five healthy male volunteers (30 to 33 years of age) were coregistered to the Eve Atlas with AIR and Large Deformation Diffeomorphic Metric Mapping (LDDMM), and the transformation matrices were applied to the EvePM to produce automated parcellation in subject space. Parcellation accuracy was measured with a kappa analysis for the left and right structures of six deep gray matter regions. For multi-orientation QSM images, the Kappa statistic was 0.85 between automated and manual segmentation, with the inter-rater reproducibility Kappa being 0.89 for the human raters, suggesting "almost perfect" agreement between all segmentation methods. Segmentation seemed slightly more difficult for human raters on single-orientation QSM images, with the Kappa statistic being 0.88 between automated and manual segmentation, and 0.85 and 0.86 between human raters. Overall, this atlas provides a time-efficient tool for automated coregistration and segmentation of quantitative susceptibility data to analyze many regions of interest. These data were used to establish a baseline for normal magnetic susceptibility measurements for over 60 brain structures of 30- to 33-year-old males. Correlating the average susceptibility with age-based iron concentrations in gray

  12. Human brain atlas for automated region of interest selection in quantitative susceptibility mapping: application to determine iron content in deep gray matter structures.

    PubMed

    Lim, Issel Anne L; Faria, Andreia V; Li, Xu; Hsu, Johnny T C; Airan, Raag D; Mori, Susumu; van Zijl, Peter C M

    2013-11-15

    The purpose of this paper is to extend the single-subject Eve atlas from Johns Hopkins University, which currently contains diffusion tensor and T1-weighted anatomical maps, by including contrast based on quantitative susceptibility mapping. The new atlas combines a "deep gray matter parcellation map" (DGMPM) derived from a single-subject quantitative susceptibility map with the previously established "white matter parcellation map" (WMPM) from the same subject's T1-weighted and diffusion tensor imaging data into an MNI coordinate map named the "Everything Parcellation Map in Eve Space," also known as the "EvePM." It allows automated segmentation of gray matter and white matter structures. Quantitative susceptibility maps from five healthy male volunteers (30 to 33 years of age) were coregistered to the Eve Atlas with AIR and Large Deformation Diffeomorphic Metric Mapping (LDDMM), and the transformation matrices were applied to the EvePM to produce automated parcellation in subject space. Parcellation accuracy was measured with a kappa analysis for the left and right structures of six deep gray matter regions. For multi-orientation QSM images, the Kappa statistic was 0.85 between automated and manual segmentation, with the inter-rater reproducibility Kappa being 0.89 for the human raters, suggesting "almost perfect" agreement between all segmentation methods. Segmentation seemed slightly more difficult for human raters on single-orientation QSM images, with the Kappa statistic being 0.88 between automated and manual segmentation, and 0.85 and 0.86 between human raters. Overall, this atlas provides a time-efficient tool for automated coregistration and segmentation of quantitative susceptibility data to analyze many regions of interest. These data were used to establish a baseline for normal magnetic susceptibility measurements for over 60 brain structures of 30- to 33-year-old males. Correlating the average susceptibility with age-based iron concentrations in gray

  13. The history of tectonism on Venus: A stratigraphic analysis

    NASA Astrophysics Data System (ADS)

    Ivanov, Mikhail A.; Head, James W.

    2015-08-01

    The surface of Venus displays several tectonized terrains in which the morphologic characteristics of the original materials are almost completely erased by superposed tectonic structures whose large dimensions (»100 km) suggest formation related to mantle convection. The characteristics of these tectonized terrains are in contrast to volcanic units in which tectonic structures are less significant or absent and thus do not obscure the volcanic character of the units. We describe the temporal distribution of tectonized terrains, their stratigraphic relationships with volcanic units, and how these outline the major episodes in the geological evolution of Venus. Five major tectonized units make up ~20% of the planet: (1) tessera (t, 7.3%), (2) densely lineated plains (pdl, 1.6%), (3) ridged plains/ridge belts (pr/rb, 2.4%), (4) groove belts (gb, 8.1%), and (5) rift zones (rz, 5.0%). Clear relationships of relative age are often seen among the tectonic and volcanic units at the global scale and define three contrasting regimes of volcanic and tectonic resurfacing. The majority of tectonized terrains (t through gb) are the products of tectonic resurfacing and are embayed by the vast volcanic plains and, thus, are older. There are no units with either mildly- or non-tectonized surfaces that interleave the tectonic terrains, which would be expected if the tectonic resurfacing operated only during specific repetitive phases in discrete regions. These tectonized terrains (t through gb) thus define a tectonically dominated regime of resurfacing that occurred at a global-scale near the beginning of the observable geological history of Venus. This ancient tectonic regime began with formation of tessera and was followed by formation of pdl and pr/rb. Groove belts formed near the end of this regime. Branches of groove belts compose the tectonic components of many coronae, suggesting that these features are genetically related (e.g., mutual development of mantle diapirs and

  14. Habitat automation

    NASA Technical Reports Server (NTRS)

    Swab, Rodney E.

    1992-01-01

    A habitat, on either the surface of the Moon or Mars, will be designed and built with the proven technologies of that day. These technologies will be mature and readily available to the habitat designer. We believe an acceleration of the normal pace of automation would allow a habitat to be safer and more easily maintained than would be the case otherwise. This document examines the operation of a habitat and describes elements of that operation which may benefit from an increased use of automation. Research topics within the automation realm are then defined and discussed with respect to the role they can have in the design of the habitat. Problems associated with the integration of advanced technologies into real-world projects at NASA are also addressed.

  15. Glaciotectonic deformation and reinterpretation of the Worth Point stratigraphic sequence: Banks Island, NT, Canada

    NASA Astrophysics Data System (ADS)

    Vaughan, Jessica M.; England, John H.; Evans, David J. A.

    2014-05-01

    Hill-hole pairs, comprising an ice-pushed hill and associated source depression, cluster in a belt along the west coast of Banks Island, NT. Ongoing coastal erosion at Worth Point, southwest Banks Island, has exposed a section (6 km long and ˜30 m high) through an ice-pushed hill that was transported ˜ 2 km from a corresponding source depression to the southeast. The exposed stratigraphic sequence is polydeformed and comprises folded and faulted rafts of Early Cretaceous and Late Tertiary bedrock, a prominent organic raft, Quaternary glacial sediments, and buried glacial ice. Three distinct structural domains can be identified within the stratigraphic sequence that represent proximal to distal deformation in an ice-marginal setting. Complex thrust sequences, interfering fold-sets, brecciated bedrock and widespread shear structures superimposed on this ice-marginally deformed sequence record subsequent deformation in a subglacial shear zone. Analysis of cross-cutting relationships within the stratigraphic sequence combined with OSL dating indicate that the Worth Point hill-hole pair was deformed during two separate glaciotectonic events. Firstly, ice sheet advance constructed the hill-hole pair and glaciotectonized the strata ice-marginally, producing a proximal to distal deformation sequence. A glacioisostatically forced marine transgression resulted in extensive reworking of the strata and the deposition of a glaciomarine diamict. A readvance during this initial stage redeformed the strata in a subglacial shear zone, overprinting complex deformation structures and depositing a glaciotectonite ˜20 m thick. Outwash channels that incise the subglacially deformed strata record a deglacial marine regression, whereas aggradation of glaciofluvial sand and gravel infilling the channels record a subsequent marine transgression. Secondly, a later, largely non-erosive ice margin overrode Worth Point, deforming only the most surficial units in the section and depositing a

  16. Automation of analytical isotachophoresis

    NASA Technical Reports Server (NTRS)

    Thormann, Wolfgang

    1985-01-01

    The basic features of automation of analytical isotachophoresis (ITP) are reviewed. Experimental setups consisting of narrow bore tubes which are self-stabilized against thermal convection are considered. Sample detection in free solution is discussed, listing the detector systems presently used or expected to be of potential use in the near future. The combination of a universal detector measuring the evolution of ITP zone structures with detector systems specific to desired components is proposed as a concept of an automated chemical analyzer based on ITP. Possible miniaturization of such an instrument by means of microlithographic techniques is discussed.

  17. Tectonic and stratigraphic evolution in South Alboran Sea (Morocco)

    NASA Astrophysics Data System (ADS)

    D'Acremont, E.; Gorini, C.; El Abbassi, M.; Farran, M.; Leroy, S.; Mercier De Lepinay, B. F.; Migeon, S.; Poort, J.; Ammar, A.; Smit, J.; Ercilla, G.; Alonso, B.; Scientific Team of the Marlboro project

    2011-12-01

    The Alboran Basin, in western Mediterranean, concentrates on a relatively small surface and densely-populated, a large structural complexity linked to seismic activity with recurrent mass-transport deposits that may trigger tsunamis. It was formed by Oligo-Miocene extension while tectonic inversion occurred since the Late Miocene (Tortonian) due to the African-European collision. This North-South compression produces a conjugated fault system located in the central area from Al Hoceima to Andalusia. Numerous instabilities are linked to the recent and present-day seismic activity and show the link between seismicity and erosion-sedimentation processes. On the Andalusia margin the active structures have been identified and recently mapped in detail by using MBES data (including backscatter), and high-resolution seismic data. Such detailed studies have not yet been carried out on the Moroccan margin. The Marlboro-1 oceanographic cruise (R/V Côtes de la Manche, July 2011) has imaged and constrained active structures and associated sedimentary systems through seismic reflection data (MCS). The Xauen/Tofino banks (growth folds), the Alboran Ridge, and the Al Hoceima basin offshore Morocco have been selected because they constitute key-study areas that record a complete deformation history since the Tortonian. Active features including faults, growth folds, channels, mass transport deposits, contourites and volcanoes has provided first order tectonic and sedimentary markers of the basin's evolution. A high chrono-stratigraphical resolution will constitute the basis for reconstructing the evolution of this tectonically active area marked by strong seismic activity. The Marlboro-1 cruise will allow determining key-study area of the Marlboro-2 cruise scheduled for 2012 (R/V Téthys-II, CNFC Call). These cruises should allow for the acquisition of data necessary to characterize basin morphology, active tectonic and sedimentary structures and also make the link with existing

  18. Phytoplankton community structure in the North Sea: coupling between remote sensing and automated in situ analysis at the single cell level

    NASA Astrophysics Data System (ADS)

    Thyssen, M.; Alvain, S.; Lefèbvre, A.; Dessailly, D.; Rijkeboer, M.; Guiselin, N.; Creach, V.; Artigas, L.-F.

    2014-11-01

    Phytoplankton observation in the ocean can be a challenge in oceanography. Accurate estimations of their biomass and dynamics will help to understand ocean ecosystems and refine global climate models. This requires relevant datasets of phytoplankton at a functional level and on a daily and sub meso scale. In order to achieve this, an automated, high frequency, dedicated scanning flow cytometer (SFC, Cytobuoy, NL), has been developed to cover the entire size range of phytoplankton cells whilst simultaneously taking pictures of the largest of them. This cytometer was directly connected to the water inlet of a~pocket Ferry Box during a cruise in the North Sea, 8-12 May 2011 (DYMAPHY project, INTERREG IV A "2 Seas"), in order to identify the phytoplankton community structure of near surface waters (6 m) with a high resolution spacial basis (2.2 ± 1.8 km). Ten groups of cells, distinguished on the basis of their optical pulse shapes, were described (abundance, size estimate, red fluorescence per unit volume). Abundances varied depending on the hydrological status of the traversed waters, reflecting different stages of the North Sea blooming period. Comparisons between several techniques analyzing chlorophyll a and the scanning flow cytometer, using the integrated red fluorescence emitted by each counted cell, showed significant correlations. The community structure observed from the automated flow cytometry was compared with the PHYSAT reflectance anomalies over a daily scale. The number of matchups observed between the SFC automated high frequency in situ sampling and the remote sensing was found to be two to three times better than when using traditional water sampling strategies. Significant differences in the phytoplankton community structure within the two days for which matchups were available, suggest that it is possible to label PHYSAT anomalies not only with dominant groups, but at the level of the community structure.

  19. Exploration for stratigraphic traps in a foreland basin using a sequence stratigraphic simulation: Examples from the Eocene/Oligocene of the Apure-Llanos basin, Venezuela

    SciTech Connect

    Reistroffer, J.; Levine, P.A.; Kendall, C.G. ); Finno, A. )

    1996-01-01

    Foreland basin depositional sequences provide a sensitive record of the interaction between tectonism, eustatic sea level fluctuations, and sedimentation rates. Interplay between these controlling factors creates sedimentary geometries which are unique to this tectonic setting and form excellent stratigraphic hydrocarbon traps. Incised valley fill deposits, [open quote]forced regression[close quote] deposits, and combination structure-stratigraphic traps are the predominant reservoir types. In an effort to extend our understanding of the development of these traps, the sequence stratigraphy of a regional seismic transact through the Apure-Llanos basin was simulated. From the Late Eocene through Oligocene, the Apure-Llanos basin was Characterized by multiple phases of compression and a southeast migrating depocenter. Sands of the Mirador and Carbonera formations, which onlap the Arauca Arch to the southeast, were shed from the Guyana craton and were Cannibalized from sediments along the deformation front to the northwest. These sands comprise the principal reservoirs in the study area. Shales of the Leon Formation, which act as a regional seal, were deposited during rapid flexural subsidence and eustatic sea level rise during the early Oligocene. The Arauca Arch acted as a focal mechanism for east and southeast migrating hydrocarbons. Simulation results predict an important stratigraphic pinchout of the Mirador Formation sands against the Arauca Arch, which correlates with the Arauca Reid in Colombia to the southwest. Also, modeling indicates that minimal Tertiary oil production In the La Victoria Field to the east is due to the lack of an adequate seal. Our results provide a conceptual model which predicts hydrocarbon reservoir and seal relationships in a foreland basin setting with limited data control.

  20. Exploration for stratigraphic traps in a foreland basin using a sequence stratigraphic simulation: Examples from the Eocene/Oligocene of the Apure-Llanos basin, Venezuela

    SciTech Connect

    Reistroffer, J.; Levine, P.A.; Kendall, C.G.; Finno, A.

    1996-12-31

    Foreland basin depositional sequences provide a sensitive record of the interaction between tectonism, eustatic sea level fluctuations, and sedimentation rates. Interplay between these controlling factors creates sedimentary geometries which are unique to this tectonic setting and form excellent stratigraphic hydrocarbon traps. Incised valley fill deposits, {open_quote}forced regression{close_quote} deposits, and combination structure-stratigraphic traps are the predominant reservoir types. In an effort to extend our understanding of the development of these traps, the sequence stratigraphy of a regional seismic transact through the Apure-Llanos basin was simulated. From the Late Eocene through Oligocene, the Apure-Llanos basin was Characterized by multiple phases of compression and a southeast migrating depocenter. Sands of the Mirador and Carbonera formations, which onlap the Arauca Arch to the southeast, were shed from the Guyana craton and were Cannibalized from sediments along the deformation front to the northwest. These sands comprise the principal reservoirs in the study area. Shales of the Leon Formation, which act as a regional seal, were deposited during rapid flexural subsidence and eustatic sea level rise during the early Oligocene. The Arauca Arch acted as a focal mechanism for east and southeast migrating hydrocarbons. Simulation results predict an important stratigraphic pinchout of the Mirador Formation sands against the Arauca Arch, which correlates with the Arauca Reid in Colombia to the southwest. Also, modeling indicates that minimal Tertiary oil production In the La Victoria Field to the east is due to the lack of an adequate seal. Our results provide a conceptual model which predicts hydrocarbon reservoir and seal relationships in a foreland basin setting with limited data control.

  1. Automated High Throughput Drug Target Crystallography

    SciTech Connect

    Rupp, B

    2005-02-18

    The molecular structures of drug target proteins and receptors form the basis for 'rational' or structure guided drug design. The majority of target structures are experimentally determined by protein X-ray crystallography, which as evolved into a highly automated, high throughput drug discovery and screening tool. Process automation has accelerated tasks from parallel protein expression, fully automated crystallization, and rapid data collection to highly efficient structure determination methods. A thoroughly designed automation technology platform supported by a powerful informatics infrastructure forms the basis for optimal workflow implementation and the data mining and analysis tools to generate new leads from experimental protein drug target structures.

  2. Automated dispenser

    SciTech Connect

    Hollen, R.M.; Stalnaker, N.D.

    1989-04-06

    An automated dispenser having a conventional pipette attached to an actuating cylinder through a flexible cable for delivering precise quantities of a liquid through commands from remotely located computer software. The travel of the flexible cable is controlled by adjustable stops and a locking shaft. The pipette can be positioned manually or by the hands of a robot. 1 fig.

  3. Automating Finance

    ERIC Educational Resources Information Center

    Moore, John

    2007-01-01

    In past years, higher education's financial management side has been riddled with manual processes and aging mainframe applications. This article discusses schools which had taken advantage of an array of technologies that automate billing, payment processing, and refund processing in the case of overpayment. The investments are well worth it:…

  4. Traps and seals II. Stratigraphic/capillary traps

    SciTech Connect

    Foster, N.H.; Beaumont, E.A.

    1988-01-01

    This text is a reprint belonging to a series of reprint volumes which in turn are part of the Treatise of Petroleum Geology. This volume contains papers that describe different stratigraphically controlled trap types, the preservation of porosity, and the importance of capillarity in trapping hydrocarbons.

  5. Biothems: Sequence stratigraphic units and their implications for regional tectono-stratigraphic interpretations

    SciTech Connect

    Lane, H.R. ); Frye, M.W. ); Couples, G.D. )

    1992-01-01

    Biothems are regional wedge- or lens-shaped bodies of strata that are bounded shelfward or cratonward by paleontologically recognizable unconformities; generally thicken on marine shelves, where they are typically conformable with underlying and overlying biothems; are commonly thinner or represent starved sequences further basinward; and in their most basinward extent, are either bounded by biostratigraphically recognizable unconformities or are conformable with underlying and overlying biothems. As recognized to date, biothems have a logical distribution of faunal and floral components, as well as facies groupings that represent internally consistent and logical sequences of depositional environments. A west-to-east transect within the North American Mississippian System which extends from the Basin and Range Province, across the Transcontinental Arch (TA), into the Anadarko Basin, was constructed to demonstrate the regional distribution and tectono-stratigraphic significance of biothems relative to the axis of the TA. The relationships portrayed on the transect, tied to an understanding of North American Mississippian paleogeography, imply that biothems deposited during relative highstand events on one flank of the TA are time-equivalent to biothems deposited during relative lowstand events on the opposite flank of the TA. This distribution is interpreted to have been controlled by intraplate tectonic events that formed piano key basins along the flanks of the TA. The spatial patterns of these basins are not consistent with published models of basin evolution. A further conclusion is that the lack of coincident, transgressive or regressive Mississippian biothems on either flank of the TA suggests that it is inadvisable to impose the Mississippi Valley-derived eustasy curve on western flank depositional sequences.

  6. Measuring Stratigraphic Congruence Across Trees, Higher Taxa, and Time

    PubMed Central

    O'Connor, Anne; Wills, Matthew A.

    2016-01-01

    The congruence between the order of cladistic branching and the first appearance dates of fossil lineages can be quantified using a variety of indices. Good matching is a prerequisite for the accurate time calibration of trees, while the distribution of congruence indices across large samples of cladograms has underpinned claims about temporal and taxonomic patterns of completeness in the fossil record. The most widely used stratigraphic congruence indices are the stratigraphic consistency index (SCI), the modified Manhattan stratigraphic measure (MSM*), and the gap excess ratio (GER) (plus its derivatives; the topological GER and the modified GER). Many factors are believed to variously bias these indices, with several empirical and simulation studies addressing some subset of the putative interactions. This study combines both approaches to quantify the effects (on all five indices) of eight variables reasoned to constrain the distribution of possible values (the number of taxa, tree balance, tree resolution, range of first occurrence (FO) dates, center of gravity of FO dates, the variability of FO dates, percentage of extant taxa, and percentage of taxa with no fossil record). Our empirical data set comprised 647 published animal and plant cladograms spanning the entire Phanerozoic, and for these data we also modeled the effects of mean age of FOs (as a proxy for clade age), the taxonomic rank of the clade, and the higher taxonomic group to which it belonged. The center of gravity of FO dates had not been investigated hitherto, and this was found to correlate most strongly with some measures of stratigraphic congruence in our empirical study (top-heavy clades had better congruence). The modified GER was the index least susceptible to bias. We found significant differences across higher taxa for all indices; arthropods had lower congruence and tetrapods higher congruence. Stratigraphic congruence—however measured—also varied throughout the Phanerozoic

  7. Measuring Stratigraphic Congruence Across Trees, Higher Taxa, and Time.

    PubMed

    O'Connor, Anne; Wills, Matthew A

    2016-09-01

    The congruence between the order of cladistic branching and the first appearance dates of fossil lineages can be quantified using a variety of indices. Good matching is a prerequisite for the accurate time calibration of trees, while the distribution of congruence indices across large samples of cladograms has underpinned claims about temporal and taxonomic patterns of completeness in the fossil record. The most widely used stratigraphic congruence indices are the stratigraphic consistency index (SCI), the modified Manhattan stratigraphic measure (MSM*), and the gap excess ratio (GER) (plus its derivatives; the topological GER and the modified GER). Many factors are believed to variously bias these indices, with several empirical and simulation studies addressing some subset of the putative interactions. This study combines both approaches to quantify the effects (on all five indices) of eight variables reasoned to constrain the distribution of possible values (the number of taxa, tree balance, tree resolution, range of first occurrence (FO) dates, center of gravity of FO dates, the variability of FO dates, percentage of extant taxa, and percentage of taxa with no fossil record). Our empirical data set comprised 647 published animal and plant cladograms spanning the entire Phanerozoic, and for these data we also modeled the effects of mean age of FOs (as a proxy for clade age), the taxonomic rank of the clade, and the higher taxonomic group to which it belonged. The center of gravity of FO dates had not been investigated hitherto, and this was found to correlate most strongly with some measures of stratigraphic congruence in our empirical study (top-heavy clades had better congruence). The modified GER was the index least susceptible to bias. We found significant differences across higher taxa for all indices; arthropods had lower congruence and tetrapods higher congruence. Stratigraphic congruence-however measured-also varied throughout the Phanerozoic, reflecting

  8. Stratigraphic framework for Pliocene paleoclimate reconstruction: The correlation conundrum

    USGS Publications Warehouse

    Dowsett, H.J.; Robinson, M.M.

    2006-01-01

    Pre-Holocene paleoclimate reconstructions face a correlation conundrum because complications inherent in the stratigraphic record impede the development of synchronous reconstruction. The Pliocene Research, Interpretation and Synoptic Mapping (PRISM) paleoenvironmental reconstructions have carefully balanced temporal resolution and paleoclimate proxy data to achieve a useful and reliable product and are the most comprehensive pre-Pleistocene data sets available for analysis of warmer-than-present climate and for climate modeling experiments. This paper documents the stratigraphic framework for the mid-Pliocene sea surface temperature (SST) reconstruction of the North Atlantic and explores the relationship between stratigraphic/temporal resolution and various paleoceanographic estimates of SST. The magnetobiostratigraphic framework for the PRISM North Atlantic region is constructed from planktic foraminifer, calcareous nannofossil and paleomagnetic reversal events recorded in deep-sea cores and calibrated to age. Planktic foraminifer census data from multiple samples within the mid-Pliocene yield multiple SST estimates for each site. Extracting a single SST value at each site from multiple estimates, given the limitations of the material and stratigraphic resolution, is problematic but necessary for climate model experiments. The PRISM reconstruction, unprecedented in its integration of many different types of data at a focused stratigraphic interval, utilizes a time slab approach and is based on warm peak average temperatures. A greater understanding of the dynamics of the climate system and significant advances in models now mandate more precise, globally distributed yet temporally synchronous SST estimates than are available through averaging techniques. Regardless of the precision used to correlate between sequences within the midd-Pliocene, a truly synoptic reconstruction in the temporal sense is unlikely. SST estimates from multiple proxies promise to further

  9. Scaling Out and Evaluation of OBSecAn, an Automated Section Annotator for Semi-Structured Clinical Documents, on a Large VA Clinical Corpus

    PubMed Central

    Tran, Le-Thuy T.; Divita, Guy; Redd, Andrew; Carter, Marjorie E.; Samore, Matthew; Gundlapalli, Adi V.

    2015-01-01

    “Identifying and labeling” (annotating) sections improves the effectiveness of extracting information stored in the free text of clinical documents. OBSecAn, an automated ontology-based section annotator, was developed to identify and label sections of semi-structured clinical documents from the Department of Veterans Affairs (VA). In the first step, the algorithm reads and parses the document to obtain and store information regarding sections into a structure that supports the hierarchy of sections. The second stage detects and makes correction to errors in the parsed structure. The third stage produces the section annotation output using the final parsed tree. In this study, we present the OBSecAn method and its scale to a million document corpus and evaluate its performance in identifying family history sections. We identify high yield sections for this use case from note titles such as primary care and demonstrate a median rate of 99% in correctly identifying a family history section. PMID:26958260

  10. SU-C-9A-02: Structured Noise Index as An Automated Quality Control for Nuclear Medicine: A Two Year Experience

    SciTech Connect

    Nelson, J; Christianson, O; Samei, E

    2014-06-01

    Purpose: Flood-field uniformity evaluation is an essential element in the assessment of nuclear medicine (NM) gamma cameras. It serves as the central element of the quality control (QC) program, acquired and analyzed on a daily basis prior to clinical imaging. Uniformity images are traditionally analyzed using pixel value-based metrics which often fail to capture subtle structure and patterns caused by changes in gamma camera performance requiring additional visual inspection which is subjective and time demanding. The goal of this project was to develop and implement a robust QC metrology for NM that is effective in identifying non-uniformity issues, reporting issues in a timely manner for efficient correction prior to clinical involvement, all incorporated into an automated effortless workflow, and to characterize the program over a two year period. Methods: A new quantitative uniformity analysis metric was developed based on 2D noise power spectrum metrology and confirmed based on expert observer visual analysis. The metric, termed Structured Noise Index (SNI) was then integrated into an automated program to analyze, archive, and report on daily NM QC uniformity images. The effectiveness of the program was evaluated over a period of 2 years. Results: The SNI metric successfully identified visually apparent non-uniformities overlooked by the pixel valuebased analysis methods. Implementation of the program has resulted in nonuniformity identification in about 12% of daily flood images. In addition, due to the vigilance of staff response, the percentage of days exceeding trigger value shows a decline over time. Conclusion: The SNI provides a robust quantification of the NM performance of gamma camera uniformity. It operates seamlessly across a fleet of multiple camera models. The automated process provides effective workflow within the NM spectra between physicist, technologist, and clinical engineer. The reliability of this process has made it the preferred

  11. Stratigraphic framework of Lower and Upper Cretaceous rocks in central and eastern Montana

    USGS Publications Warehouse

    Condon, Steven M.

    2000-01-01

    This study shows the lithology, thickness, distribution, and correlation of Lower and Upper Cretaceous rocks in central and eastern Montana. The described stratigraphic units range from the Aptian Kootenai Formation (oldest) to the Maastrichtian Hell Creek Formation (youngest). An included text report describes the units, and most formations or members are also represented by isopach maps. Structure contour maps of three horizons are also included. Correlations across the study area are shown on a series of cross sections. All text and illustrations are included as Adobe PDF files.

  12. Tectono-stratigraphic development of the Neogene Gulf of Suez rift basin

    SciTech Connect

    Richardson, M.; Arthur, M.A. )

    1988-08-01

    Subsidence analysis (backstripping) was carried out on a series of wells from the Gulf of Suez and northern Red Sea region of Egypt in order to examine the interplay between tectonic events, basin subsidence, sedimentation, and sea level changes in a young, developing ocean basin and continental margin. Using constraints on chronostratigraphy and paleodepth from various sources combined with stratigraphic and structural information from industry wells and other geophysical sources, it has been possible to compile the data necessary to perform geohistory analyses throughout the region.

  13. Primary structure of rat cardiac beta-adrenergic and muscarinic cholinergic receptors obtained by automated DNA sequence analysis: further evidence for a multigene family.

    PubMed Central

    Gocayne, J; Robinson, D A; FitzGerald, M G; Chung, F Z; Kerlavage, A R; Lentes, K U; Lai, J; Wang, C D; Fraser, C M; Venter, J C

    1987-01-01

    Two cDNA clones, lambda RHM-MF and lambda RHB-DAR, encoding the muscarinic cholinergic receptor and the beta-adrenergic receptor, respectively, have been isolated from a rat heart cDNA library. The cDNA clones were characterized by restriction mapping and automated DNA sequence analysis utilizing fluorescent dye primers. The rat heart muscarinic receptor consists of 466 amino acids and has a calculated molecular weight of 51,543. The rat heart beta-adrenergic receptor consists of 418 amino acids and has a calculated molecular weight of 46,890. The two cardiac receptors have substantial amino acid homology (27.2% identity, 50.6% with favored substitutions). The rat cardiac beta receptor has 88.0% homology (92.5% with favored substitutions) with the human brain beta receptor and the rat cardiac muscarinic receptor has 94.6% homology (97.6% with favored substitutions) with the porcine cardiac muscarinic receptor. The muscarinic cholinergic and beta-adrenergic receptors appear to be as conserved as hemoglobin and cytochrome c but less conserved than histones and are clearly members of a multigene family. These data support our hypothesis, based upon biochemical and immunological evidence, that suggests considerable structural homology and evolutionary conservation between adrenergic and muscarinic cholinergic receptors. To our knowledge, this is the first report utilizing automated DNA sequence analysis to determine the structure of a gene. Images PMID:2825184

  14. SAS program for quantitative stratigraphic correlation by principal components

    USGS Publications Warehouse

    Hohn, M.E.

    1985-01-01

    A SAS program is presented which constructs a composite section of stratigraphic events through principal components analysis. The variables in the analysis are stratigraphic sections and the observational units are range limits of taxa. The program standardizes data in each section, extracts eigenvectors, estimates missing range limits, and computes the composite section from scores of events on the first principal component. Provided is an option of several types of diagnostic plots; these help one to determine conservative range limits or unrealistic estimates of missing values. Inspection of the graphs and eigenvalues allow one to evaluate goodness of fit between the composite and measured data. The program is extended easily to the creation of a rank-order composite. ?? 1985.

  15. The Anthropocene is functionally and stratigraphically distinct from the Holocene.

    PubMed

    Waters, Colin N; Zalasiewicz, Jan; Summerhayes, Colin; Barnosky, Anthony D; Poirier, Clément; Gałuszka, Agnieszka; Cearreta, Alejandro; Edgeworth, Matt; Ellis, Erle C; Ellis, Michael; Jeandel, Catherine; Leinfelder, Reinhold; McNeill, J R; Richter, Daniel deB; Steffen, Will; Syvitski, James; Vidas, Davor; Wagreich, Michael; Williams, Mark; Zhisheng, An; Grinevald, Jacques; Odada, Eric; Oreskes, Naomi; Wolfe, Alexander P

    2016-01-01

    Human activity is leaving a pervasive and persistent signature on Earth. Vigorous debate continues about whether this warrants recognition as a new geologic time unit known as the Anthropocene. We review anthropogenic markers of functional changes in the Earth system through the stratigraphic record. The appearance of manufactured materials in sediments, including aluminum, plastics, and concrete, coincides with global spikes in fallout radionuclides and particulates from fossil fuel combustion. Carbon, nitrogen, and phosphorus cycles have been substantially modified over the past century. Rates of sea-level rise and the extent of human perturbation of the climate system exceed Late Holocene changes. Biotic changes include species invasions worldwide and accelerating rates of extinction. These combined signals render the Anthropocene stratigraphically distinct from the Holocene and earlier epochs.

  16. Stratigraphic architectures spotted in southern Melas Chasma, Valles Marineris, Mars

    NASA Astrophysics Data System (ADS)

    Dromart, Gilles; Quantin, Cathy; Broucke, Olivier

    2007-04-01

    The distribution in space and time of liquid water on Mars is relevant to astrobiology and astroclimatology. To date, most orbital observations that attest to past fluvial and lacustrine activity on Mars have been dedicated to surficial landforms (i.e., drainage networks and depositional fans). Here we report an unprecedented identification of typical stratigraphic architectures made in Mars Global Surveyor Mars Orbiter Camera images of layered material in southern Melas Chasma. A particular set of strata is arranged in three depositional sequences bounded by stratigraphic unconformities. The sequences show spectacular steeply inclined clinoforms, and a broad channel-like depression. There are the same complex stratal patterns in Valles Marineris on Mars as there are in terrestrial deposits. Insights into these three-dimensional deposit geometries are used to tentatively isolate specific depositional processes and point to ancient subaqueous settings. Findings in southern Melas indicate a very attractive spot to which the search for ancient habitable environments on Mars could be directed.

  17. The Anthropocene is functionally and stratigraphically distinct from the Holocene.

    PubMed

    Waters, Colin N; Zalasiewicz, Jan; Summerhayes, Colin; Barnosky, Anthony D; Poirier, Clément; Gałuszka, Agnieszka; Cearreta, Alejandro; Edgeworth, Matt; Ellis, Erle C; Ellis, Michael; Jeandel, Catherine; Leinfelder, Reinhold; McNeill, J R; Richter, Daniel deB; Steffen, Will; Syvitski, James; Vidas, Davor; Wagreich, Michael; Williams, Mark; Zhisheng, An; Grinevald, Jacques; Odada, Eric; Oreskes, Naomi; Wolfe, Alexander P

    2016-01-01

    Human activity is leaving a pervasive and persistent signature on Earth. Vigorous debate continues about whether this warrants recognition as a new geologic time unit known as the Anthropocene. We review anthropogenic markers of functional changes in the Earth system through the stratigraphic record. The appearance of manufactured materials in sediments, including aluminum, plastics, and concrete, coincides with global spikes in fallout radionuclides and particulates from fossil fuel combustion. Carbon, nitrogen, and phosphorus cycles have been substantially modified over the past century. Rates of sea-level rise and the extent of human perturbation of the climate system exceed Late Holocene changes. Biotic changes include species invasions worldwide and accelerating rates of extinction. These combined signals render the Anthropocene stratigraphically distinct from the Holocene and earlier epochs. PMID:26744408

  18. Numerical analysis of stiffened shells of revolution. Volume 3: Users' manual for STARS-2B, 2V, shell theory automated for rotational structures, 2 (buckling, vibrations), digital computer programs

    NASA Technical Reports Server (NTRS)

    Svalbonas, V.

    1973-01-01

    The User's manual for the shell theory automated for rotational structures (STARS) 2B and 2V (buckling, vibrations) is presented. Several features of the program are: (1) arbitrary branching of the shell meridians, (2) arbitrary boundary conditions, (3) minimum input requirements to describe a complex, practical shell of revolution structure, and (4) accurate analysis capability using a minimum number of degrees of freedom.

  19. Developing a Graphical User Interface to Automate the Estimation and Prediction of Risk Values for Flood Protective Structures using Artificial Neural Network

    NASA Astrophysics Data System (ADS)

    Hasan, M.; Helal, A.; Gabr, M.

    2014-12-01

    In this project, we focus on providing a computer-automated platform for a better assessment of the potential failures and retrofit measures of flood-protecting earth structures, e.g., dams and levees. Such structures play an important role during extreme flooding events as well as during normal operating conditions. Furthermore, they are part of other civil infrastructures such as water storage and hydropower generation. Hence, there is a clear need for accurate evaluation of stability and functionality levels during their service lifetime so that the rehabilitation and maintenance costs are effectively guided. Among condition assessment approaches based on the factor of safety, the limit states (LS) approach utilizes numerical modeling to quantify the probability of potential failures. The parameters for LS numerical modeling include i) geometry and side slopes of the embankment, ii) loading conditions in terms of rate of rising and duration of high water levels in the reservoir, and iii) cycles of rising and falling water levels simulating the effect of consecutive storms throughout the service life of the structure. Sample data regarding the correlations of these parameters are available through previous research studies. We have unified these criteria and extended the risk assessment in term of loss of life through the implementation of a graphical user interface to automate input parameters that divides data into training and testing sets, and then feeds them into Artificial Neural Network (ANN) tool through MATLAB programming. The ANN modeling allows us to predict risk values of flood protective structures based on user feedback quickly and easily. In future, we expect to fine-tune the software by adding extensive data on variations of parameters.

  20. Surface Process Control on Stratigraphic Completeness in Simple Experimental Deltas

    NASA Astrophysics Data System (ADS)

    Hobley, D. E. J.; Tucker, G. E.; Mahon, R. C.; Barnhart, K. R.; Shaw, J.; Liang, M.; Paola, C.; Voller, V. R.

    2015-12-01

    The ability to measure and understand stratigraphic completeness is fundamental to the interpretation of the sedimentary record. It provides the epistemic basis that allows us to predict the preservation potential of input signals to sedimentary systems, and gives us a null hypothesis of sorts against which real stratigraphic sequences can be compared. Stratigraphic completeness essentially sets the resolution of a seismic section. However, despite the importance of stratigraphic completeness, significant gaps remain in our understanding, especially as regards the mechanistic underpinnings of how real geomorphic and transport processes influence completeness. Here we use a suite of reduced complexity numerical models of a delta to investigate what degree of realism in representation of surface processes is required to match measured completeness-timescale relationships in real systems. Target data is drawn from experimental deltas, where input variables are known and well constrained. We explore the extent to which surface processes - in particular, expressed as the spatial restriction of and correlation between loci of erosion and deposition on the delta top and front - control completeness, independent of the forcing parameters of sediment input and base level. We illustrate the importance of data resolution in controlling measured completeness, and demonstrate that these resolution effects can combine with trends driven by process localization on the delta top. We discuss the extent to which these two effects can or cannot be distinguished in real data. We argue that signals of localized erosion on the delta top and localized deposition on the delta front are key drivers of completeness-timescale trends, even for simple Gilbert-style deltas under elementary experimental boundary conditions.

  1. Paleoclimate controls on stratigraphic repetition of chemical and siliciclastic rocks

    SciTech Connect

    Cecil, C.B. )

    1990-06-01

    Climate is a primary control on sediment flux from continental sources into sedimentary systems. In warm climates, siliciclastic input is greatest under highly seasonal rainfall. Nonseasonal conditions favor formation of end member chemical rocks; perennially wet climates are conductive to coal formation, whereas dry climates produce carbonates and/or evaporites. Stratigraphic repetition of siliciclastic and chemical rocks therefore appears to be related to paleoclimate cycles as well as to transgressive-regressive events and tectonics.

  2. Automated lithocell

    NASA Astrophysics Data System (ADS)

    Englisch, Andreas; Deuter, Armin

    1990-06-01

    Integration and automation have gained more and more ground in modern IC-manufacturing. It is difficult to make a direct calculation of the profit these investments yield. On the other hand, the demands to man, machine and technology have increased enormously of late; it is not difficult to see that only by means of integration and automation can these demands be coped with. Here are some salient points: U the complexity and costs incurred by the equipment and processes have got significantly higher . owing to the reduction of all dimensions, the tolerances within which the various process steps have to be carried out have got smaller and smaller and the adherence to these tolerances more and more difficult U the cycle time has become more and more important both for the development and control of new processes and, to a great extent, for a rapid and reliable supply to the customer. In order that the products be competitive under these conditions, all sort of costs have to be reduced and the yield has to be maximized. Therefore, the computer-aided control of the equipment and the process combined with an automatic data collection and a real-time SPC (statistical process control) has become absolutely necessary for successful IC-manufacturing. Human errors must be eliminated from the execution of the various process steps by automation. The work time set free in this way makes it possible for the human creativity to be employed on a larger scale in stabilizing the processes. Besides, a computer-aided equipment control can ensure the optimal utilization of the equipment round the clock.

  3. Influence of Holocene stratigraphic architecture on ground surface settlements: A case study from the City of Pisa (Tuscany, Italy)

    NASA Astrophysics Data System (ADS)

    Sarti, Giovanni; Rossi, Veronica; Amorosi, Alessandro

    2012-12-01

    The Holocene stratigraphic architecture of modern coastal and deltaic plains has peculiar characteristics that may influence ground surface settlements. In the Pisa urban area, the inhomogeneous spatial distribution of geotechnically weak layers, typically formed during the mid-late Holocene (highstand) coastal progradation, is inferred to be responsible for urban ground settlement and building damage, as evidenced by the tilt of several surface structures, among which the famous Leaning Tower of Pisa is the most prominent. On the basis of integrated stratigraphic, sedimentological and geotechnical data from a wide georeferenced database, three facies associations with high deformability potential (Units 1-3) are identified in the uppermost 30 m as opposed to depositional facies (Units 4-5) with higher geotechnical strength. Whereas Unit 1 represents a thick, laterally extensive lagoonal clay deposit, the overlying highly deformable units (Units 2-3) show more discontinuous spatial distribution controlled by the Holocene paleohydrographic evolution of the Arno coastal plain. Unit 2, dated between the Neolithic and the Etruscan age (ca. 5000-2000 yr BP), is composed of swamp clays and silty clays recording lagoon infilling due to Arno Delta progradation. Units 3 and 4, which consist of wet levee deposits and stiff floodplain clays, respectively, formed during the subsequent phases of alluvial plain construction started around the Roman age (from ca. 2000 yr BP). Whereas Units 3 and 4 are recorded within the uppermost 5 m, fluvial and distributary channel sands (Unit 5) cut the underlying deltaic-alluvial succession at various stratigraphic levels, down to Unit 1. The spatial distribution of these units gives rise to three, locally juxtaposed, stratigraphic motifs in Pisa underground, reflecting different potential risks for settlement under building loads. We show how lateral changes in stratigraphic architecture account for the irregular spatial distribution of

  4. Sequence stratigraphy and stratigraphic trap potential of the Villeta Formation (Cretaceous), Putumayo Basin, Columbia

    SciTech Connect

    Robertson, H.C.; Cregg, A.; Cleveland, G.

    1996-12-31

    The Villeta Formation, which was deposited in -15 Ma (Cenomanian-Campanian), includes four 3rd-order sequences representing marine shelf, siliciclastic shoreface, and lower coastal-plain environments. Although these environments transgressed landward across the pre-Cretaceous basement during a 2nd-order base-level rise, several brief but important base-level falls and abrupt basinward and downward facies-shifts interrupted this trend. The 3rd-order base-level falls and subsequent transgressions led to the deposition of important hydrocarbon-bearing sandstones in the Villeta Formation. Sequence boundaries record abrupt downward facies shifts and separate black marine shales and deep-shelf limestones below from fluvial to tidally- and wave-influenced shoreface sandstones above. Each of these sands (Arenisca T, U inferior, U superior, and M2) laps out landward and passes upward into transgressive shales and thin highstand limestones. Base-level rise and retrogradation of the shoreline is indicated by upward thinning of transgressive sandstones and upward increase in marine shale. Sandstones thin or downlap basinward into shales. Transgressive deposits dominate the sequences. Highstand progradation of siliciclastic shorelines was minimal and limited by a relatively high accommodation/sediment-supply ratio. Base-level falls, however, allowed shorelines to advance basinward long distances. The stratigraphic geometries of the Villeta sandstones, as indicated by seismic data and well-log correlations, indicate that potentially large stratigraphic traps are present in the Putumayo Basin. Stratigraphic entrapment is indicated by landward onlap of the Villeta sandstones, the presence of shales and tight limestones overlying porous sandstones, and known hydrocarbon accumulations in the sandstones over structural highs.

  5. Sequence stratigraphy and stratigraphic trap potential of the Villeta Formation (Cretaceous), Putumayo Basin, Columbia

    SciTech Connect

    Robertson, H.C. ); Cregg, A.; Cleveland, G. )

    1996-01-01

    The Villeta Formation, which was deposited in -15 Ma (Cenomanian-Campanian), includes four 3rd-order sequences representing marine shelf, siliciclastic shoreface, and lower coastal-plain environments. Although these environments transgressed landward across the pre-Cretaceous basement during a 2nd-order base-level rise, several brief but important base-level falls and abrupt basinward and downward facies-shifts interrupted this trend. The 3rd-order base-level falls and subsequent transgressions led to the deposition of important hydrocarbon-bearing sandstones in the Villeta Formation. Sequence boundaries record abrupt downward facies shifts and separate black marine shales and deep-shelf limestones below from fluvial to tidally- and wave-influenced shoreface sandstones above. Each of these sands (Arenisca T, U inferior, U superior, and M2) laps out landward and passes upward into transgressive shales and thin highstand limestones. Base-level rise and retrogradation of the shoreline is indicated by upward thinning of transgressive sandstones and upward increase in marine shale. Sandstones thin or downlap basinward into shales. Transgressive deposits dominate the sequences. Highstand progradation of siliciclastic shorelines was minimal and limited by a relatively high accommodation/sediment-supply ratio. Base-level falls, however, allowed shorelines to advance basinward long distances. The stratigraphic geometries of the Villeta sandstones, as indicated by seismic data and well-log correlations, indicate that potentially large stratigraphic traps are present in the Putumayo Basin. Stratigraphic entrapment is indicated by landward onlap of the Villeta sandstones, the presence of shales and tight limestones overlying porous sandstones, and known hydrocarbon accumulations in the sandstones over structural highs.

  6. Tectonic and stratigraphic evolution of the Western Alboran Sea basin since the last 25 Myrs

    NASA Astrophysics Data System (ADS)

    Do Couto, Damien; Gorini, Christian; Jolivet, Laurent; Lebret, Noëmie; Augier, Romain; Gumiaux, Charles; D'Acremont, Elia; Ammar, Abdellah; Auxietre, Jean-Luc

    2016-04-01

    The Western Alboran Basin (WAB) formation has always been a matter of debate and was either considered as a backarc or a forearc basin. Based on stratigraphic analysis of high-resolution 2D seismic profiles mostly located offshore Morocco, the tectonic and stratigraphic history of the WAB is clarified. A thick pre-rift sequence is observed beneath the Miocene basin and interpreted as the topmost Malaguide/Ghomaride complex composing the Alboran domain. The structural position of this unit compared with the HP-LT exhumed Alpujarride/Sebtide metamorphic basement, leads us to link the Early Miocene subsidence of the basin with an extensional detachment. Above the Early Miocene, a thick Serravallian sequence marked by siliciclastic deposits is nearly devoid of extensional structures. Its overall landward to basinward onlap geometry indicates that the WAB has behaved as a sag basin during most of its evolution, from the Serravallian to the Late Tortonian. Tectonic reconstructions in map view and cross-section further suggest that the basin has always represented a strongly subsiding topographic low without internal deformation that has migrated westward together with the retreating slab. We propose that the subsidence of the WAB was controlled by the pull of the dipping subducting lithosphere explaining the large thickness (10 km) of the mostly undeformed sedimentary infill.

  7. Tectonic and stratigraphic evolution of the Western Alboran Sea Basin in the last 25 Myrs

    NASA Astrophysics Data System (ADS)

    Do Couto, Damien; Gorini, Christian; Jolivet, Laurent; Lebret, Noëmie; Augier, Romain; Gumiaux, Charles; d'Acremont, Elia; Ammar, Abdellah; Jabour, Haddou; Auxietre, Jean-Luc

    2016-05-01

    The Western Alboran Basin (WAB) formation has always been the subject of debate and considered either as a back-arc or a forearc basin. Stratigraphic analyses of high-resolution 2D seismic profiles mostly located offshore Morocco, enabled us to clarify the tectonic and stratigraphic history of the WAB. The thick pre-rift sequence located beneath the Miocene basin is interpreted as the topmost Malaguide/Ghomaride complex composing the Alboran domain. The structural position of this unit compared with the HP-LT exhumed Alpujarride/Sebtide metamorphic basement, leads us to link the Early Miocene subsidence of the basin with an extensional detachment. Above the Early Miocene, a thick Serravallian sequence marked by siliciclastic deposits is nearly devoid of extensional structures. Its overall landward to basinward onlap geometry indicates that the WAB has behaved as a sag basin during most of its evolution from the Serravallian to the late Tortonian. Tectonic reconstructions in map view and in cross section further suggest that the basin has always represented a strongly subsiding topographic low without internal deformation that migrated westward together with the retreating slab. We propose that the subsidence of the WAB was controlled by the pull of the dipping subducting lithosphere hence explaining the considerable thickness (10 km) of the mostly undeformed sedimentary infill.

  8. H++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations.

    PubMed

    Anandakrishnan, Ramu; Aguilar, Boris; Onufriev, Alexey V

    2012-07-01

    The accuracy of atomistic biomolecular modeling and simulation studies depend on the accuracy of the input structures. Preparing these structures for an atomistic modeling task, such as molecular dynamics (MD) simulation, can involve the use of a variety of different tools for: correcting errors, adding missing atoms, filling valences with hydrogens, predicting pK values for titratable amino acids, assigning predefined partial charges and radii to all atoms, and generating force field parameter/topology files for MD. Identifying, installing and effectively using the appropriate tools for each of these tasks can be difficult for novice and time-consuming for experienced users. H++ (http://biophysics.cs.vt.edu/) is a free open-source web server that automates the above key steps in the preparation of biomolecular structures for molecular modeling and simulations. H++ also performs extensive error and consistency checking, providing error/warning messages together with the suggested corrections. In addition to numerous minor improvements, the latest version of H++ includes several new capabilities and options: fix erroneous (flipped) side chain conformations for HIS, GLN and ASN, include a ligand in the input structure, process nucleic acid structures and generate a solvent box with specified number of common ions for explicit solvent MD.

  9. Relation between stratigraphic architecture and multi-scale heterogeneities in carbonate platforms: The Barremian-lower Aptian of the Monts de Vaucluse, SE France

    NASA Astrophysics Data System (ADS)

    Leonide, Philippe; Borgomano, Jean; Masse, Jean-Pierre; Doublet, Stefan

    2012-07-01

    facies variations) and the morphology of the shelf reflect a strong interaction between tectonic (differential subsidence), sediment production and global environmental conditions. At the km-scale, the "Gorges de la Nesque" stratigraphic motif could represent a nested stratigraphic structure within the large-scale model, which could be implemented for up-scaling petrophysical properties from the well to a full-field model. The association of coral facies to the rudist-dominated system in the Provence platform is a very clear proxy of the polarity of the carbonate platform and is critical for subsurface facies-property modeling based on well data. Finally, at the global scale, the stratigraphic architecture and the step-wise drowning events of the Provence platform confirm and document the precursor events associated with environmental perturbations that affected the carbonate factory prior the Oceanic Anoxic Event 1a (OAE1a).

  10. The automation of science.

    PubMed

    King, Ross D; Rowland, Jem; Oliver, Stephen G; Young, Michael; Aubrey, Wayne; Byrne, Emma; Liakata, Maria; Markham, Magdalena; Pir, Pinar; Soldatova, Larisa N; Sparkes, Andrew; Whelan, Kenneth E; Clare, Amanda

    2009-04-01

    The basis of science is the hypothetico-deductive method and the recording of experiments in sufficient detail to enable reproducibility. We report the development of Robot Scientist "Adam," which advances the automation of both. Adam has autonomously generated functional genomics hypotheses about the yeast Saccharomyces cerevisiae and experimentally tested these hypotheses by using laboratory automation. We have confirmed Adam's conclusions through manual experiments. To describe Adam's research, we have developed an ontology and logical language. The resulting formalization involves over 10,000 different research units in a nested treelike structure, 10 levels deep, that relates the 6.6 million biomass measurements to their logical description. This formalization describes how a machine contributed to scientific knowledge. PMID:19342587

  11. Automated campaign system

    NASA Astrophysics Data System (ADS)

    Vondran, Gary; Chao, Hui; Lin, Xiaofan; Beyer, Dirk; Joshi, Parag; Atkins, Brian; Obrador, Pere

    2006-02-01

    To run a targeted campaign involves coordination and management across numerous organizations and complex process flows. Everything from market analytics on customer databases, acquiring content and images, composing the materials, meeting the sponsoring enterprise brand standards, driving through production and fulfillment, and evaluating results; all processes are currently performed by experienced highly trained staff. Presented is a developed solution that not only brings together technologies that automate each process, but also automates the entire flow so that a novice user could easily run a successful campaign from their desktop. This paper presents the technologies, structure, and process flows used to bring this system together. Highlighted will be how the complexity of running a targeted campaign is hidden from the user through technologies, all while providing the benefits of a professionally managed campaign.

  12. The stratigraphic distribution of large marine vertebrates and shell beds in the Pliocene of Tuscany

    NASA Astrophysics Data System (ADS)

    Dominici, Stefano; Benvenuti, Marco; Danise, Silvia

    2015-04-01

    The record of 337 shark fossils, 142 cetaceans and 10 sea cows from the Pliocene of Tuscany, mostly from historical museum collections, is revised. The majority of these fossils are concentrated at a few geographic sites from separated hinterland basins, on the South-Western side of the Northern Apennines. To better understand the meaning of these concentrations, the sequence stratigraphic distribution of more recent findings of large marine vertebrates is reconstructed against a high-resolution framework based on sedimentary facies analysis. These remains are usually covered by, or included in mudstones deposited far from the coast (N=12), skeletons being usually articulated, slightly displaced, and often bioeroded. A minor part of better preserved articulated skeletons is associated with sandstones from deltaic paleonenvironments (N=2). Marine mammal and shark remains may be associated with laterally-continuous shell accumulations, a type of concentration occurring at maximum flooding surfaces, separating relatively coarse-grained facies from open marine mudstones. Shell beds were bulk-sampled at 66 locations from six basins, covering a wide range of sedimentary facies, and spanning a chronologic interval of about 2.5 million years. A dataset of 62,655 mollusc specimens belonging to 496 species formed the basis of a statistical study to reconstruct the structure of the benthic communities, and to estimate paleodepths from intertidal to upper bathyal settings. Mollusc associations closely mirror the distribution of sedimentary facies, allowing for a fine tuning of the sequence stratigraphic architecture. Merging paleogeographic, stratigraphic and paleoecologic data, we conclude that the more abundant and diverse accumulations of large vertebrates took place in settings under the influence of coastal upwelling. A modern analogue occurs today in the Ligurian Sea, on the Tuscan offshore, where abundant nutrients carried by deep-marine currents of Western origin

  13. Automated discovery of structural features of the optic nerve head on the basis of image and genetic data

    NASA Astrophysics Data System (ADS)

    Christopher, Mark; Tang, Li; Fingert, John H.; Scheetz, Todd E.; Abramoff, Michael D.

    2014-03-01

    Evaluation of optic nerve head (ONH) structure is a commonly used clinical technique for both diagnosis and monitoring of glaucoma. Glaucoma is associated with characteristic changes in the structure of the ONH. We present a method for computationally identifying ONH structural features using both imaging and genetic data from a large cohort of participants at risk for primary open angle glaucoma (POAG). Using 1054 participants from the Ocular Hypertension Treatment Study, ONH structure was measured by application of a stereo correspondence algorithm to stereo fundus images. In addition, the genotypes of several known POAG genetic risk factors were considered for each participant. ONH structural features were discovered using both a principal component analysis approach to identify the major modes of variance within structural measurements and a linear discriminant analysis approach to capture the relationship between genetic risk factors and ONH structure. The identified ONH structural features were evaluated based on the strength of their associations with genotype and development of POAG by the end of the OHTS study. ONH structural features with strong associations with genotype were identified for each of the genetic loci considered. Several identified ONH structural features were significantly associated (p < 0.05) with the development of POAG after Bonferroni correction. Further, incorporation of genetic risk status was found to substantially increase performance of early POAG prediction. These results suggest incorporating both imaging and genetic data into ONH structural modeling significantly improves the ability to explain POAG-related changes to ONH structure.

  14. Vombat: an open source proof-of-concept for the use of Digital outcrop models as reference frame for stratigraphic observations

    NASA Astrophysics Data System (ADS)

    Penasa, Luca; Franceschi, Marco; Preto, Nereo; Girardeau-Montaut, Daniel

    2015-04-01

    Three-dimensional Virtual Outcrop Models (VOMs), often produced using terrestrial laser scanning or photogrammetry, have become popular in the Geosciences. The main feature of a VOM is that it allows for a quantification of the 3D geometry and/or distribution of geologic features that range from rock properties to structural elements. This actually generated much of the interest in VOMs by the oil and gas industry. The potential importance of a VOM in stratigraphy, however, does not seems completely disclosed yet. Indeed outcrops are the primary sources of data for a number of stratigraphic studies (e.g. palaeontology, sedimentology, cyclostratigraphy, geochemistry...). All the observations are typically reported on stratigraphic logs which constitute an idealized representation of the stratigraphic series, drawn by the researcher on the basis of the features that has to be highlighted. The observations are localized by means of manual measurements and a certain amount of subjectivity in log drawing is involved. These facts can prevent the log from being properly pinned to the real outcrop. Moreover, the integration of stratigraphic logs made by different researchers studying the same outcrop may be difficult. The exposure conditions of outcrops can change through time, to the point that they can become unaccessible or even be destroyed. In such a case, linking the stratigraphic log to its physical counterpart becomes impossible. This can be particularly relevant when a classical outcrop or even a GSSP is considered. A VOM may prove useful to tackle these issues, by providing a more objective stratigraphic reference for measurements and by preserving an outcrop through time as a visual representation, thus permitting reference and accurate comparison between observations made through time. Finally, a VOM itself may contain relevant stratigraphic information (e.g. scalar fields associated with the point cloud as intensity, rgb data or hyperspectral information from

  15. Fossil preservation and the stratigraphic ranges of taxa

    NASA Technical Reports Server (NTRS)

    Foote, M.; Raup, D. M.

    1996-01-01

    The incompleteness of the fossil record hinders the inference of evolutionary rates and patterns. Here, we derive relationships among true taxonomic durations, preservation probability, and observed taxonomic ranges. We use these relationships to estimate original distributions of taxonomic durations, preservation probability, and completeness (proportion of taxa preserved), given only the observed ranges. No data on occurrences within the ranges of taxa are required. When preservation is random and the original distribution of durations is exponential, the inference of durations, preservability, and completeness is exact. However, reasonable approximations are possible given non-exponential duration distributions and temporal and taxonomic variation in preservability. Thus, the approaches we describe have great potential in studies of taphonomy, evolutionary rates and patterns, and genealogy. Analyses of Upper Cambrian-Lower Ordovician trilobite species, Paleozoic crinoid genera, Jurassic bivalve species, and Cenozoic mammal species yield the following results: (1) The preservation probability inferred from stratigraphic ranges alone agrees with that inferred from the analysis of stratigraphic gaps when data on the latter are available. (2) Whereas median durations based on simple tabulations of observed ranges are biased by stratigraphic resolution, our estimates of median duration, extinction rate, and completeness are not biased.(3) The shorter geologic ranges of mammalian species relative to those of bivalves cannot be attributed to a difference in preservation potential. However, we cannot rule out the contribution of taxonomic practice to this difference. (4) In the groups studied, completeness (proportion of species [trilobites, bivalves, mammals] or genera [crinoids] preserved) ranges from 60% to 90%. The higher estimates of completeness at smaller geographic scales support previous suggestions that the incompleteness of the fossil record reflects loss of

  16. Sedimentary fill and stratigraphic traps of Porcupine basin, offshore Ireland

    SciTech Connect

    Macurda, D.B. Jr.

    1986-05-01

    The Porcupine basin, off the southwest coast of Ireland, is a triangular north-south re-entrant into the present-day continental shelf. This aulacogen was formed in the Jurassic during the opening of the North Atlantic. A seismic stratigraphic investigation of the southern part of the basin has shown the complex evolution of the sedimentary fill from shallow to deep water facies, resulting in several stratigraphic traps. The central axis of the basin is dominated by a volcanic ridge. Part of the early sedimentary fill was intermittently covered by volcanic flows. The final stage of thin initial siliciclastic infill was the development of an extensive alluvial fan or fan-delta complex along the eastern basin margin. Aerially extensive carbonate sedimentation occurred during the Cretaceous, including a north-south reef tract more than 20 km wide in the eastern part of the basin. Increased subsidence resulted in the deposition of deep water siliciclastics in the Tertiary. The most prominent of these is a series of lower Tertiary submarine fans that were sourced from the western, northern, and eastern margins of the aulacogen. The early portions of the fans correlate well basin-wide; their later history is much more complex, with younger lobes up to 25 km wide developing south of their precursors. Subsequent onlap fill deposits provide an excellent seal. Sedimentation in the late Tertiary has included both high-energy and low-energy deep water deposits. The complex fill of the aulacogen has set up several stratigraphic plays, including carbonate reefs, alluvial fans of fan deltas, and submarine fans. Seismic amplitude anomalies in the latter suggest the heat flow has been sufficient to generate hydrocarbons to fill some of the traps.

  17. Fossil preservation and the stratigraphic ranges of taxa.

    PubMed

    Foote, M; Raup, D M

    1996-01-01

    The incompleteness of the fossil record hinders the inference of evolutionary rates and patterns. Here, we derive relationships among true taxonomic durations, preservation probability, and observed taxonomic ranges. We use these relationships to estimate original distributions of taxonomic durations, preservation probability, and completeness (proportion of taxa preserved), given only the observed ranges. No data on occurrences within the ranges of taxa are required. When preservation is random and the original distribution of durations is exponential, the inference of durations, preservability, and completeness is exact. However, reasonable approximations are possible given non-exponential duration distributions and temporal and taxonomic variation in preservability. Thus, the approaches we describe have great potential in studies of taphonomy, evolutionary rates and patterns, and genealogy. Analyses of Upper Cambrian-Lower Ordovician trilobite species, Paleozoic crinoid genera, Jurassic bivalve species, and Cenozoic mammal species yield the following results: (1) The preservation probability inferred from stratigraphic ranges alone agrees with that inferred from the analysis of stratigraphic gaps when data on the latter are available. (2) Whereas median durations based on simple tabulations of observed ranges are biased by stratigraphic resolution, our estimates of median duration, extinction rate, and completeness are not biased.(3) The shorter geologic ranges of mammalian species relative to those of bivalves cannot be attributed to a difference in preservation potential. However, we cannot rule out the contribution of taxonomic practice to this difference. (4) In the groups studied, completeness (proportion of species [trilobites, bivalves, mammals] or genera [crinoids] preserved) ranges from 60% to 90%. The higher estimates of completeness at smaller geographic scales support previous suggestions that the incompleteness of the fossil record reflects loss of

  18. The effect of stratigraphic uncertainty on repository performance

    SciTech Connect

    Wilson, M.L.; Robey, T.H.

    1994-08-01

    One source of uncertainty in calculating radionuclide releases from a potential radioactive-waste at Yucca Mountain, Nevada, is uncertainty in the unsaturated-zone stratigraphy. Uncertainty stratigraphy results from sparse drillhole data; possible variations in stratigraphy are modeled using the geostatistical method of indicator simulation. One-dimensional stratigraphic columns are generated and used for calculations of groundwater flow and radionuclide transport. There are indications of a dependence of release on hydrogeologic-unit thicknesses, but the resulting variation in release is smaller than variations produced by other sources of uncertainty.

  19. Evidence for Cambrian deformation in the Ellsworth-Whitmore Mountains terrane, Antarctica: Stratigraphic and tectonic implications

    NASA Astrophysics Data System (ADS)

    Duebendorfer, Ernest M.; Rees, Margaret N.

    1998-01-01

    The Ellsworth-Whitmore Mountains terrane is a large geologically and geophysically defined crustal block that lies between the Transantarctic Mountains and West Antarctica. The Cambrian position of the terrane is controversial, with many workers placing it between East Antarctica and southern Africa and distant from Cambrian orogenic belts. We present structural and stratigraphic evidence for Cambrian deformation in the Heritage Range, Ellsworth Mountains. From our revised stratigraphy and structural history of the Heritage Range, we propose that the Ellsworth-Whitmore Mountains block was located within the belt of Pan-African deformation, within the Late Cambrian continental arc, and was part of a collage of allochthonous terranes that included the Queen Maud terrane and probably the Bowers terrane of Antarctica. These terranes were situated outboard of Coats Land in the Cambrian and were subsequently translated and accreted to East Antarctica, probably during early Paleozoic time.

  20. Identification of new leishmanicidal peptide lead structures by automated real-time monitoring of changes in intracellular ATP.

    PubMed Central

    Luque-Ortega, J Román; Saugar, José M; Chiva, Cristina; Andreu, David; Rivas, Luis

    2003-01-01

    Leishmanicidal drugs interacting stoichiometrically with parasite plasma membrane lipids, thus promoting permeability, have raised significant expectations for Leishmania chemotherapy due to their nil or very low induction of resistance. Inherent in this process is a decrease in intracellular ATP, either wasted by ionic pumps to restore membrane potential or directly leaked through larger membrane lesions caused by the drug. We have adapted a luminescence method for fast automated real-time monitoring of this process, using Leishmania donovani promastigotes transfected with a cytoplasmic luciferase form, previously tested for anti-mitochondrial drugs. The system was first assayed against a set of well-known membrane-active drugs [amphotericin B, nystatin, cecropin A-melittin peptide CA(1-8)M(1-18)], plus two ionophoric polyethers (narasin and salinomycin) not previously tested on Leishmania, then used to screen seven new cecropin A-melittin hybrid peptides. All membrane-active compounds showed a good correlation between inhibition of luminescence and leishmanicidal activity. Induction of membrane permeability was demonstrated by dissipation of membrane potential, SYTOX trade mark Green influx and membrane damage assessed by electron microscopy, except for the polyethers, where ATP decrease was due to inhibition of its mitochondrial synthesis. Five of the test peptides showed an ED50 around 1 microM on promastigotes. These peptides, with equal or better activity than 26-residue-long CA(1-8)M(1-18), are the shortest leishmanicidal peptides described so far, and validate our luminescence assay as a fast and cheap screening tool for membrane-active compounds. PMID:12864731

  1. Solution synthesis of a new thermoelectric Zn(1+x)Sb nanophase and its structure determination using automated electron diffraction tomography.

    PubMed

    Birkel, Christina S; Mugnaioli, Enrico; Gorelik, Tatiana; Kolb, Ute; Panthöfer, Martin; Tremel, Wolfgang

    2010-07-21

    Engineering materials with specific physical properties have recently focused on the effect of nanoscopic inhomogeneities at the 10 nm scale. Such features are expected to scatter medium- and long-wavelength phonons thereby lowering the thermal conductivity of the system. Low thermal conductivity is a prerequisite for effective thermoelectric materials, and the challenge is to limit the transport of heat by phonons, without simultaneously decreasing charge transport. A solution-phase technique was devised for synthesis of thermoelectric "Zn(4)Sb(3)" nanocrystals as a precursor for phase segregation into ZnSb and a new Zn-Sb intermetallic phase, Zn(1+delta)Sb, in a peritectoid reaction. Our approach uses activated metal nanoparticles as precursors for the synthesis of this intermetallic compound. The small particle size of the reactants ensures minimum diffusion paths, low activation barriers, and low reaction temperatures, thereby eliminating solid-solid diffusion as the rate-limiting step in conventional bulk-scale solid-state synthesis. Both phases were identified and structurally characterized by automated electron diffraction tomography combined with precession electron diffraction. An ab initio structure solution based on electron diffraction data revealed two different phases. The new pseudo-hexagonal phase, Zn(1+delta)Sb, was identified and classified within the structural diversity of the Zn-Sb phase diagram.

  2. High resolution sequence stratigraphic concepts applied to geostatistical modeling

    SciTech Connect

    Desaubliaux, G.; De Lestang, A.P.; Eschard, R.

    1995-08-01

    Lithofacies simulations using a high resolution 3D grid allow to enhance the geometries of internal heterogeneities of reservoirs. In this study the series simulated were the Ness formation, part of the Brent reservoir in the Dunbar field located in the Viking graben of the North Sea. Simulations results have been used to build the reservoir layering supporting the 3D grid used for reservoir engineering, and also used as a frame to study the effects of secondary diagenetic processes on petrophysical properties. The method used is based on a geostatistical study and integrates the following data: a geological model using sequence stratigraphic concepts to define lithofacies sequences and associated bounding surfaces, well data (cores and logs) used as database for geostatistical analysis and simulations, seismic data: a 3D seismic survey has been used to define the internal surfaces bounding the units, outcrop data: The Mesa Verde formation (Colorado, USA) has been used as an outcrop analog to calibrate geostatistical parameters for the simulations (horizontal range of the variograms). This study illustrates the capacity to use high resolution sequence stratigraphic concepts to improve the simulations of reservoirs when the lack of subsurface information reduce the accuracy of geostatistical analysis.

  3. Digital tabulation of stratigraphic data from oil and gas wells in the Santa Maria Basin and surrounding areas, central California coast

    USGS Publications Warehouse

    Sweetkind, Donald S.; Tennyson, Marilyn E.; Langenheim, V.E.; Shumaker, Lauren E.

    2010-01-01

    Stratigraphic information from 694 oil and gas exploration wells from the onshore Santa Maria basin and surrounding areas are herein compiled in digital form from reports that were released originally in paper form. The Santa Maria basin is located within the southwesternmost part of the Coast Ranges and north of the western Transverse Ranges on the central California coast. Knowledge of the location and elevation of stratigraphic tops of formations throughout the basin is a first step toward understanding depositional trends and the structural evolution of the basin through time.

  4. Automated 3D architecture reconstruction from photogrammetric structure-and-motion: A case study of the One Pilla pagoda, Hanoi, Vienam

    NASA Astrophysics Data System (ADS)

    To, T.; Nguyen, D.; Tran, G.

    2015-04-01

    Heritage system of Vietnam has decline because of poor-conventional condition. For sustainable development, it is required a firmly control, space planning organization, and reasonable investment. Moreover, in the field of Cultural Heritage, the use of automated photogrammetric systems, based on Structure from Motion techniques (SfM), is widely used. With the potential of high-resolution, low-cost, large field of view, easiness, rapidity and completeness, the derivation of 3D metric information from Structure-and- Motion images is receiving great attention. In addition, heritage objects in form of 3D physical models are recorded not only for documentation issues, but also for historical interpretation, restoration, cultural and educational purposes. The study suggests the archaeological documentation of the "One Pilla" pagoda placed in Hanoi capital, Vietnam. The data acquired through digital camera Cannon EOS 550D, CMOS APS-C sensor 22.3 x 14.9 mm. Camera calibration and orientation were carried out by VisualSFM, CMPMVS (Multi-View Reconstruction) and SURE (Photogrammetric Surface Reconstruction from Imagery) software. The final result represents a scaled 3D model of the One Pilla Pagoda and displayed different views in MeshLab software.

  5. Mechanical Alteration And Contamination Issues In Automated Subsurface Sample Acquisition And Handling

    NASA Astrophysics Data System (ADS)

    Glass, B. J.; Cannon, H.; Bonaccorsi, R.; Zacny, K.

    2006-12-01

    order to obtain cores and ice profiles at the drilling site. In the course of DAME drilling automation testing, the drilling-induced temperature gradients and their effects on encountered subsurface permafrost and ice layers were observed while drilling in frozen impact breccia at Haughton Crater. In repeated tests of robotic core removal processing and handling in the MARTE project, including field tests, cross-contamination issues arose between successive cores and samples, and procedures and metrics were developed for minimizing the cross-contamination. The MARTE core processing cross-contamination aspects were tested by analyzing a set of pristine samples (those stratigraphically known) vs. cuttings (loose clays) or artifacts from the robotic drilling (indurated clay layers). MARTE ground truth drilling, in parallel with the automated tests, provided control information on the discontinuity/continuity of the stratigraphic record (i.e., texture, color and structure of loose and consolidated materials).

  6. OWL representation of the geologic timescale implementing stratigraphic best practice

    NASA Astrophysics Data System (ADS)

    Cox, S. J.

    2011-12-01

    The geologic timescale is a cornerstone of the earth sciences. Versions are available from many sources, with the following being of particular interest: (i) The official International Stratigraphic Chart (ISC) is maintained by the International Commission for Stratigraphy (ICS), following principles developed over the last 40 years. ICS provides the data underlying the chart as part of a specialized software package, and the chart itself as a PDF using the standard colours; (ii) ITC Enschede has developed a representation of the timescale as a thesaurus in SKOS, used in a Web Map Service delivery system; (iii) JPL's SWEET ontology includes a geologic timescale. This takes full advantage of the capabilities of OWL. However, each of these has limitations - The ISC falls down because of incompatibility with web technologies; - While SKOS supports multilingual labelling, SKOS does not adequately support timescale semantics, in particular since it does not include ordering relationships; - The SWEET version (as of version 2) is not fully aligned to the model used by ICS, in particular not recognizing the role of the Global Boundary Stratotype Sections and Point (GSSP). Furthermore, it is distributed as static documents, rather than through a dynamic API using SPARQL. The representation presented in this paper overcomes all of these limitations as follows: - the timescale model is formulated as an OWL ontology - the ontology is directly derived from the UML representation of the ICS best practice proposed by Cox & Richard [2005], and subsequently included as the Geologic Timescale package in GeoSciML (http://www.geosciml.org); this includes links to GSSPs as per the ICS process - key properties in the ontology are also asserted to be subProperties of SKOS properties (topConcept and broader/narrower relations) in order to support SKOS-based queries; SKOS labelling is used to support multi-lingual naming and synonyms - the International Stratigraphic Chart is implemented

  7. Venusian extended ejecta deposits as time-stratigraphic markers

    NASA Technical Reports Server (NTRS)

    Izenberg, Noam R.

    1992-01-01

    Use of impact crater ejects at time-stratigraphic markers was established during lunar geologic mapping efforts. The basic premise is that the deposition of impact ejecta, either by itself or mixed with impact-excavated material, is superimposed on a surface. The deposit becomes an observable, mappable unit produced in a single instant in geologic time. Up to two-thirds of Venus craters exhibit extended ejecta deposits. A reconnaissance survey of 336 craters (about 40 percent of the total population) was conducted. About half the craters examined were located in and around the Beta-Atla-Themis region, and half were spread over the western hemisphere of the planet. The survey was conducted using primarily C1-MIDR images. The preliminary survey shows: (1) of the 336 craters, 223 were found to have extended ejecta deposits. This proportion is higher than that found in other Venus crater databases by up to a factor of 2. (2) 53 percent of all extended ejecta craters were unambiguously superimposed on all volcanic and tectonic units. Crater Annia Faustina's associated parabolic ejecta deposit is clearly superimposed on volcanic flows coming from Gula Mons to the west. Parabola material from Faustina has covered the lava flows, smoothing the surface and reducing its specific backscatter cross section. The stratigraphy implies that the parabola material is the youngest observable unit in the region. (3) 12 percent of extended ejecta deposits are superimposed by volcanic materials. Crater Hwangcini has extended ejecta that has been covered by volcanic flows from a dome field to the northwest, implying that the volcanic units were emplaced subsequent to the ejecta deposit and are the youngest units in the locality. (4) It is difficult to determine the stratigraphic relationships of the remaining extended ejecta deposits in SAR at C1-MIDR resolution. Examination of higher resolution images and application of the other Magellan datasets in systematic manner should resolve

  8. Triassic-Jurassic sediments and multiple volcanic events in North Victoria Land, Antarctica: A revised stratigraphic model

    USGS Publications Warehouse

    Schöner, R.; Viereck-Goette, L.; Schneider, J.; Bomfleur, B.

    2007-01-01

    Field investigations in North Victoria Land, Antarctica during GANOVEX IX (2005/2006) allow the revision of the Triassic-Jurassic stratigraphy of ~300 m thick continental deposits in between the crystalline basement and the Kirkpatrick lava flows of the Ferrar Group. The lower stratigraphic unit (Section Peak Formation) is characterised by braided river-type quartzose sandstone deposits with intercalations of shale and coal occurring at the top. It is overlain by a homogeneous unit of reworked tuffs composed of fine-grained silicic shards, quartz and feldspar (new name: "Shafer Peak Formation"). These deposits can be correlated with parts of the Hanson Formation in the Central Transantarctic Mountains and require a distal yet unknown source of massive silicic volcanism. Clastic products of mafic volcanic eruptions, formerly described as a separate stratigraphic formation (Exposure Hill Formation), occur within local diatreme structures as well as intercalated at various stratigraphic levels within the sedimentary succession. These dominantly hydroclastic eruptions are the first subaerial expression of Ferrar magmatism. The initial Kirkpatrick lavas/pillow lavas were generated from local eruptive centres and again may be overlain by thin sediments, which are covered by the thick plateau lava succession known throughout the Transantarctic Mountain Range.

  9. Stratigraphic variations in the Carboniferous section across the Arkansas-Oklahoma State Line Arch

    NASA Astrophysics Data System (ADS)

    Engelhardt, Tyler D.

    The State Line Arch is represented by a structural high that trends through the study area in a loose alignment with the Arkansas-Oklahoma state line. Evidence of the arch extending further to the north includes a structural high and stratigraphic variation at an outcrop on Highway 59 near Evansville Mountain in Crawford County, Arkansas. The exact timing of the formation of the arch remains undetermined, but upper Devonian thinning at the top of the arch indicates the structure is pre-Mississippian. The reason for the development of the arch is poorly understood, but evidence linking Mississippian-aged Waulsortian mounds to Precambrian Spavinaw granite structures of northeastern Oklahoma and southwestern Missouri suggests Precambrian basement structures may extend into the study area. The structural nature of the arch provided an environment favorable to carbonate build-up during deposition of the Mississippian interval. A previously unidentified limestone unit measuring 175 feet thick likely represents the transgressive phase of a transgressive-regressive sequence responsible for the deposition of the Mayes Group of northeastern Oklahoma. Growth on the downthrown side of the Muldrow-Mulberry Fault system may indicate earlier movement than previous studies have suggested on the east-west trending normal faults of the Arkoma Basin. A possible roll-over anticline structure may exist to the south of the Muldrow-Mulberry fault system.

  10. Analysis of stratigraphic barriers (caprock) between sands in the cretaceous Mesa Verde formation, US DOE Multiwell Experiment, Garfield County, Colorado

    SciTech Connect

    Soeder, D.J.

    1984-03-01

    Pressure differences between the caprock tests performed and the in-situ reservoir pressures at the Multiwell site preclude any conclusions as to whether drawdown of one sandstone could result in production from an adjacent sand by gas breaching the stratigraphic barriers. On the other hand, the caprock tests performed at IGT do provide the following useful conclusions: (1) In-situ water permeability of the stratigraphic barrier material is extremely low. (2) There is a fairly good inverse correlation between permeability to water and threshold pressure. (3) All of the permeability and threshold pressure data was taken on these samples in a vertical direction. Because of the layered and laminated structure of these rocks, one would expect to find far different numbers in a horizontal direction. This has implications with regard to horizontal flow between adjacent sand lenses at the same depth, as opposed to vertical flow between underlying and overlying sand bodies. (4) Although a few of the barrier cores appeared marginally adequate to transmit gas between sand units based on the CTA data, whether they will do so in the ground is doubtful. (5) The material most likely to allow gas migration between sand lenses was that in the Coastal Zone. (6) It is far more likely that if gas migration occurs between sand lenses in the Multiwell, gas will move through the barrier material by way of natural or man-made fractures. Fracture permeability is probably many orders of magnitude higher than the ultra-tight shale and siltstone matrix, and threshold pressure in a fracture is quite low. The tests performed by IGT, however, were done on carefully chosen, unfractured core, and we have no information on the dynamics of gas movement through fractured stratigraphic barriers. The stratigraphic barrier material between sand lenses in the Mesa Verde at the Multiwell site would make an excellent caprock for an underground gas storage field. 11 figures, 2 tables.

  11. Ground-penetrating radar (GPR) for imaging stratigraphic features and groundwater in sand dunes

    NASA Astrophysics Data System (ADS)

    Harari, Zaki

    1996-11-01

    In this work, the internal structures of some sand dunes from the Eastern Province of Saudi Arabia, and Moreton Island in Australia have been visualized using the GPR technique. The depth of penetration that was achieved is limited (less than 35 m using a 100-MHz antenna, and approximately 9 m using a 500-MHz antenna), but the excellent spatial resolution has made it possible to clearly identify internal dune bedding features such as cross-laminations. It is shown that a radargram of a sand dune can be interpreted to provide clues about the evolutional history of the dune. The groundwater table inside a dune, when present, is shown to be detectable using GPR provided the appropriate antenna frequency is used. Also, discrete wetting fronts and preferential flow paths have been visualized in dunes that have become saturated after episodes of rain, indicating that internal groundwater movement in dunes appears to be controlled by stratigraphic features.

  12. Stratigraphic sections of the Phosphoria formation 1953 and 1954

    USGS Publications Warehouse

    Swanson, R.W.; Carswell, L.D.; Sheldon, R.P.; Cheney, T.M.

    1955-01-01

    Since 1947, the U.S. Geological Survey has measured and sampled phosphatic parts of the Permian Phosphoria formation and its partial stratigraphic correlatives at many localities in Montana, Idaho, Wyoming, and Utah.  Preliminary data on the thickness of the beds and their composition at localities sampled prior to 1952 have been issued already in TEI-183, 184, 185, 186, 187, 188, 360, 361, 362, 363, 364, 365, 375, 376, 377, and 378. This report presents similar data on the localitites sampled in 1953 and 1954 (figs. 1, 2, and 3).  The field and laboratory procedures adopted in these investigations are described in a previous report (McKelvey and others 1953a).

  13. Geographic and stratigraphic distribution of Miocene palynomorphs in north Idaho

    NASA Astrophysics Data System (ADS)

    Jorstad, R. B.

    1983-02-01

    Acetolysis of Early and Middle Miocene sediments from the Clarkia, Idaho, area yielded 3,477 palynomorphs representing 37 taxa from eighteen samples for assemblage analysis. Relative pollen frequency data from various study sites suggest an older Coniferae-Mixed Dicotyledoneae-Pteridophyte Palynomorph Assemblage Zone, and a younger Fagaceae-TCT-Platanus Pollen Assemblage Zone. Two pollen based chronostratigraphic stages are proposed for at least part of the Miocene epoch: an older Clarkian Stage, and a younger Oviattian Stage. Palynomorph stratigraphic range charts document the youngest regional occurrence of Lygodium. Two palynomorph taxa are possible index fossils in the Pacific Northwest: (1) Sigmopollis (Incertae Sedis) for the Oligocene, and (2) Elaeagnus (Elaeagnaceae) for the Late Oligocene-Early Miocene. Palynostratigraphic and assemblage analyses of the fossil bearing sediments confirms prior models for the infilling of Miocene Clarkia Lake, and a regional change from a warm temperature to temperate climate.

  14. Drilling rate for the Cerro Prieto stratigraphic sequence

    SciTech Connect

    Prian C, R.

    1981-01-01

    Drilling practice at the field has been modified in several ways as better information is being obtained. The stratigraphic sequence of the area is made up of three sedimentary rock units of deltaic origin having different densities. These units have been named non-consolidated, semi-consolidated, and consolidated rocks; the thermal reservoirs are located in the latter. To investigate how the drilling rates are affected by the three rock units, plots of drilling advance versus time were made for a large number of wells. A typical plot is shown and drilling rates are practically constant in three different zones; that is, the drilling rate has only two breaks or changes in slope.

  15. The genus Pseudotorellia Florin (Ginkgoales): Taxonomic and stratigraphic aspects

    NASA Astrophysics Data System (ADS)

    Kiritchkova, A. I.; Nosova, N. V.

    2009-12-01

    The history of investigation of the common Jurassic and Cretaceous genus Pseudotorellia Florin (Ginkgoales) represented by needle-shaped, narrow linear or lanceolate leaves bearing several veins and characterized by a single type of epidermis, is considered. An extended diagnosis of the genus and its taxonomic composition with regard to the epidermal characters are reported; the stratigraphic and geographical range of its species and the genus evolution are refined. Three new species Pseudotorellia asiatica N. Nosova et Kiritchkova, sp. nov., P. ketoviana N. Nosova et Kiritchkova, sp. nov., and P. samylinae N. Nosova et Kiritchkova, sp. nov. described from the Lower Jurassic (Toarcian) sediments, are proposed as the correlative taxa within the Caspian oil and gas province. The stratotype and reference sections of the Lower Jurassic sediments in the Mangyshlak Mountains are reported for the first time.

  16. Forward stratigraphic modeling of the Permian of the Delaware Basin

    SciTech Connect

    Qiucheng, Ye; Kerans, C.; Bowman, S.

    1996-12-31

    Permian platform-to-basin strata of the Delaware Basin In west Texas and New Mexico represent one of the world`s most complete, best studied, and most hydrocarbon productive records of this geologic period in the world. This superb marriage of a refined stratigraphic framework and active exploration provided impetus to develop a forward stratigraphic model of this section to better predict the distribution of reservoir and seal relationships. The approximately 30 m.y. interval modeled is composed of 2 km of platform strata and 3 km of basinal strata divided into 8 composite sequences (average 3 m.y. duration) and 45 high-frequency sequences (400 ky m.y. duration). A 130 km dip section through the basin margin Guadalupe/Deleware Mountain outcrop is inversely modeled to derive local tectonic subsidence and a sea level curve for the Permian. In this process, the highest and lowest shoreline positions of each sequence are interpreted based on facies description which are assumed to approximate the highest and lowest relative sea level. A eustatic sea level curve is calculated by restoring these shoreline positions and removing local tectonic subsidence using a polynomial fit to the derived relative sea level curve. The quantitatively constrained curve for the Permian contains 2nd, 3rd, and 4th order 180m. This quantitatively constrained accommodation history (calculated eustatic curve and subsidence history) are input into the PHIL forward modeling program. Model variables of sediment supply are depositional system are adjusted to match known outcrop relations. The resulting model is potentially capable of predicting stratigraphy elsewhere in the basin using only subsidence history data from the inverse model.

  17. Forward stratigraphic modeling of the Permian of the Delaware Basin

    SciTech Connect

    Qiucheng, Ye; Kerans, C.; Bowman, S. )

    1996-01-01

    Permian platform-to-basin strata of the Delaware Basin In west Texas and New Mexico represent one of the world's most complete, best studied, and most hydrocarbon productive records of this geologic period in the world. This superb marriage of a refined stratigraphic framework and active exploration provided impetus to develop a forward stratigraphic model of this section to better predict the distribution of reservoir and seal relationships. The approximately 30 m.y. interval modeled is composed of 2 km of platform strata and 3 km of basinal strata divided into 8 composite sequences (average 3 m.y. duration) and 45 high-frequency sequences (400 ky m.y. duration). A 130 km dip section through the basin margin Guadalupe/Deleware Mountain outcrop is inversely modeled to derive local tectonic subsidence and a sea level curve for the Permian. In this process, the highest and lowest shoreline positions of each sequence are interpreted based on facies description which are assumed to approximate the highest and lowest relative sea level. A eustatic sea level curve is calculated by restoring these shoreline positions and removing local tectonic subsidence using a polynomial fit to the derived relative sea level curve. The quantitatively constrained curve for the Permian contains 2nd, 3rd, and 4th order 180m. This quantitatively constrained accommodation history (calculated eustatic curve and subsidence history) are input into the PHIL forward modeling program. Model variables of sediment supply are depositional system are adjusted to match known outcrop relations. The resulting model is potentially capable of predicting stratigraphy elsewhere in the basin using only subsidence history data from the inverse model.

  18. Cenozoic stratigraphic evolution, North Sea and Labrador Sea

    SciTech Connect

    Gradstein, F.M.; Grant, A.C.; Mudford, B.S. ); Berggren, W.A. ); Kaminski, M.A. ); D'Lorio, M.A. ); Cloetingh, S. ); Griffiths, C.M. )

    1990-05-01

    The authors are studying Cenozoic correlation patterns, burial trends, and subsidence history of the Central North Sea, Labrador, and Orphan basins. The authors objectives are (1) to detail intraregional mid-high latitude biozonations using noise filtering and probabilistic zonation techniques; (2) to detail paleobathymetric trends from basin margins to centers; (3) to apply this knowledge to model basin evolution, in the perspective of the evolving North Atlantic Ocean; (4) to evaluate causes for the occurrence of major hiatuses and rapid changes of subsidence; and (5) to relate rapid changes in sedimentation in the last few millions of years to model observed undercompaction trends. Cenozoic microfossil assemblages in these basins are similar, related to similarities in sedimentary and paleoeceanographic conditions. In more basinal wells, flysch-type agglutinated foraminiferal assemblages occur, also known from Carpathians, Trinidad, and Moroccan foredeeps. Over 90% of agglutinated taxa are common between these basins, although local stratigraphic ranges vary sufficiently to rely on the concept of average ranges, rather than total ones for correlations. Cenozoic stratigraphic resolution in the North Sea and Labrador basins generally is in 3-5-Ma units. and paleobathymetric zonations define a minimum of five niches, from inner shelf to middle slope regimes. Significant hiatuses occurred in the late Eocene through the Miocene, particularly in northern Labrador and northern North Sea. Subsidence in the Labrador/Grand Banks passive margin half grabens was strongly influenced by Labrador Sea opening between anomalies 34 (Campanian) and 13 (early Oligocene), when subsidence exceeded sedimentation and bathyal conditions prevailed along the margin. Thermally induced subsidence in the central North Sea grabens was considerable in the late Paleocene, when the Norwegian Sea started to open.

  19. The Stratigraphic Expression of Formative Processes in Channels

    NASA Astrophysics Data System (ADS)

    Hubbard, S. M.; Covault, J. A.; Fildani, A.; Romans, B.

    2014-12-01

    The stratigraphic record of sinuous fluvial and deep sea channel deposits contains a wealth of information about formative sedimentary processes. For fluvial systems, deposits are considered in the context of processes observed in rivers, with the point bar facies model, as an example, representing a well-established linkage between process and product. A direct link has not been achieved in the deep sea as direct monitoring of coarse-grained sediment transport is challenging, exacerbated by the sporadic and infrequent nature of flows. Until a method for direct observation is developed and widely applied, the stratigraphic record of sediment transfer in the deep sea provides a critical perspective and unique insight into processes that shape not only ancient basin margin slopes, but also the present day seascape. Despite the obvious similarity in sinuous planforms of open, single thread fluvial and deep sea channels, outcrop characteristics, validated in many instances by experimental and theoretical work, indicate different processes. Meandering fluvial systems are most commonly represented by deposits that reflect point bar migration, a process whereby bank erosion and bar growth are genetically linked. At the bed scale, cross-stratification reflects bedload sediment transport and deposition by traction sedimentation. Single thread deep sea channel-fill strata are commonly characterized by sandstone-filled channelform bodies, which reflect both traction and suspension sedimentation. Heterolithic thin beds and cross-stratification can be locally preserved above channel bases and against channel margins, but the majority of depositional thickness comprises tabular sandstone turbidites that bi-directionally lap onto channel edges. The stratal record indicates a distinction between phases of channel maintenance (e.g., erosion, sediment bypass) and phases of substantial infilling with coarse-grained sediment - they are not contemporaneous. This is a key departure from

  20. Chemical Contaminants as Stratigraphic Markers for the Anthropocene

    NASA Astrophysics Data System (ADS)

    Kruge, M. A.

    2012-12-01

    Thousands and even millions of years from now, widespread anthropogenic contaminants in sediments would likely persist, incorporated into the geological record. They would inadvertently preserve evidence of our present era (informally designated as the Anthropocene Epoch) characterized by large human populations engaged in intensive industrial and agricultural activities. Hypothetical geologists in the distant future would likely find unusually high concentrations of a wide variety of contaminants at stratigraphic levels corresponding to our present time, analogous to the iridium anomaly marking the bolide impact event at the close of the Cretaceous Period. These would include both organic and inorganic substances, such as industrially-derived heavy metals (e.g., Hg, Pb, Cr, Zn) and hydrocarbons, both petrogenic (derived directly from petroleum) and pyrogenic (combustion products). While there are natural sources for these materials, such as volcanic eruptions, wildfires, and oil seeps, their co-occurrence would provide a signature characteristic of human activity. Diagnostic assemblages of organic compounds would carry an anthropogenic imprint. The distribution of polycyclic aromatic hydrocarbons (PAHs) in a sediment sample could distinguish between natural and human sources. Stable isotopic signatures would provide additional evidence. Concentrations of contaminants in the sedimentary record would increase exponentially with increasing proximity to urban source areas, where at present billions of people are collectively consuming vast quantities of fossil fuels and generating large amounts of waste. Aolian and marine transport prior to deposition has been seen at present to globally redistribute detectable amounts of contaminants including Hg and PAHs, even at great distances from principal source areas. For organic contaminants, deposition in an anoxic sedimentary environment could insure their preservation, increasing the likelihood of their inclusion in the

  1. Stratigraphic architecture of the Cryogenian successions of South China

    NASA Astrophysics Data System (ADS)

    Zhu, M.; Yin, Z.; Zhang, J.; Condon, D. J.; Macdonald, F. A.; Liu, P.

    2014-12-01

    Stratigraphy and sedimentology of the Cryogenian glacial successions provide primary data for elucidating climatic change of this critical interval. The Cryogenian strata of South China were deposited in a rift basin, and exhibit dramatic facies change from the basin center to margin, which complicates stratigtraphic correlations. Here we present new sedimentological, geochemical and stratigraphic data based on the detailed analyses of more than ten well exposed sections along a basinward transect from north-south. In the basin center, Cryogenian strata are about 4000 m thick and characterized by two glaciogenic diamictite units separated by a diamictite-free siliciclastic interval. Initiation of the Chang'an glaciation (Sturtian equivalent) is conformable and gradational with dropstones appearing in siltstone at the basal part of the Chang'an Formation followed by a shoaling-up sequence that is interpreted to represent a glacio-eustatic sea-level fall. In the basin center, >600 m of graded beds of siliciclastic rocks and debrites of the Fulu Formation overlie the Chang'an Formation. The Fulu Formation is succeeded by a thin (<10 m) fine-grained siliciclasitic unit with black shale and manganese carbonate at the base, which is assigned to the Datangpo Formation, and massive glacigenic diamitictite of the Marinoan-age Nantuo Formation. On the basin margin, the Datangpo Formation is up to 300 m thick and is underlain by a glaciogentic diamictite (Tiesi'ao/Dongshanfeng/Gucheng Formations). Taking factors of glacial dynamics and active tectonism into account, we develop a facies model to interpret the sedimentology and stratigraphic architecture of these successions. Combined with new geochronological data, our data will provide tests for Cryogenian climatic models.

  2. Intensity targeted radial structure tensor analysis and its application for automated mediastinal lymph node detection from CT volumes

    NASA Astrophysics Data System (ADS)

    Oda, Hirohisa; Nimura, Yukitaka; Oda, Masahiro; Kitasaka, Takayuki; Iwano, Shingo; Honma, Hirotoshi; Takabatake, Hirotsugu; Mori, Masaki; Natori, Hiroshi; Mori, Kensaku

    2016-03-01

    This paper presents a new blob-like enhancement filter based on Intensity Targeted Radial Structure Tensor (ITRST) analysis to improve mediastinal lymph node detection from chest CT volumes. Blob-like structure enhancement filter based on Radial Structure Tensor (RST) analysis can be utilized for initial detection of lymph node candidate regions. However, some of lymph nodes cannot be detected because RST analysis is influenced by neighboring regions whose intensity is very high or low, such as contrast-enhanced blood vessels and air. To overcome the problem, we propose ITRST analysis that integrate the prior knowledge on detection target intensity into RST analysis. Our lymph node detection method consists of two steps. First, candidate regions are obtained by ITRST analysis. Second, false positives (FPs) are removed by the Support Vector Machine (SVM) classifier. We applied the proposed method to 47 cases. Among 19 lymph nodes whose short axis is no less than 10 mm, 100.0 % of them were detected with 247.7 FPs/case by ITRST analysis, while only 80.0 % were detected with 123.0 FPs/case by RST analysis. After the false positive (FP) reduction by SVM, ITRST analysis outperformed RST analysis in lymph node detection performance.

  3. Using a semi-automated filtering process to improve large footprint lidar sub-canopy elevation models and forest structure metrics

    NASA Astrophysics Data System (ADS)

    Fricker, G. A.; Saatchi, S.; Meyer, V.; Gillespie, T.; Sheng, Y.

    2011-12-01

    Quantification of sub-canopy topography and forest structure is important for developing a better understanding of how forest ecosystems function. This study focuses on a three-step method to adapt discrete return lidar (DRL) filtering techniques to Laser Vegetation Imaging Sensor (LVIS) large-footprint lidar (LFL) waveforms to improve the accuracy of both sub-canopy digital elevation models (DEMs), as well as forest structure measurements. The results of the experiment demonstrate that LFL ground surfaces can be effectively filtered using methods adapted from DRL point filtering methods, and the resulting data will produce more accurate digital elevation models, as well as improved estimates of forest structure. The first step quantifies the slope present at the center of each LFL pulse, and the average error expected at each particular degree of slope is modeled. Areas of high terrain slope show consistently more error in LFL ground detection, and empirical relationships between terrain angle and expected LVIS ground detection error are established. These relationships are then used to create an algorithm for LFL ground elevation correction. The second step uses an iterative, expanding window filter to identify outlier points which are not part of the ground surface, as well as manual editing to identify laser pulses which are not at ground level. The semi-automated methods improved the LVIS DEM accuracy significantly by identifying significant outliers in the LVIS point cloud. The final step develops an approach which utilizes both the filtered LFL DEMs, and the modeled error introduced by terrain slope to improve both sub-canopy elevation models, and above ground LFL waveform metrics. DRL and LVIS data from Barro Colorado Island, Panama, and La Selva, Costa Rica were used to develop and test the algorithm. Acknowledgements: Special thanks to Dr. Jim Dilling for providing the DRL lidar data for Barro Colorado Island.

  4. Semiautomated inspection versus fully automated inspection of lyophilized products.

    PubMed

    Seidenader, N W

    1994-01-01

    The development of fully automated inspection systems for parenteral products has created a situation of high expectations regarding productivity and quality improvements. However, not all products and production situations are suited for automation. A guideline for inspection and automation strategies will be discussed, structuring the field of lyophilized products according to the critical decision parameters.

  5. Automated method for determination of dissolved organic carbon-water distribution constants of structurally diverse pollutants using pre-equilibrium solid-phase microextraction.

    PubMed

    Ripszam, Matyas; Haglund, Peter

    2015-02-01

    Dissolved organic carbon (DOC) plays a key role in determining the environmental fate of semivolatile organic environmental contaminants. The goal of the present study was to develop a method using commercially available hardware to rapidly characterize the sorption properties of DOC in water samples. The resulting method uses negligible-depletion direct immersion solid-phase microextraction (SPME) and gas chromatography-mass spectrometry. Its performance was evaluated using Nordic reference fulvic acid and 40 priority environmental contaminants that cover a wide range of physicochemical properties. Two SPME fibers had to be used to cope with the span of properties, 1 coated with polydimethylsiloxane and 1 coated with polystyrene divinylbenzene polydimethylsiloxane, for nonpolar and semipolar contaminants, respectively. The measured DOC-water distribution constants showed reasonably good reproducibility (standard deviation ≤ 0.32) and good correlation (R(2)  = 0.80) with log octanol-water partition coefficients for nonpolar persistent organic pollutants. The sample pretreatment is limited to filtration, and the method is easy to adjust to different DOC concentrations. These experiments also utilized the latest SPME automation that largely decreases total cycle time (to 20 min or shorter) and increases sample throughput, which is advantageous in cases when many samples of DOC must be characterized or when the determinations must be performed quickly, for example, to avoid precipitation, aggregation, and other changes of DOC structure and properties. The data generated by this method are valuable as a basis for transport and fate modeling studies.

  6. Computer-assisted structure identification (CASI)--an automated platform for high-throughput identification of small molecules by two-dimensional gas chromatography coupled to mass spectrometry.

    PubMed

    Knorr, Arno; Monge, Aurelien; Stueber, Markus; Stratmann, André; Arndt, Daniel; Martin, Elyette; Pospisil, Pavel

    2013-12-01

    Compound identification is widely recognized as a major bottleneck for modern metabolomic approaches and high-throughput nontargeted characterization of complex matrices. To tackle this challenge, an automated platform entitled computer-assisted structure identification (CASI) was designed and developed in order to accelerate and standardize the identification of compound structures. In the first step of the process, CASI automatically searches mass spectral libraries for matches using a NIST MS Search algorithm, which proposes structural candidates for experimental spectra from two-dimensional gas chromatography with time-of-flight mass spectrometry (GC × GC-TOF-MS) measurements, each with an associated match factor. Next, quantitative structure-property relationship (QSPR) models implemented in CASI predict three specific parameters to enhance the confidence for correct compound identification, which were Kovats Index (KI) for the first dimension (1D) separation, relative retention time for the second dimension separation (2DrelRT) and boiling point (BP). In order to reduce the impact of chromatographic variability on the second dimension retention time, a concept based upon hypothetical reference points from linear regressions of a deuterated n-alkanes reference system was introduced, providing a more stable relative retention time measurement. Predicted values for KI and 2DrelRT were calculated and matched with experimentally derived values. Boiling points derived from 1D separations were matched with predicted boiling points, calculated from the chemical structures of the candidates. As a last step, CASI combines the NIST MS Search match factors (NIST MF) with up to three predicted parameter matches from the QSPR models to generate a combined CASI Score representing the measure of confidence for the identification. Threshold values were applied to the CASI Scores assigned to proposed structures, which improved the accuracy for the classification of true

  7. A linear programming approach to reconstructing subcellular structures from confocal images for automated generation of representative 3D cellular models

    PubMed Central

    Wood, Scott T.; Dean, Brian C.; Dean, Delphine

    2013-01-01

    This paper presents a novel computer vision algorithm to analyze 3D stacks of confocal images of fluorescently stained single cells. The goal of the algorithm is to create representative in silico model structures that can be imported into finite element analysis software for mechanical characterization. Segmentation of cell and nucleus boundaries is accomplished via standard thresholding methods. Using novel linear programming methods, a representative actin stress fiber network is generated by computing a linear superposition of fibers having minimum discrepancy compared with an experimental 3D confocal image. Qualitative validation is performed through analysis of seven 3D confocal image stacks of adherent vascular smooth muscle cells (VSMCs) grown in 2D culture. The presented method is able to automatically generate 3D geometries of the cell's boundary, nucleus, and representative F-actin network based on standard cell microscopy data. These geometries can be used for direct importation and implementation in structural finite element models for analysis of the mechanics of a single cell to potentially speed discoveries in the fields of regenerative medicine, mechanobiology, and drug discovery. PMID:23395283

  8. A new methodology for non-contact accurate crack width measurement through photogrammetry for automated structural safety evaluation

    NASA Astrophysics Data System (ADS)

    Jahanshahi, Mohammad R.; Masri, Sami F.

    2013-03-01

    In mechanical, aerospace and civil structures, cracks are important defects that can cause catastrophes if neglected. Visual inspection is currently the predominant method for crack assessment. This approach is tedious, labor-intensive, subjective and highly qualitative. An inexpensive alternative to current monitoring methods is to use a robotic system that could perform autonomous crack detection and quantification. To reach this goal, several image-based crack detection approaches have been developed; however, the crack thickness quantification, which is an essential element for a reliable structural condition assessment, has not been sufficiently investigated. In this paper, a new contact-less crack quantification methodology, based on computer vision and image processing concepts, is introduced and evaluated against a crack quantification approach which was previously developed by the authors. The proposed approach in this study utilizes depth perception to quantify crack thickness and, as opposed to most previous studies, needs no scale attachment to the region under inspection, which makes this approach ideal for incorporation with autonomous or semi-autonomous mobile inspection systems. Validation tests are performed to evaluate the performance of the proposed approach, and the results show that the new proposed approach outperforms the previously developed one.

  9. Automated protein NMR resonance assignments.

    PubMed

    Wan, Xiang; Xu, Dong; Slupsky, Carolyn M; Lin, Guohui

    2003-01-01

    NMR resonance peak assignment is one of the key steps in solving an NMR protein structure. The assignment process links resonance peaks to individual residues of the target protein sequence, providing the prerequisite for establishing intra- and inter-residue spatial relationships between atoms. The assignment process is tedious and time-consuming, which could take many weeks. Though there exist a number of computer programs to assist the assignment process, many NMR labs are still doing the assignments manually to ensure quality. This paper presents (1) a new scoring system for mapping spin systems to residues, (2) an automated adjacency information extraction procedure from NMR spectra, and (3) a very fast assignment algorithm based on our previous proposed greedy filtering method and a maximum matching algorithm to automate the assignment process. The computational tests on 70 instances of (pseudo) experimental NMR data of 14 proteins demonstrate that the new score scheme has much better discerning power with the aid of adjacency information between spin systems simulated across various NMR spectra. Typically, with automated extraction of adjacency information, our method achieves nearly complete assignments for most of the proteins. The experiment shows very promising perspective that the fast automated assignment algorithm together with the new score scheme and automated adjacency extraction may be ready for practical use. PMID:16452794

  10. Space power subsystem automation technology

    NASA Technical Reports Server (NTRS)

    Graves, J. R. (Compiler)

    1982-01-01

    The technology issues involved in power subsystem automation and the reasonable objectives to be sought in such a program were discussed. The complexities, uncertainties, and alternatives of power subsystem automation, along with the advantages from both an economic and a technological perspective were considered. Whereas most spacecraft power subsystems now use certain automated functions, the idea of complete autonomy for long periods of time is almost inconceivable. Thus, it seems prudent that the technology program for power subsystem automation be based upon a growth scenario which should provide a structured framework of deliberate steps to enable the evolution of space power subsystems from the current practice of limited autonomy to a greater use of automation with each step being justified on a cost/benefit basis. Each accomplishment should move toward the objectives of decreased requirement for ground control, increased system reliability through onboard management, and ultimately lower energy cost through longer life systems that require fewer resources to operate and maintain. This approach seems well-suited to the evolution of more sophisticated algorithms and eventually perhaps even the use of some sort of artificial intelligence. Multi-hundred kilowatt systems of the future will probably require an advanced level of autonomy if they are to be affordable and manageable.

  11. Influence of water and sediment supply on the stratigraphic record of alluvial fans and deltas: Process controls on stratigraphic completeness

    NASA Astrophysics Data System (ADS)

    Straub, Kyle M.; Esposito, Christopher R.

    2013-06-01

    contains the most complete record of information necessary to quantitatively reconstruct paleolandscape dynamics, but this record contains significant gaps over a range of time and space scales. These gaps result from stasis on geomorphic surfaces and erosional events that remove previously deposited sediment. Building on earlier statistical studies, we examine stratigraphic completeness in three laboratory experiments where the topography of aggrading deltas was monitored at high temporal and spatial scales. The three experiments cover unique combinations in the absolute magnitudes of sediment and water discharge in addition to generation of accommodation space through base-level rise. This analysis centers on three time scales: (1) the time at which a record is discretized (t), (2) the time necessary to build a deposit with mean thickness equivalent to the maximum roughness on a surface (Tc), and (3) the time necessary for channelized flow to migrate over all locations in a basin (Tch). These time scales incorporate information pertaining to the time-variant topography of actively changing surfaces, kinematics by which the surfaces are changing, and net deposition rate. We find that stratigraphic completeness increases as a function of t/Tc but decreases as a function of Tc/Tch over the parameter space covered in the experiments. Our results suggest that environmental signals disconnected from a sediment routing system are best preserved in systems with low Tc values. Nondimensionalizing t by Tc, however, shows that preservation of information characterizing system morphodynamics is best preserved in stratigraphy constructed by systems with low water to sediment flux ratios.

  12. Automated External Defibrillator

    MedlinePlus

    ... from the NHLBI on Twitter. What Is an Automated External Defibrillator? An automated external defibrillator (AED) is a portable device that ... Institutes of Health Department of Health and Human Services USA.gov

  13. Automated, in-water determination of colored dissolved organic material and phytoplankton community structure using the optical phytoplankton discriminator

    NASA Astrophysics Data System (ADS)

    Kirkpatrick, Gary J.; Millie, David F.; Moline, Mark A.; Lohrenz, Steven E.; Schofield, Oscar M.

    2011-06-01

    Optical Phytoplankton Discriminator (OPD, a.k.a. BreveBuster) determines colored dissolved organic material (CDOM) absorption spectra and particulate light absorbance spectra. The CDOM absorption spectra and correlation coefficients (referred to as 'similarity indexes') between the particulate absorbance spectra and known phytoplankton classes are available in real-time. Post-deployment processing calculates the best fit of multiple absorbance spectra from known phytoplankton taxonomic classes. Through this process the OPD provides an estimate of the phytoplankton community chlorophyll distribution among the classes included in the fit process. The major components of the OPD include: a liquid-waveguide capillary cell (LWCC), a fiber-optic spectrometer, a tungsten-deuterium fiber-optic light and a 0.2 micrometer pore cross-flow filter. In-water operation of the OPD began in May 2003. Since that date 25 of these instruments have been deployed on a variety of autonomous underwater vehicles, buoys, piers, channel markers and boats and ships. It has been utilized in CDOM studies off the New Jersey coast, in HAB monitoring efforts in the Gulf of Mexico and the Great Lakes, and in phytoplankton community structure studies in the Galapagos Islands and the Mediterranean Sea. Most recently, it has been deployed to Veracruz, Mexico for HAB monitoring. Presently, several OPD's operating on Slocum gliders and coastal buoys make up a local HAB observatory south of Tampa Bay, Florida, partially supported by the NOAA/IOOS through GCOOS. This presentation will detail the OPD's capabilities and report results from several of the deployments listed above. The ongoing effort to effectively visualize 4-D phytoplankton community structure will be discussed.

  14. Automation: triumph or trap?

    PubMed

    Smythe, M H

    1997-01-01

    Automation, a hot topic in the laboratory world today, can be a very expensive option. Those who are considering implementing automation can save time and money by examining the issues from the standpoint of an industrial/manufacturing engineer. The engineer not only asks what problems will be solved by automation, but what problems will be created. This article discusses questions that must be asked and answered to ensure that automation efforts will yield real and substantial payoffs.

  15. Workflow automation architecture standard

    SciTech Connect

    Moshofsky, R.P.; Rohen, W.T.

    1994-11-14

    This document presents an architectural standard for application of workflow automation technology. The standard includes a functional architecture, process for developing an automated workflow system for a work group, functional and collateral specifications for workflow automation, and results of a proof of concept prototype.

  16. Brookian stratigraphic plays in the National Petroleum Reserve - Alaska (NPRA)

    USGS Publications Warehouse

    Houseknecht, David W.

    2003-01-01

    The Brookian megasequence in the National Petroleum Reserve in Alaska (NPRA) includes bottomset and clinoform seismic facies of the Torok Formation (mostly Albian age) and generally coeval, topset seismic facies of the uppermost Torok Formation and the Nanushuk Group. These strata are part of a composite total petroleum system involving hydrocarbons expelled from three stratigraphic intervals of source rocks, the Lower Cretaceous gamma-ray zone (GRZ), the Lower Jurassic Kingak Shale, and the Triassic Shublik Formation. The potential for undiscovered oil and gas resources in the Brookian megasequence in NPRA was assessed by defining five plays (assessment units), one in the topset seismic facies and four in the bottomset-clinoform seismic facies. The Brookian Topset Play is estimated to contain between 60 (95-percent probability) and 465 (5-percent probability) million barrels of technically recoverable oil, with a mean (expected value) of 239 million barrels. The Brookian Topset Play is estimated to contain between 0 (95-percent probability) and 679 (5-percent probability) billion cubic feet of technically recoverable, nonassociated natural gas, with a mean (expected value) of 192 billion cubic feet. The Brookian Clinoform North Play, which extends across northern NPRA, is estimated to contain between 538 (95-percent probability) and 2,257 (5-percent probability) million barrels of technically recoverable oil, with a mean (expected value) of 1,306 million barrels. The Brookian Clinoform North Play is estimated to contain between 0 (95-percent probability) and 1,969 (5-percent probability) billion cubic feet of technically recoverable, nonassociated natural gas, with a mean (expected value) of 674 billion cubic feet. The Brookian Clinoform Central Play, which extends across central NPRA, is estimated to contain between 299 (95-percent probability) and 1,849 (5-percent probability) million barrels of technically recoverable oil, with a mean (expected value) of 973

  17. Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum

    PubMed Central

    Brunger, Axel T.; Das, Debanu; Deacon, Ashley M.; Grant, Joanna; Terwilliger, Thomas C.; Read, Randy J.; Adams, Paul D.; Levitt, Michael; Schröder, Gunnar F.

    2012-01-01

    Phasing by molecular replacement remains difficult for targets that are far from the search model or in situations where the crystal diffracts only weakly or to low resolution. Here, the process of determining and refining the structure of Cgl1109, a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum, at ∼3 Å resolution is described using a combination of homology modeling with MODELLER, molecular-replacement phasing with Phaser, deformable elastic network (DEN) refinement and automated model building using AutoBuild in a semi-automated fashion, followed by final refinement cycles with phenix.refine and Coot. This difficult molecular-replacement case illustrates the power of including DEN restraints derived from a starting model to guide the movements of the model during refinement. The resulting improved model phases provide better starting points for automated model building and produce more significant difference peaks in anomalous difference Fourier maps to locate anomalous scatterers than does standard refinement. This example also illustrates a current limitation of automated procedures that require manual adjustment of local sequence misalignments between the homology model and the target sequence. PMID:22505259

  18. Shoe-String Automation

    SciTech Connect

    Duncan, M.L.

    2001-07-30

    Faced with a downsizing organization, serious budget reductions and retirement of key metrology personnel, maintaining capabilities to provide necessary services to our customers was becoming increasingly difficult. It appeared that the only solution was to automate some of our more personnel-intensive processes; however, it was crucial that the most personnel-intensive candidate process be automated, at the lowest price possible and with the lowest risk of failure. This discussion relates factors in the selection of the Standard Leak Calibration System for automation, the methods of automation used to provide the lowest-cost solution and the benefits realized as a result of the automation.

  19. Automation of industrial bioprocesses.

    PubMed

    Beyeler, W; DaPra, E; Schneider, K

    2000-01-01

    The dramatic development of new electronic devices within the last 25 years has had a substantial influence on the control and automation of industrial bioprocesses. Within this short period of time the method of controlling industrial bioprocesses has changed completely. In this paper, the authors will use a practical approach focusing on the industrial applications of automation systems. From the early attempts to use computers for the automation of biotechnological processes up to the modern process automation systems some milestones are highlighted. Special attention is given to the influence of Standards and Guidelines on the development of automation systems.

  20. Automation in Clinical Microbiology

    PubMed Central

    Ledeboer, Nathan A.

    2013-01-01

    Historically, the trend toward automation in clinical pathology laboratories has largely bypassed the clinical microbiology laboratory. In this article, we review the historical impediments to automation in the microbiology laboratory and offer insight into the reasons why we believe that we are on the cusp of a dramatic change that will sweep a wave of automation into clinical microbiology laboratories. We review the currently available specimen-processing instruments as well as the total laboratory automation solutions. Lastly, we outline the types of studies that will need to be performed to fully assess the benefits of automation in microbiology laboratories. PMID:23515547

  1. Stratigraphic framework and distribution of lignite on Crowleys Ridge, Arkansas

    USGS Publications Warehouse

    Meissner, Charles R.

    1983-01-01

    The purpose of this report is to establish a stratigraphic framework of lignite beds and associated strata of Crowleys Ridge, Arkansas. Drill hole data provided by the Arkansas Geological Commission is used in the synthesis and interpretation. Areas containing lignite of potential resource value are also delineated. To illustrate the regional stratigraphic framework of Crowleys Ridge, a cross section was constructed from logs of selected oil and gas test wells, along or adjacent to the north-south trending ridge over a distance of about 115 miles. This section reveals that lignite-bearing Tertiary formations dip gently southward along the ridge. The Paleocene-Eocene Wilcox Group forms the bedrock in the northern part of the ridge and successively younger bedrock of the Eocene Claiborne and Jackson Groups is identified in the central and southern part of the ridge. Crowleys Ridge is mantled with alluvium and loess of Quaternary age, and sand and gravel beds of the Lafayette Formation of Pliocene (?) age that unconformably overlie the Paleocene and Eocene rocks. The thickness of lignite-bearing sedimentary deposits ranges from 830 feet in the north to 2,480 feet in the south. The Wilcox, Claiborne, and Jackson Groups of Paleocene and Eocene age are believed to be fluvial-deltaic in origin. The detailed vertical and horizontal stratigraphic characteristics and distribution of lignite beds in the sediments were determined by constructing seven cross sections from lithologic and geophysical logs of the lignite investigations on Crowleys Ridge by the Arkansas Geological Commission and private companies. Correlation and interpretation of the lignite-bearing strata reveal ten lignite beds of resource potential. These lignite beds range from a few inches to 9.5 ft in thickness and are assigned to stratigraphic intervals that are designated as zone 1 through 7. Zone 1 is near the middle of the Wilcox Group and zone 7 is near the middle of the overlying Claiborne Group. Some

  2. Stratigraphical distribution of the Ordovician conodont Erraticodon Dzik in Argentina

    NASA Astrophysics Data System (ADS)

    Heredia, S.; Carlorosi, J.; Mestre, A.; Soria, T.

    2013-08-01

    Three different species of the Ordovician genus Erraticodon Dzik are described and illustrated. Erraticodon patu Cooper is reported from the Lower-Midde Ordovician strata of the Acoite and Alto del Cóndor formations. E. cf. Erraticodon balticus and Erraticodon hexianensis from Middle Ordovician carbonate deposits of the San Juan Formation are analyzed and compared to specimens of these species from Australia, China, Newfoundland, and Baltica. E. patu and E. hexianensis are recorded for first time in the San Juan Formation of Precordillera. The elements of E. cf. E. balticus resemble closely E. balticus Dzik but lack the important denticle on the posterior process of the S elements. An evaluation of the stratigraphic occurrences of these species relative to those of key Lower and Middle Ordovician conodont species such as Trapezognathus diprion Lindström, Oepikodus intermedius Serpagli, Baltoniodus triangularis (Lindström), Baltoniodus navis Lindström, Yangtzeplacognathus crassus (Chen and Zhang) and Eoplacognathus pseudoplanus (Viira) indicates they value for biostratigraphic correlation.

  3. Stratigraphic variation of sulfur isotopes in Colorado Corehole Number 1

    SciTech Connect

    Smith, J.W.; Young, N.B.

    1983-04-01

    Sulfur isotope distribution with stratigraphy is reported for organic and pyritic sulfur of Green River Formation oil shale samples selected to represent the 1600-foot (488 m) Parachute Creek Member in Colorado Corehole No. 1. In the saline zone where nahcolite and dawsonite occur in the oil shale and in the Mahogany zone the /sup 34/ values for organic sulfur and pyrite sulfur match with the pyrite sulfur slightly lighter than the organic sulfur. This is interpreted to demonstrate that organic matter supplied most of the sulfur to the sediment which became oil shale. Little sulfate reached the sediment so no sulfate reduction could occur to enrich the heavy sulfur isotope. No systematic increase in S/sup 34/ was detected in either pyrite or organic sulfur. A remarkably large increase in concentration of /sup 34/S occurring in a short stratigraphic span is demonstrated. This abrupt increase occurs near the middle of the Parachute Creek Member sediments. Above this point both pyrite and organic sulfur remain significantly enriched in /sup 34/S.

  4. Horizontal drilling in the Austin Chalk: Stratigraphic factors

    SciTech Connect

    Durham, C.O. Jr. ); Bobigian, R.A. )

    1990-05-01

    Horizontal drilling has renewed interest in the Austin chalk in south-central Texas. Large fields on opposite sides of the San Marcos arch Giddings to the northeast and Pearsall to the southwest were active with vertical drilling 10 years ago. Giddings' 4,500 Austin wells produced 209 million BO and 934 bcfg of gas through 1988; Pearsall's 1,440 wells produced 57 million BO and 35 bcfg of gas. Most vertical wells were completed, 20% were economic successes, 40% were marginal, 40% were uneconomic due to uneven areal distribution of near-vertical fractures and small faults, which provide reservoirs in otherwise tight chalk. Horizontal drilling, led by Amoco in Giddings and Oryx in Pearsall, enhances the chances of encountering the fractures by drilling perpendicular to the fracture trend. Horizontal drilling requires preselection of the stratigraphic horizon to be penetrated. One must understand the variable Austin stratigraphy to choose the zone with the most brittle character and best matrix porosity, both reduced by increased clay content. Chalk 130 ft thick on the San Marcos arch thickens to 600 to 800 ft in central Giddings field where middle marl separates lower and upper chalk Northeastward only lower chalk is preserved beneath a post-Austin submarine channel. The Austin thickens to 300-500 ft in Pearsall field where middle member ash beds separate lower and upper chalk inhibiting vertical reservoir communication. Locally, on the Pearsall arch, ash is missing, lower chalk thickens, and upper chalk thins.

  5. Basal Murphy belt and Chilhowee Group -- Sequence stratigraphic comparison

    SciTech Connect

    Aylor, J.G. Jr. . Dept. of Geology)

    1994-03-01

    The lower Murphy belt in the central western Blue Ridge is interpreted to be correlative to the Early Cambrian Chilhowee Group of the westernmost Blue Ridge and Appalachian fold and thrust belt. Basal Murphy belt depositional sequence stratigraphy represents a second-order, type-2 transgressive systems tract initiated with deposition of lowstand turbidites of the Dean Formation. These transgressive deposits of the Nantahala and Brasstown Formations are interpreted as middle to outer continental shelf deposits. Cyclic and stacked third-order regressive, coarsening upwards sequences of the Nantahala Formation display an overall increase in feldspar content stratigraphically upsection. These transgressive siliciclastic deposits are interpreted to be conformably overlain by a carbonate highstand systems tract of the Murphy Marble. Palinspastic reconstruction indicates that the Nantahala and Brasstown Formations possibly represent a basinward extension of up to 3 km thick siliciclastic wedge. The wedge tapers to the southwest along the strike of the Murphy belt at 10[degree] and thins northwestward to 2 km in the Tennessee depocenter where it is represented by the Chilhowee Group. The Murphy belt basin is believed to represent a transitional rift-to-drift facies deposited on the lower plate of the southern Blue Ridge rift zone.

  6. Upper Paleozoic stratigraphic sequences in the Western Interior, USA

    SciTech Connect

    Maughan, E.K.; Macke, D.L.

    1993-04-01

    Major depositional sequences in the upper Paleozoic (Mississippian through Permian) of the Western Interior reflect either tectonism, eustatic sea-level change, or both. The stratigraphic sequences approximate (1) the Lower Mississippian Lodgepole Limestone of the Madison Group, (2) the Lower and Upper Mississippian Mission Canyon Limestone in the Madison Group, (3) the Upper Mississippian Big Snowy Group, (4) the Lower and Middle Pennsylvanian Amsden Group, (5) the Middle Pennsylvanian and Lower Permian Minnelusa Group, and (6) the Middle and Upper Permian Park City Group. These upper Paleozoic sequences in the Western Interior seem to be intricately related to similar, third-order transgressive-regressive cycles in the Cordilleran region, but precise relationships of some sequence boundaries remain to be determined. Parasequence sets evidence minor eustatic oscillations within these six major Western Interior sequences. The widespread paraconformable contact between Permian and overlying Triassic strata on the Wyoming shelf indicates that this sequence boundary resulted primarily from eustatic marine regression. Overall, the upper Paleozoic sequences of the Western Interior were deposited in a stable epeirogenic framework that succeeded Devonian tectonism but were diastrophically affected again during the Pennsylvanian. The timing of these diastrophic events in the Western Interior seem to coincide with plate collision events along the eastern and southern margins of North America, but eustatic changes may be related to other causes.

  7. Top-down characterization of nucleic acids modified by structural probes using high-resolution tandem mass spectrometry and automated data interpretation.

    PubMed

    Kellersberger, Katherine A; Yu, Eizadora; Kruppa, Gary H; Young, Malin M; Fabris, Daniele

    2004-05-01

    . A new program called MS2Links was developed for the automated reduction and interpretation of fragmentation data obtained from modified nucleic acids. Based on an algorithm that searches for plausible isotopic patterns, the data reduction module is capable of discriminating legitimate signals from noise spikes of comparable intensity. The fragment identification module calculates the monoisotopic mass of ion products expected from a certain sequence and user-defined covalent modifications, which are finally matched with the signals selected by the data reduction program. Considering that MS2Links can generate similar fragment libraries for peptides and their covalent conjugates with other peptides or nucleic acids, this program provides an integrated platform for the structural investigation of protein-nucleic acid complexes based on cross-linking strategies and top-down ESI-FTMS.

  8. Protein fabrication automation

    PubMed Central

    Cox, J. Colin; Lape, Janel; Sayed, Mahmood A.; Hellinga, Homme W.

    2007-01-01

    Facile “writing” of DNA fragments that encode entire gene sequences potentially has widespread applications in biological analysis and engineering. Rapid writing of open reading frames (ORFs) for expressed proteins could transform protein engineering and production for protein design, synthetic biology, and structural analysis. Here we present a process, protein fabrication automation (PFA), which facilitates the rapid de novo construction of any desired ORF from oligonucleotides with low effort, high speed, and little human interaction. PFA comprises software for sequence design, data management, and the generation of instruction sets for liquid-handling robotics, a liquid-handling robot, a robust PCR scheme for gene assembly from synthetic oligonucleotides, and a genetic selection system to enrich correctly assembled full-length synthetic ORFs. The process is robust and scalable. PMID:17242375

  9. Automated Standard Hazard Tool

    NASA Technical Reports Server (NTRS)

    Stebler, Shane

    2014-01-01

    The current system used to generate standard hazard reports is considered cumbersome and iterative. This study defines a structure for this system's process in a clear, algorithmic way so that standard hazard reports and basic hazard analysis may be completed using a centralized, web-based computer application. To accomplish this task, a test server is used to host a prototype of the tool during development. The prototype is configured to easily integrate into NASA's current server systems with minimal alteration. Additionally, the tool is easily updated and provides NASA with a system that may grow to accommodate future requirements and possibly, different applications. Results of this project's success are outlined in positive, subjective reviews complete by payload providers and NASA Safety and Mission Assurance personnel. Ideally, this prototype will increase interest in the concept of standard hazard automation and lead to the full-scale production of a user-ready application.

  10. Protein fabrication automation.

    PubMed

    Cox, J Colin; Lape, Janel; Sayed, Mahmood A; Hellinga, Homme W

    2007-03-01

    Facile "writing" of DNA fragments that encode entire gene sequences potentially has widespread applications in biological analysis and engineering. Rapid writing of open reading frames (ORFs) for expressed proteins could transform protein engineering and production for protein design, synthetic biology, and structural analysis. Here we present a process, protein fabrication automation (PFA), which facilitates the rapid de novo construction of any desired ORF from oligonucleotides with low effort, high speed, and little human interaction. PFA comprises software for sequence design, data management, and the generation of instruction sets for liquid-handling robotics, a liquid-handling robot, a robust PCR scheme for gene assembly from synthetic oligonucleotides, and a genetic selection system to enrich correctly assembled full-length synthetic ORFs. The process is robust and scalable.

  11. Automating the multiprocessing environment

    NASA Technical Reports Server (NTRS)

    Arpasi, Dale J.

    1989-01-01

    An approach to automate the programming and operation of tree-structured networks of multiprocessor systems is discussed. A conceptual, knowledge-based operating environment is presented, and requirements for two major technology elements are identified as follows: (1) An intelligent information translator is proposed for implementating information transfer between dissimilar hardware and software, thereby enabling independent and modular development of future systems and promoting a language-independence of codes and information; (2) A resident system activity manager, which recognizes the systems capabilities and monitors the status of all systems within the environment, is proposed for integrating dissimilar systems into effective parallel processing resources to optimally meet user needs. Finally, key computational capabilities which must be provided before the environment can be realized are identified.

  12. Extensional tectonics, halokinesis, eustacy in the Norwegian Central Graben, North Sea: A testing ground for sequence and seismic stratigraphic principles

    SciTech Connect

    Spencer, P.A.; Prosser, S.D.

    1996-12-31

    The Norwegian Central Graben is a mature hydrocarbon province with proven reserves within the Upper Jurassic succession. Several phases of extensional tectonics ranging from the Permo-Triassic to the Upper Jurassic, and a thick mobile salt section, serve to complicate a clear regional understanding of the area. A full integration of structural interpretation, seismic and sequence stratigraphic principles, biostratigraphy and core studies is required to achieve a realistic interpretation and predict Upper Jurassic facies distributions within this complex area. Utilizing some 30 wells, regional seismic data and biostratigraphy, candidate sequence boundaries and regionally correlatable flooding surfaces (e.g. Eudoxus), have been identified. Horizon flattening on these surfaces has allowed the recognition of thickening-away reflection geometries adjacent to salt features and divergent geometries into graben boundary faults. This facilitates the identification of the dominant local or regional controls on accommodation space creation. Detailed seismic facies analysis was then used to reveal the relative expansion or suppression of depositional systems tracts as a response to either regional or local structural controls. It was subsequently possible to place these systems within a biostratigraphically constrained regional framework. Mapping the base Zechstein, base Jurassic and base Cretaceous horizons has provided a map view of the active faults and slopes controlling sediment transport at any given time. This provided the third dimension essential in depicting the spatial distribution of depositional systems, and is a crucial component of any sequence stratigraphic interpretation. A regional picture of the progressive evolution of this complex area has been thus been derived, and the effect of both regional and local controls on sequence stratigraphic expressions has been determined.

  13. Extensional tectonics, halokinesis, eustacy in the Norwegian Central Graben, North Sea: A testing ground for sequence and seismic stratigraphic principles

    SciTech Connect

    Spencer, P.A. ); Prosser, S.D. )

    1996-01-01

    The Norwegian Central Graben is a mature hydrocarbon province with proven reserves within the Upper Jurassic succession. Several phases of extensional tectonics ranging from the Permo-Triassic to the Upper Jurassic, and a thick mobile salt section, serve to complicate a clear regional understanding of the area. A full integration of structural interpretation, seismic and sequence stratigraphic principles, biostratigraphy and core studies is required to achieve a realistic interpretation and predict Upper Jurassic facies distributions within this complex area. Utilizing some 30 wells, regional seismic data and biostratigraphy, candidate sequence boundaries and regionally correlatable flooding surfaces (e.g. Eudoxus), have been identified. Horizon flattening on these surfaces has allowed the recognition of thickening-away reflection geometries adjacent to salt features and divergent geometries into graben boundary faults. This facilitates the identification of the dominant local or regional controls on accommodation space creation. Detailed seismic facies analysis was then used to reveal the relative expansion or suppression of depositional systems tracts as a response to either regional or local structural controls. It was subsequently possible to place these systems within a biostratigraphically constrained regional framework. Mapping the base Zechstein, base Jurassic and base Cretaceous horizons has provided a map view of the active faults and slopes controlling sediment transport at any given time. This provided the third dimension essential in depicting the spatial distribution of depositional systems, and is a crucial component of any sequence stratigraphic interpretation. A regional picture of the progressive evolution of this complex area has been thus been derived, and the effect of both regional and local controls on sequence stratigraphic expressions has been determined.

  14. The oligocene stratigraphic framework of the coastal plain of the southeastern United States

    SciTech Connect

    Huddlestun, P.F. )

    1993-03-01

    Four lithostratigraphic associations are recognized in the Oligocene of the southeastern Coastal Plain: (1) an eastern Gulf of Mexico stratigraphic association, (2) a Gulf Trough stratigraphic association, (3) a Florida Bank stratigraphic association and (4), an Atlantic continental shelf stratigraphic association. Oligocene formations and faunal provinces appear to be directly related to the stratigraphic associations. The Vicksburg Group is restricted to the eastern Gulf of Mexico continental shelf stratigraphic association and to the Coastal Plain north and west of the Gulf Trough. The Gulf Trough stratigraphic association includes the Ochlockonee Formation, Wolf Pit Dolostone, Okapilco Limestone, and Bridgeboro Limestone (the Bridgeboro Limestones occurs only on and adjacent to the northern and southern flanks of the trough). The Florida Bank stratigraphic association is largely restricted to the area south of the Gulf Trough and includes the Ellaville Limestone, Suwannacoochee Dolostone, and Suwannee Limestone (the Suwannee Limestone also occurs immediately north of the Gulf Trough in the central Georgia Coastal Plain). The Cooper and Lazaretto Creek Formations are restricted to the Atlantic continental shelf stratigraphic association and occur only in the coastal area of Georgia, South Carolina, and beneath the continental shelf. Three faunal provinces (or subprovinces) are recognized in the southeastern Coastal Plain during the Oligocene: (1) a Gulf of Mexico continental shelf faunal province that characterizes the Gulf Trough and the region north and west of the trough, (2) a Florida province characteristic and largely restricted to the Florida Bank and (3), an Atlantic continental shelf faunal province. Through the Early Oligocene, the trough marked the limits of the Gulf of Mexico and Florida provinces.

  15. Automated DNA Sequencing System

    SciTech Connect

    Armstrong, G.A.; Ekkebus, C.P.; Hauser, L.J.; Kress, R.L.; Mural, R.J.

    1999-04-25

    Oak Ridge National Laboratory (ORNL) is developing a core DNA sequencing facility to support biological research endeavors at ORNL and to conduct basic sequencing automation research. This facility is novel because its development is based on existing standard biology laboratory equipment; thus, the development process is of interest to the many small laboratories trying to use automation to control costs and increase throughput. Before automation, biology Laboratory personnel purified DNA, completed cycle sequencing, and prepared 96-well sample plates with commercially available hardware designed specifically for each step in the process. Following purification and thermal cycling, an automated sequencing machine was used for the sequencing. A technician handled all movement of the 96-well sample plates between machines. To automate the process, ORNL is adding a CRS Robotics A- 465 arm, ABI 377 sequencing machine, automated centrifuge, automated refrigerator, and possibly an automated SpeedVac. The entire system will be integrated with one central controller that will direct each machine and the robot. The goal of this system is to completely automate the sequencing procedure from bacterial cell samples through ready-to-be-sequenced DNA and ultimately to completed sequence. The system will be flexible and will accommodate different chemistries than existing automated sequencing lines. The system will be expanded in the future to include colony picking and/or actual sequencing. This discrete event, DNA sequencing system will demonstrate that smaller sequencing labs can achieve cost-effective the laboratory grow.

  16. Applying high-resolution sequence stratigraphic tools to the Texas continental margin to fine-tune conventional sequence stratigraphic models and improve reservoir prediction

    SciTech Connect

    Anderson, J.A.; Banfield, L.A.; Eckles, B.J.

    1996-12-31

    A regional sequence stratigraphic study of the Texas continental margin resulted in an improved understanding of Pleistocene-Holocene eustatic sea level fluctuations and their influence on depositional environments associated with several distinct systems: the Colorado/Brazos system, the Texas interfluve region, and the Rio Grande system. The dataset consists of approximately 7500 kilometers of high-resolution seismic profiloes, 200 borehole descriptions, and 12 sediment cores. The study involved analysis of three independent variables to better constrain Pleistocene-Holocene sea level history: coastal onlap derived from high-resolution seismic profiles; oxygen isotope data determined from selected sediment cores; and paleoenvironmental data developed from high-resolution micropaleontologic analyses. Combined lithologic data and seismic facies analysis is used to map the distribution of major depositional systems on the shelf during one complete glacial eustatic cycle. Our study provided anopportunity to fine tune conventional stratigraphic models with regard to the distribution of potential reservoirs relative to regionally mappable stratigraphic surfaces.

  17. Applying high-resolution sequence stratigraphic tools to the Texas continental margin to fine-tune conventional sequence stratigraphic models and improve reservoir prediction

    SciTech Connect

    Anderson, J.A.; Banfield, L.A.; Eckles, B.J. )

    1996-01-01

    A regional sequence stratigraphic study of the Texas continental margin resulted in an improved understanding of Pleistocene-Holocene eustatic sea level fluctuations and their influence on depositional environments associated with several distinct systems: the Colorado/Brazos system, the Texas interfluve region, and the Rio Grande system. The dataset consists of approximately 7500 kilometers of high-resolution seismic profiloes, 200 borehole descriptions, and 12 sediment cores. The study involved analysis of three independent variables to better constrain Pleistocene-Holocene sea level history: coastal onlap derived from high-resolution seismic profiles; oxygen isotope data determined from selected sediment cores; and paleoenvironmental data developed from high-resolution micropaleontologic analyses. Combined lithologic data and seismic facies analysis is used to map the distribution of major depositional systems on the shelf during one complete glacial eustatic cycle. Our study provided anopportunity to fine tune conventional stratigraphic models with regard to the distribution of potential reservoirs relative to regionally mappable stratigraphic surfaces.

  18. Sequence stratigraphic framework of Neogene strata in offshore Nigeria

    SciTech Connect

    Pacht, J.A.; Bowen, B.E.; Hall, D.J.

    1996-08-01

    The western portion of the Nigerian continental margin (Dahomey Basin) exhibits stable to moderately unstable progradation. Systems tracts are similar to those described by Vail for stable progradational margins. In contrast, strata off the central and eastern portions of the Nigerian coast (Niger Delta Complex) exhibit highly unstable progradation, and systems tracts are similar to those in Neogene strata of the offshore Gulf of Mexico. Lowstand basin floor fans in both areas are defined by a well-developed upper reflection. This reflection downlaps along the sequence boundary or abuts against the downthrown side of a growth fault surface. Most lower lowstand (slope fan) strata exhibit discontinuous to semi-continuous subparallel reflections. However, this systems tract also contains channel complexes characterized by chaotic bedding with small bright spots and less common large channels, which exhibit concave-upward reflections. In the western portion of the study area, lower lowstand deposits commonly pinch out on the slope. Deposition occurred largely from point sources. In contrast, contemporaneous shallow-water facies are developed in lower lowstand systems tracts in the Niger Delta Complex. Deposition occurred along a line source. Large amplitude anomalies in the upper lowstand (prograding wedge) suggest well-developed sheet sands occur in shallow-water and deep-water in the Niger Delta complex. However, in the Dahomey Basin there is little evidence of deep-water sands in this interval. The transgressive and highstand systems tracts are usually very thin in outer shelf to basin floor strata in both areas. Both the Dahomey Basin and Niger Delta Complex exhibit different stratigraphic geometries, and therefore, require different exploration strategies.

  19. Stratigraphic evidence of past fluvial activity in southern Melas Chasma, Valles Marineris, Mars

    NASA Astrophysics Data System (ADS)

    Davis, Joel; Grindrod, Peter

    2014-05-01

    During the late Noachian and early Hesperian periods, listric faulting led to the development of a series of hanging depressions throughout the Valles Marineris canyon system [1]. One such depression, situated on the southern wall of Melas Chasma, forms an enclosed basin which has since undergone modification from the late Hesperian to Amazonian. There is a multitude of evidence suggesting that the basin (hereon in referred to as the Southern Melas Chasma Basin; SMCB) was once host to active fluvial processes, that at minimum lasted for several hundred years [2,3]. Central to this is what appears to be the remains of a palaeolake, which is approximately 80 by 40 kilometres in area. The palaeolake contains a complex sequence of sedimentary stratigraphy, which includes several structures that resemble deltas and/or submarine fans on both the east and west side of the basin [4], and appear to originate from a network of channels and valleys that terminate in the basin. Previous studies have shown that the western valley network has drainage densities similar to terrestrial values and a dendritic nature that is indicative of precipitation and surface runoff [3]. Higher resolution mapping of the SMCB is important to further understand the stratigraphic succession and geomorphology, and to quantify how long liquid water may have been present within the basin. For this study, new digital elevation models (DEMs) have been produced in SOCET SET using stereo images from the Context Camera (CTX) and the High Resolution Imaging Science Experiment (HiRISE), both aboard the Mars Reconnaissance Orbiter. The DEMs have been produced at ~6 and ~1 m/pixel vertical resolution for CTX and HiRISE respectively. There is approximately 150-200 m of sediment within the stratigraphic succession; some individual strata are less than 10 m thick. The delta/fan structures appear to occur at different stratigraphic positions low down within the sequence. Clinoform-like and cross-bedded structures

  20. A brief lithostratigraphic review of the Abrahamskraal and Koonap formations of the Beaufort Group, South Africa: Towards a basin-wide stratigraphic scheme for the Middle Permian Karoo

    NASA Astrophysics Data System (ADS)

    Day, Michael Oliver; Rubidge, Bruce Sidney

    2014-12-01

    The basal strata of the Beaufort Group of the South African Karoo Basin, comprising the western Abrahamskraal and eastern Koonap formations, contain the most time extensive record of Middle Permian fossil tetrapods and hold the key to understanding Middle Permian biodiversity change in the continental realm. To determine faunal stratigraphic ranges a reliable lithostratigraphic framework for Middle Permian Beaufort deposits is essential. Until now this has proved difficult to achieve, largely due to the homogeneity of the fluvial succession coupled with structural complexity as a result of Cape Fold Belt orogenesis. Accordingly, the Abrahamskraal Formation has been only locally subdivided on the basis of sandstone packages but regional stratigraphic subdivision has not yet achieved satisfactorily. Collation of stratigraphic sections from around the Karoo Basin for this study demonstrates the presence of four sandstone packages are present within the Abrahamskraal Formation in the south-western corner of the basin. These sandstone packages are given member status, based upon the nomenclature of Le Roux (1985) with the addition of the newly recognised Grootfontein Member. The Combrinkskraal and Grootfontein Members occur in the lower half of the Abrahamskraal Formation and are laterally persistent along the southern margin of the basin. The Koornplaats Member is more restricted to the south west corner of the basin, where it quite thick, suggesting the narrowing of the highly channelized area. The overlying Moordenaars Member, more extensive towards the north than underlying packages, indicates subsequent northwesterly expansion of the locus of active channelization with time. Although thin sandstone packages in the more easterly positioned and stratigraphically equivalent Koonap Formation, this does not facilitate lithostratigraphic subdivision of this part of the stratigraphic succession and may indicate a different form of fluvial architecture. Our study provides

  1. Effective petroleum source rocks of the world: Stratigraphic distribution and controlling depositional factors

    SciTech Connect

    Klemme, H.D. ); Ulmishek, G.F. )

    1991-12-01

    Six stratigraphic intervals, representing one-third of Phanerozoic time, contain petroleum source rocks that have provided more than 90% of the world's discovered original reserves of oil and gas (in barrels of oil equivalent). The six intervals are (1) Silurian (generated 9% of the world's reserves), (2) Upper Devonian-Tournaisian (8% of reserves), (3) Pennsylvanian-Lower Permian (8% of reserves), (4) Upper Jurassic (25% of reserves), (5) middle Cretaceous (29% of reserves), and (6) Oligocene-Miocene (12.5% of reserves). This uneven distribution of source rocks vary from interval to interval. Maps that show facies, structural forms, and petroleum source rocks were prepared for this study. Analysis of the maps indicates that several primary factors controlled the areal distribution of source rocks, their geochemical type, and their effectiveness (i.e., the amounts of discovered original conventionally recoverable reserves of oil and gas generated by these rocks). These factors are geologic age, paleolatitude of the depositional areas, structural forms in which the deposition of source rocks occurred, and the evolution of biota. The maturation time of these source rocks demonstrates that majority of discovered oil and gas is very young; almost 70% of the world's original reserves of oil and gas has been generated since the Coniacian, and nearly 50% of the world's petroleum{sup 4} has been generated and trapped since the Oligocene.

  2. Lithofacies and sequence stratigraphic analysis of the Upper Jurassic siliciclastics in the eastern Kopet-Dagh Basin, NE Iran

    NASA Astrophysics Data System (ADS)

    Zand-Moghadam, Hamed; Moussavi-Harami, Reza; Mahboubi, Asadollah; Aghaei, Ali

    2016-05-01

    The Upper Jurassic (Oxfordian-Kimmeridgian) Mozduran Formation is the most important gas reservoirs of the northeast Iran. Siliciclastic facies of this formation in eastern most parts of the basin have not been studied yet. Therefore, four stratigraphic sections of Mozduran Formation have been selected in the Kole-Malekabad, Kale-Karab, Deraz-Ab and Karizak to interpret depositional history and analyze depositional sequences. Based on texture and sedimentary structures, 14 slilciclastic lithofacies were identified and classified into four categories, including conglomerate (Gms, Gp, Gt), sandstone (Sh, Sp, St, Sr, Sl, Sm, Se), mud rock (Fl) and intermediate sandstone-mud rock (Sr (Fl), Sr/Fl, Fl (Sr)). Identified lithofacies formed four architectural elements CH, SB, LA and FF. Lithofacies characteristics and architectural elements with mostly bimodal pattern of paleocurrents show that the majority of Mozduran lithofacies deposited in the coastal environment (tidal influence). Sequence stratigraphic analysis shows that the Kole-Malekabad section consists of two depositional sequences while other sections are characterized by three depositional sequences. The lower and upper sequence boundaries of the Mozduran Formation in all stratigraphic sections are SB1 that are distinguished by paleosol and sometime conglomerate horizons. Most of depositional sequences in studied sections are composed only of TST and HST. The TST deposits consist mostly of quartzarenite and litharenite petrofacies that have been deposited in the tidal zone. HST packages are mostly including mud rocks with interdeds of sandstone lithofacies that are deposited in supratidal setting. The LST facies is recognized only in the DS3 (equivalent to the second depositional sequences of the Kole-Malekabad), which consist of conglomerate facies. Instead, the Kole-Malekabad section is often composed of supratidal gypsiferrous shales, indicating sea level fall in the study area.

  3. NACSN, note 67--Application for revision of Articles 36 and 37, Lithodemic units of the North American stratigraphic code

    USGS Publications Warehouse

    Easton, Robert M.; Edwards, Lucy E.; Orndorff, Randall C.; Duguet, Manuel; Ferrusquia-Villafranca, Ismael

    2015-01-01

    Currently the North American Stratigraphic Code, (NACSN 2005, Article 37) sets restrictions on the use of the term “complex” for lithodemic units. With exceptions for “volcanic complex” and “structural complex,” a complex must consist of more than one genetic class of rock (i.e., sedimentary, igneous or metamorphic). Thus, the use of the term “complex” to describe masses of intrusive rocks is not allowed. Asimilar restriction is also included in a recent British Geological Survey proposal for using lithodemic units to classify igneous rocks (Gillespie et al. 2008).Currently the North American Stratigraphic Code, (NACSN 2005, Article 37) sets restrictions on the use of the term “complex” for lithodemic units. With exceptions for “volcanic complex” and “structural complex,” a complex must consist of more than one genetic class of rock (i.e., sedimentary, igneous or metamorphic). Thus, the use of the term “complex” to describe masses of intrusive rocks is not allowed. Asimilar restriction is also included in a recent British Geological Survey proposal for using lithodemic units to classify igneous rocks (Gillespie et al. 2008).

  4. Laboratory Automation and Middleware.

    PubMed

    Riben, Michael

    2015-06-01

    The practice of surgical pathology is under constant pressure to deliver the highest quality of service, reduce errors, increase throughput, and decrease turnaround time while at the same time dealing with an aging workforce, increasing financial constraints, and economic uncertainty. Although not able to implement total laboratory automation, great progress continues to be made in workstation automation in all areas of the pathology laboratory. This report highlights the benefits and challenges of pathology automation, reviews middleware and its use to facilitate automation, and reviews the progress so far in the anatomic pathology laboratory.

  5. Seismic paleoceanography and the stratigraphic signature of rapid climate changes

    NASA Astrophysics Data System (ADS)

    Berne, Serge; Sierro, Francisco Javier

    2015-04-01

    ka, have a distinct seismic stratigraphic signature, in the form of a mappable transgressive parasequence. Once identified at a specific location, such distinct seismic signatures might become important guides in the selection of coring sites along margins that have not yet been cored extensively. Sierro, F. J. et al. (2009). Phase relationship between sea level and abrupt climate change." Quaternary Science Reviews 28(25-26): 2867-2881.

  6. Stratigraphic framework and evolution of the Cretaceous continental sequences of the Bauru, Sanfranciscana, and Parecis basins, Brazil

    NASA Astrophysics Data System (ADS)

    Batezelli, Alessandro; Ladeira, Francisco Sergio Bernardes

    2016-01-01

    With the breakup of the supercontinent Gondwana, the South American Plate has undergone an intense process of tectonic restructuring that led to the genesis of the interior basins that encompassed continental sedimentary sequences. The Brazilian Bauru, Sanfranciscana and Parecis basins during Late Cretaceous have had their evolution linked to this process of structuring and therefore have very similar sedimentary characteristics. The purpose of this study is to establish a detailed understanding of alluvial sedimentary processes and architecture within a stratigraphic sequence framework using the concept of the stratigraphic base level or the ratio between the accommodation space and sediment supply. The integration of the stratigraphic and facies data contributed to defining the stratigraphic architecture of the Bauru, Sanfranciscana and Parecis Basins, supporting a model for continental sequences that depicts qualitative changes in the sedimentation rate (S) and accommodation space (A) that occurred during the Cretaceous. This study discusses the origin of the unconformity surfaces (K-0, K-1 and K-1A) that separate Sequences 1, 2A and 2B and the sedimentary characteristics of the Bauru, Sanfranciscana and Parecis Basins from the Aptian to the Maastrichtian, comparing the results with other Cretaceous Brazilian basins. The lower Cretaceous Sequence 1 (Caiuá and Areado groups) is interpreted as a low-accommodation systems tract compound by fluvial and aeolian systems. The upper Cretaceous lacustrine, braided river-dominated alluvial fan and aeolian systems display characteristics of the evolution from high-to low-accommodation systems tracts (Sequences 2A and 2B). Unconformity K-0 is related to the origin of the Bauru Basin itself in the Early Cretaceous. In Sanfranciscana and Parecis basins, the unconformity K-0 marks the contact between aeolian deposits from Lower Cretaceous and Upper Cretaceous alluvial systems (Sequences 1 and 2). Unconformity K-1, which was

  7. Automating checks of plan check automation.

    PubMed

    Halabi, Tarek; Lu, Hsiao-Ming

    2014-07-08

    While a few physicists have designed new plan check automation solutions for their clinics, fewer, if any, managed to adapt existing solutions. As complex and varied as the systems they check, these programs must gain the full confidence of those who would run them on countless patient plans. The present automation effort, planCheck, therefore focuses on versatility and ease of implementation and verification. To demonstrate this, we apply planCheck to proton gantry, stereotactic proton gantry, stereotactic proton fixed beam (STAR), and IMRT treatments.

  8. An automation simulation testbed

    NASA Technical Reports Server (NTRS)

    Cook, George E.; Sztipanovits, Janos; Biegl, Csaba; Karsai, Gabor; Springfield, James F.; Mutammara, Atheel

    1988-01-01

    The work being done in porting ROBOSIM (a graphical simulation system developed jointly by NASA-MSFC and Vanderbilt University) to the HP350SRX graphics workstation is described. New additional ROBOSIM features, like collision detection and new kinematics simulation methods are also discussed. Based on the experiences of the work on ROBOSIM, a new graphics structural modeling environment is suggested which is intended to be a part of a new knowledge-based multiple aspect modeling testbed. The knowledge-based modeling methodologies and tools already available are described. Three case studies in the area of Space Station automation are also reported. First a geometrical structural model of the station is presented. This model was developed using the ROBOSIM package. Next the possible application areas of an integrated modeling environment in the testing of different Space Station operations are discussed. One of these possible application areas is the modeling of the Environmental Control and Life Support System (ECLSS), which is one of the most complex subsystems of the station. Using the multiple aspect modeling methodology, a fault propagation model of this system is being built and is described.

  9. Hardware flexibility of laboratory automation systems: analysis and new flexible automation architectures.

    PubMed

    Najmabadi, Peyman; Goldenberg, Andrew A; Emili, Andrew

    2007-03-01

    Development of flexible laboratory automation systems has attracted tremendous attention in recent years as biotechnology scientists perform diverse types of protocols and tend to continuously modify them as part of their research. This article is a system level study of hardware flexibility of laboratory automation architectures for high-throughput automation of various sample preparation protocols. Hardware flexibility (system components' adaptability to protocol variations) of automation systems is addressed through the introduction of three main parametric flexibility measures functional, structural, and throughput. A new quantitative measurement method for these parameters in the realm of the Axiomatic Theory is introduced in this article. The method relies on defining probability of success functions for flexibility parameters and calculating their information contents. As flexibility information content decreases, automation system flexibility increases.

  10. Constraining the Temporal and Spatial Evolution of Mantle Plumes Using the Stratigraphic Record

    NASA Astrophysics Data System (ADS)

    Mackay, L. M.; Jones, S. M.; White, N.

    2003-12-01

    Gravitational and tomographic studies provide a snap-shot of mantle plumes at the present day. However, these techniques are unable to constrain how mantle plumes have evolved, temporally and spatially, to their present day structures. A mantle plume will generate vertical motions in the overlying plate. These vertical motions will be recorded in the stratigraphic record of the region, enabling the size and planform of the mantle plume to be mapped out over time. During Cenozoic times, anomalous uplift and subsidence occurred throughout the North Atlantic region. These vertical motions most likely result from temporal and spatial variations of Iceland Plume activity. Quantifying uplift generated by the convective support of the Iceland Plume enables the extent of the Iceland Plume head to be mapped out. Here, we describe the record of activity of the southern half of the Iceland Plume head, which affected a region encompassing the British Isles, southern Greenland and eastern Canada. This record is based on stratigraphy along the extensional margins which fringe the North Atlantic Ocean. A detailed study has been carried out on the Moray Firth Basin, part of the North Sea rift system, using backstripped well-log data. The effect of tectonic subsidence has been removed from the basement subsidence profiles of 50 wells, enabling anomalous residual uplift and subsidence to be isolated. A transient Paleocene uplift-subsidence event, with a duration of approximately 15 Ma, is recorded throughout the Moray Firth Basin. The magnitude of peak uplift is 150--500 m. This transient uplift event has previously been identified in basins surrounding the British Isles, including the Faroe-Shetland Basin, the Porcupine Basin and the North Viking Graben. The initiating Iceland Plume provided dynamic support to the overlying plate and generated uplift. As the effect of the Iceland Plume in the British Isles region waned, subsidence occurred. These results from subsidence analysis

  11. Stratigraphic architecture of bedrock reference section, Victoria Crater, Meridiani Planum, Mars

    USGS Publications Warehouse

    Edgar, Lauren A.; Grotzinger, John P.; Hayes, Alex G.; Rubin, David M.; Squyres, Steve W.; Bell, James F.; Herkenhoff, Ken E.

    2012-01-01

    The Mars Exploration Rover Opportunity has investigated bedrock outcrops exposed in several craters at Meridiani Planum, Mars, in an effort to better understand the role of surface processes in its geologic history. Opportunity has recently completed its observations of Victoria crater, which is 750 m in diameter and exposes cliffs up to ~15 m high. The plains surrounding Victoria crater are ~10 m higher in elevation than those surrounding the previously explored Endurance crater, indicating that the Victoria crater exposes a stratigraphically higher section than does the Endurance crater; however, Victoria strata overlap in elevation with the rocks exposed at the Erebus crater. Victoria crater has a well-developed geomorphic pattern of promontories and embayments that define the crater wall and that reveal thick bedsets (3–7m) of large-scale cross-bedding, interpreted as fossil eolian dunes. Opportunity was able to drive into the crater at Duck Bay, located on the western margin of Victoria crater. Data from the Microscopic Imager and Panoramic Camera reveal details about the structures, textures, and depositional and diagenetic events that influenced the Victoria bedrock. A lithostratigraphic subdivision of bedrock units was enabled by the presence of a light-toned band that lines much of the upper rim of the crater. In ascending order, three stratigraphic units are named Lyell, Smith, and Steno; Smith is the light-toned band. In the Reference Section exposed along the ingress path at Duck Bay, Smith is interpreted to represent a zone of diagenetic recrystallization; however, its upper contact also coincides with a primary erosional surface. Elsewhere in the crater the diagenetic band crosscuts the physical stratigraphy. Correlation with strata present at nearby promontory Cape Verde indicates that there is an erosional surface at the base of the cliff face that corresponds to the erosional contact below Steno. The erosional contact at the base of Cape Verde

  12. Tectono-stratigraphic analysis of the Malvinas Basin, offshore the southernmost Argentinean continental margin

    NASA Astrophysics Data System (ADS)

    Baristeas, N.; Anka, Z.; di Primio, R.; Rodriguez, J. F.; Marchal, D.; Dominguez, F.

    2012-04-01

    established in the Malvinas Basin during the Paleocene to early Eocene. This period was accompanied by the development of a deep sedimentary trough in the south. Extension was possibly related to the opening of the Drake Passage or to lithospheric flexure and bending. Structures mainly consist of reactivated normal faults, strike-slip faults and some minor reverse faults. The units U5a and U5b (42.5-5.5 and 5.5-0 Ma, transpressional foredeep phase) represent a stratigraphic switch from aggradation to progradation. While on the west of the basin downlapping clinoforms prograding eastwards are present, a northward onlapping wedge is identified in the deeper southern part of the basin. During this time, the sediment supply was considerably higher. The entire basin was filled and the depocenter migrated southeastwards. The tectonic regime changed to compression and later during the Oligocene to transpression, developing a major sinistral transpressional fault in the south of the basin. In summary, the basin developed initially as a Mesozoic rift basin which switches to a foreland basin with a sinistral wrench component and increased sediment input in the south during the Cenozoic.

  13. Work and Programmable Automation.

    ERIC Educational Resources Information Center

    DeVore, Paul W.

    A new industrial era based on electronics and the microprocessor has arrived, an era that is being called intelligent automation. Intelligent automation, in the form of robots, replaces workers, and the new products, using microelectronic devices, require significantly less labor to produce than the goods they replace. The microprocessor thus…

  14. Automation and Cataloging.

    ERIC Educational Resources Information Center

    Furuta, Kenneth; And Others

    1990-01-01

    These three articles address issues in library cataloging that are affected by automation: (1) the impact of automation and bibliographic utilities on professional catalogers; (2) the effect of the LASS microcomputer software on the cost of authority work in cataloging at the University of Arizona; and (3) online subject heading and classification…

  15. Library Automation Style Guide.

    ERIC Educational Resources Information Center

    Gaylord Bros., Liverpool, NY.

    This library automation style guide lists specific terms and names often used in the library automation industry. The terms and/or acronyms are listed alphabetically and each is followed by a brief definition. The guide refers to the "Chicago Manual of Style" for general rules, and a notes section is included for the convenience of individual…

  16. More Benefits of Automation.

    ERIC Educational Resources Information Center

    Getz, Malcolm

    1988-01-01

    Describes a study that measured the benefits of an automated catalog and automated circulation system from the library user's point of view in terms of the value of time saved. Topics discussed include patterns of use, access time, availability of information, search behaviors, and the effectiveness of the measures used. (seven references)…

  17. Educating Archivists for Automation.

    ERIC Educational Resources Information Center

    Weber, Lisa B.

    1988-01-01

    Archivists indicate they want to learn more about automation in archives, the MARC AMC (Archival and Manuscripts Control) format, and emerging computer technologies; they look for educational opportunities through professional associations, publications, and college coursework; future archival automation education needs include standards, shared…

  18. Automation and robotics

    NASA Technical Reports Server (NTRS)

    Montemerlo, Melvin

    1988-01-01

    The Autonomous Systems focus on the automation of control systems for the Space Station and mission operations. Telerobotics focuses on automation for in-space servicing, assembly, and repair. The Autonomous Systems and Telerobotics each have a planned sequence of integrated demonstrations showing the evolutionary advance of the state-of-the-art. Progress is briefly described for each area of concern.

  19. Automation in Immunohematology

    PubMed Central

    Bajpai, Meenu; Kaur, Ravneet; Gupta, Ekta

    2012-01-01

    There have been rapid technological advances in blood banking in South Asian region over the past decade with an increasing emphasis on quality and safety of blood products. The conventional test tube technique has given way to newer techniques such as column agglutination technique, solid phase red cell adherence assay, and erythrocyte-magnetized technique. These new technologies are adaptable to automation and major manufacturers in this field have come up with semi and fully automated equipments for immunohematology tests in the blood bank. Automation improves the objectivity and reproducibility of tests. It reduces human errors in patient identification and transcription errors. Documentation and traceability of tests, reagents and processes and archiving of results is another major advantage of automation. Shifting from manual methods to automation is a major undertaking for any transfusion service to provide quality patient care with lesser turnaround time for their ever increasing workload. This article discusses the various issues involved in the process. PMID:22988378

  20. Automation in immunohematology.

    PubMed

    Bajpai, Meenu; Kaur, Ravneet; Gupta, Ekta

    2012-07-01

    There have been rapid technological advances in blood banking in South Asian region over the past decade with an increasing emphasis on quality and safety of blood products. The conventional test tube technique has given way to newer techniques such as column agglutination technique, solid phase red cell adherence assay, and erythrocyte-magnetized technique. These new technologies are adaptable to automation and major manufacturers in this field have come up with semi and fully automated equipments for immunohematology tests in the blood bank. Automation improves the objectivity and reproducibility of tests. It reduces human errors in patient identification and transcription errors. Documentation and traceability of tests, reagents and processes and archiving of results is another major advantage of automation. Shifting from manual methods to automation is a major undertaking for any transfusion service to provide quality patient care with lesser turnaround time for their ever increasing workload. This article discusses the various issues involved in the process. PMID:22988378

  1. Automation in immunohematology.

    PubMed

    Bajpai, Meenu; Kaur, Ravneet; Gupta, Ekta

    2012-07-01

    There have been rapid technological advances in blood banking in South Asian region over the past decade with an increasing emphasis on quality and safety of blood products. The conventional test tube technique has given way to newer techniques such as column agglutination technique, solid phase red cell adherence assay, and erythrocyte-magnetized technique. These new technologies are adaptable to automation and major manufacturers in this field have come up with semi and fully automated equipments for immunohematology tests in the blood bank. Automation improves the objectivity and reproducibility of tests. It reduces human errors in patient identification and transcription errors. Documentation and traceability of tests, reagents and processes and archiving of results is another major advantage of automation. Shifting from manual methods to automation is a major undertaking for any transfusion service to provide quality patient care with lesser turnaround time for their ever increasing workload. This article discusses the various issues involved in the process.

  2. Stratigraphic record of the Yellowstone hotspot track, Neogene Sixmile Creek Formation grabens, southwest Montana

    NASA Astrophysics Data System (ADS)

    Sears, James W.; Hendrix, Marc S.; Thomas, Robert C.; Fritz, William J.

    2009-11-01

    The Sixmile Creek Formation fills deep grabens in southwest Montana and preserves a stratigraphic record of the evolution of the Yellowstone hotspot track from ~ 17 Ma to ~ 2 Ma. The Ruby, Beaverhead, Big Hole, Deer Lodge, Medicine Lodge-Grasshopper, Three Forks, Canyon Ferry, Jefferson, Melrose, Wise River, and Paradise grabens were active during outbreak of the hotspot. They appear to be parts of a radial system of extensional structures that may have formed on a broad dome that was centered on the hotspot outbreak area in southwest Idaho and southeast Oregon. Early in the evolution of the grabens, massive debris flows surged down Paleogene paleovalleys from uplifted and tilted horst blocks and accumulated in the grabens. The grabens captured runoff from the hotspot dome with thick deposits of river gravel that appear to have been derived, in part, from east-central Idaho. As the hotspot track propagated along the eastern Snake River Plain, silicic ash fell into the graben drainage basins and was reworked into thick fluvial beds along graben axes. The grabens were cross-cut by northwest-trending late Neogene grabens that propagated on the flanks of silicic volcanic centers along the hotspot track. The late Neogene grabens diverted the Middle Miocene drainage patterns in southwest Montana.

  3. Stratigraphic analysis of the carboniferous rocks of the Central Appalachian Basin

    SciTech Connect

    Chesnut, D.R. Jr.

    1988-01-01

    A series of seven cross sections was constructed across part of the Central Appalachian Basin in Kentucky, Tennessee, Virginia, West Virginia, and Ohio. Information used to make these sections included well logs, coal-company core descriptions, measured sections, and mapped surface geology. Newly discovered surface and subsurface structural features such as faults, folds, and flexures, are described. A new, unofficial lithostratigraphic nomenclature was introduced to illustrate the stratigraphic framework, and a regional unconformity was interpreted to occur between the Pennsylvanian Pocahontas Formation and the Pennsylvanian New River Formation. The cross sections reveal that sequential truncation of formations below the unconformity occurs t the northwest in the basin. A regional unconformity and biostratigraphic evidence indicate that the Carboniferous rocks were deposited in a series of several small-scale environmental continua. Pennsylvanian rocks overlying the regional unconformity sequentially overlap the underlying rocks to the northwest in the basin. Belts of quartzose sandstones (Lee Formation) within the overlying rocks, are oriented northeast-southwest. Succeeding sandstone belts onlap the unconformity to the northwest within the basin. A fluvial origin is suggested for the quartzose, conglomeratic sands of the Lee Formation. The source for these sands may have been reworked sediments derived from the Old Red Sandstone continent to the northwest in Canada. The remaining Pennsylvanian coal-bearing clastic rocks (Breathitt Group) were deposited as clastic wedges derived from the east and southeast on coastal lowlands.

  4. Sequence stratigraphic framework of the Upper Jurassic Smackover and related units, western Gulf of Mexico

    SciTech Connect

    Moore, C.H.; Druckman, Y. )

    1991-03-01

    Post-Norphlet Upper Jurassic subsurface rocks of the western Gulf may be divided into four sequences encompassing some 12 million years (Lower Zuni A-4). The transgressive systems tract of the lower sequence (Smackover) consists of laminated muddy carbonate rocks and is the source for upper Jurassic hydrocarbons. The highstand systems tract of the Smackover consists of blanket ooid grainstones deposited on a platform. The Buckner 'B' begins with a siliciclastic lowstand fan ('C' sand). Highstand deposits of the 'B' consist of subaqueous lagoonal evaporites and an ooid grainstone prograding barrier system. Reflux of Buckner brines into Smackover grainstones resulted in regional dolomitization. The Buckner 'A' is similar to the 'B' except that the lagoon is dominated by siliciclastics. The Gray Sands of northern Louisiana may represent a lowstand fan initiating the 'A' sequence. The last sequence (Gilmer) is dominated by siliciclastics in Arkansas and Louisiana and limestones in east Texas. Its highstand systems tract in Texas is ooid dominated and is similar to the Buckner 'B' and 'A.' The regionally extensive Bossier Shale represents the transgressive systems tract of the next major sequence (Cotton Valley). Jurassic hydrocarbon production is controlled by sequence architecture: porosity of Smackover highstand deposits are dominantly secondary, developed by exposure during sea level fall and by dolomitization during the subsequent Buckner 'B' highstand, while Buckner and Gilmer highstand porosity is primary; Smackover traps are structural because of the blanket nature of the highstand system, while Buckner traps are stratigraphic developed in progradational highstand wedges.

  5. The role of integrated high resolution stratigraphic and geophysic surveys for groundwater modelling

    NASA Astrophysics Data System (ADS)

    Margiotta, S.; Mazzone, F.; Negri, S.; Calora, M.

    2008-10-01

    This work sets out a methodology of integrated geological, hydrogeological and geophysical surveys for the characterization of contaminated sites. The flow model of the shallow aquifer in the Brindisi area (recognized to be at significant environmental risk by the Italian government) and the impact of an antrophic structure on the groundwater flow have been evaluated. The stratigraphic and hydrogeological targets used for the calibration phase of the flow model provide a means of assessing calibration quality. The good calibration of the model point out the key role of a detailed knowledge of the physical-stratigraphycal attributes of the area to be studied and field data collection. Geoelectrical tomography focus the attention on an area resulted of particular interest by the flow model obtained. This method permit to reconstruct in detail the lateral and vertical lithological variations in the geological formations improving the spatial resolution of the data and consequently the scale of observation. Besides, anomaly resistivity values have been correlated with pollution. Chemical analysis have confirmed this correlation.

  6. Stratigraphic and geophysical evidence for a Tertiary intrusion near Beaufort, S. C

    SciTech Connect

    McCartan, L.; Gettings, M.E.

    1985-01-01

    A mafic intrusion about 10 km in diameter at 1.5 km depth is indicated by strong positive gravity and magnetic anomalies and a closed structural high is overlying upper Eocene limestone near Beaufort, S.C. Sediments of Oligocene age northeast of Beaufort and of Miocene age to the west and southwest indicate that the Beaufort high divided the Southeast Georgia Embayment into two sub-basins by late Oligocene time. The stratigraphic relations and elevated geothermal gradients suggest an age of 20-30 Ma for the intrusion. Maintenance of the Beaufort high through time despite several marine incursions implies continued uplift, probably due to effects of the intrusion and Tertiary compressional warping. Intrusions with similar geophysical signatures are commonest in the southeast but are also present elsewhere along the Atlantic continental margin. Seismic profiles across the anomalies at the Clubhouse Crossroads deep corehole, 60 km north of Beaufort, show a flat Jurassic reflector, so the intrusive rocks there are Jurassic or older. However, 175 km northeast of Beaufort, a seismic line crossing one of the offshore anomalies shows an intrusion doming up Cenozoic sediments. Substantiation of a Tertiary age for the Beaufort pluton would significantly change the current models of the Tertiary tectonic history of the Southeast Georgia Embayment.

  7. Stratigraphic architecture and depositional history of lower Miocene, Planulina Zone, Southern Louisiana

    SciTech Connect

    Gates, B.C.; Galloway, W.E.

    1988-01-01

    The Planulina zone is a wedge of clastic sediment positioned between the Anahuac shale below and the Oakville sandstone interval above. Planulna sediments were deposited on an erosional surface, during a general rise in the sea level, and formed a retrogradational wedge. Within the study area, the Planulina zone consists of two large depositional complexes: the Mud Lake complex in west Cameron Parish, Louisiana, and the East Cameron complex in east Cameron Parish. The lowermost depositional sequence in the East Cameron complex is preserved in a network of submarine canyons that were eroded into the upper slope. Framework sands were deposited in channel systems confined to the axis of the canyons, and the sands are encased in marine shale containing benthonic foraminifera indicative of an upper to middle slope paleoenvironment. Two younger depositional sequences overlie the submarine canyon facies and were deposited by deltaic systems that prograded basinward. A zone of expansion extends east to west through the Planulina interval and is named the ''Planulina flexure.'' The flexure is a large fault located at the relict shelf edge and soles out downdip inn the Anahuac shale. Several thousand feet of sediment downthrown on the flexure is equivalent to several hundred feet upthrown, and the flexure represented the boundary dividing updip deltaic processes from downdip slope processes during the beginning of Planulina deposition. The Planulina depositional history and stratigraphic architecture are directly related to the displacement along the flexure and the structural deformation of the underlying Anahuac shale.

  8. Preliminary stratigraphic and hydrogeologic cross sections and seismic profile of the Floridan aquifer system of Broward County, Florida

    USGS Publications Warehouse

    Reese, Ronald S.; Cunningham, Kevin J.

    2013-01-01

    To help water-resource managers evaluate the Floridan aquifer system (FAS) as an alternative water supply, the U.S. Geological Survey initiated a study, in cooperation with the Broward County Environmental Protection and Growth Management Department, to refine the hydrogeologic framework of the FAS in the eastern part of Broward County. This report presents three preliminary cross sections illustrating stratigraphy and hydrogeology in eastern Broward County as well as an interpreted seismic profile along one of the cross sections. Marker horizons were identified using borehole geophysical data and were initially used to perform well-to-well correlation. Core sample data were integrated with the borehole geophysical data to support stratigraphic and hydrogeologic interpretations of marker horizons. Stratigraphic and hydrogeologic units were correlated across the county using borehole geophysical data from multiple wells. Seismic-reflection data were collected along the Hillsboro Canal. Borehole geophysical data were used to identify and correlate hydrogeologic units in the seismic-reflection profile. Faults and collapse structures that intersect hydrogeologic units were also identified in the seismic profile. The information provided in the cross sections and the seismic profile is preliminary and subject to revision.

  9. Geomorphologic, stratigraphic and sedimentologic evidences of tectonic activity in Sone-Ganga alluvial tract in Middle Ganga Plain, India

    NASA Astrophysics Data System (ADS)

    Sahu, Sudarsan; Saha, Dipankar

    2014-08-01

    The basement of the Ganga basin in the Himalayan foreland is criss-crossed by several faults, dividing the basin into several sub-blocks forming horsts, grabens, or half-grabens. Tectonic perturbations along basement faults have affected the fluvial regime and extent of sediment fill in different parts of the basin during Late Quaternary. The East Patna Fault (EPF) and the West Patna Fault (WPF), located in Sone-Ganga alluvial tract in the southern marginal parts of Middle Ganga Plain (MGP), have remained tectonically active. The EPF particularly has acted significantly and influenced in evolving the geomorphological landscape and the stratigraphic architecture of the area. The block bounded by the two faults has earlier been considered as a single entity, constituting a half-graben. The present investigation (by morpho-stratigraphic and sedimentologic means) has revealed the existence of yet another fault within the half-graben, referred to as Bishunpur-Khagaul Fault (BKF). Many of the long profile morphological characters (e.g., knick-zone, low width-depth ratio) of the Sone River at its lower reaches can be ascribed to local structural deformation along BKF. These basement faults in MGP lie parallel to each other in NE-SW direction.

  10. Beaufortian stratigraphic plays in the National Petroleum Reserve - Alaska (NPRA)

    USGS Publications Warehouse

    Houseknecht, David W.

    2003-01-01

    The Beaufortian megasequence in the National Petroleum Reserve in Alaska (NPRA) includes Jurassic through lower Cretaceous (Neocomian) strata of the Kingak Shale and the overlying pebble shale unit. These strata are part of a composite total petroleum system involving hydrocarbons expelled from source rocks in three stratigraphic intervals, the Lower Jurassic part of the Kingak Shale, the Triassic Shublik Formation, and the Lower Cretaceous gamma-ray zone (GRZ) and associated strata. The potential for undiscovered oil and gas resources in the Beaufortian megasequence in NPRA was assessed by defining eight plays (assessment units), two in lower Cretaceous (Neocomian) topset seismic facies, four in Upper Jurassic topset seismic facies, one in Lower Jurassic topset seismic facies, and one in Jurassic through lower Cretaceous (Neocomian) clinoform seismic facies. The Beaufortian Cretaceous Topset North Play is estimated to contain between 0 (95-percent probability) and 239 (5-percent probability) million barrels of technically recoverable oil, with a mean (expected value) of 103 million barrels. The Beaufortian Cretaceous Topset North Play is estimated to contain between 0 (95-percent probability) and 1,162 (5-percent probability) billion cubic feet of technically recoverable, nonassociated natural gas, with a mean (expected value) of 405 billion cubic feet. The Beaufortian Cretaceous Topset South Play is estimated to contain between 635 (95-percent probability) and 4,004 (5-percent probability) billion cubic feet of technically recoverable, nonassociated natural gas, with a mean (expected value) of 2,130 billion cubic feet. No technically recoverable oil is assessed in the Beaufortian Cretaceous Topset South Play, as it lies at depths that are entirely in the gas window. The Beaufortian Upper Jurassic Topset Northeast Play is estimated to contain between 2,744 (95-percent probability) and 8,086 (5-percent probability) million barrels of technically recoverable oil

  11. The International Subcommission on Stratigraphic Classification of the International Commission on Stratigraphy: The Knowledge

    NASA Astrophysics Data System (ADS)

    Pratt, Brian

    2014-05-01

    The International Subcommission on Stratigraphic Classification (ISSC) was born in 1955 as an effort to promote awareness of stratigraphic principles and encourage worldwide standardization of stratigraphic approaches and terminology. The first major achievement of ISSC was the 1976 publication of the International Stratigraphic Guide. It was revised in 1994, with an abridged version appearing in 1999. These documents achieved their goals magnificently: cited innumerable times and forming the core of many national stratigraphic codes. As the discipline has evolved, particularly from technological advances and ocean drilling, new tools and methodologies have been developed and these have led to ever finer resolution of geological time and ever more exact correlation of stratigraphic units and events, thereby enhancing the understanding of the genesis of the geological record. Under the leadership of M. B. Cita, ISSC embarked in 2002 on a renewed initiative to disseminate to the global geological community these newer developments, and ultimately incorporate them into a third edition of the Guide. To this aim, traditional and new branches of stratigraphy are being treated: chemostratigraphy, cyclostratigraphy, magnetostratigraphy, lithostratigraphy, sequence stratigraphy, biostratigraphy, and chronostratigraphy. An open-access review paper is dedicated to each and published in Newsletters on Stratigraphy. The next edition of the Guide will be inclusive of all branches of stratigraphy and also embrace igneous and metamorphic rocks. It is envisaged that a textbook on stratigraphy based on these papers and the revised Guide could prove a timely contribution, especially to younger generations of practitioners, and aid global communication and understanding of stratigraphic principles and methods.

  12. Systematic review automation technologies.

    PubMed

    Tsafnat, Guy; Glasziou, Paul; Choong, Miew Keen; Dunn, Adam; Galgani, Filippo; Coiera, Enrico

    2014-07-09

    Systematic reviews, a cornerstone of evidence-based medicine, are not produced quickly enough to support clinical practice. The cost of production, availability of the requisite expertise and timeliness are often quoted as major contributors for the delay. This detailed survey of the state of the art of information systems designed to support or automate individual tasks in the systematic review, and in particular systematic reviews of randomized controlled clinical trials, reveals trends that see the convergence of several parallel research projects.We surveyed literature describing informatics systems that support or automate the processes of systematic review or each of the tasks of the systematic review. Several projects focus on automating, simplifying and/or streamlining specific tasks of the systematic review. Some tasks are already fully automated while others are still largely manual. In this review, we describe each task and the effect that its automation would have on the entire systematic review process, summarize the existing information system support for each task, and highlight where further research is needed for realizing automation for the task. Integration of the systems that automate systematic review tasks may lead to a revised systematic review workflow. We envisage the optimized workflow will lead to system in which each systematic review is described as a computer program that automatically retrieves relevant trials, appraises them, extracts and synthesizes data, evaluates the risk of bias, performs meta-analysis calculations, and produces a report in real time.

  13. Systematic review automation technologies

    PubMed Central

    2014-01-01

    Systematic reviews, a cornerstone of evidence-based medicine, are not produced quickly enough to support clinical practice. The cost of production, availability of the requisite expertise and timeliness are often quoted as major contributors for the delay. This detailed survey of the state of the art of information systems designed to support or automate individual tasks in the systematic review, and in particular systematic reviews of randomized controlled clinical trials, reveals trends that see the convergence of several parallel research projects. We surveyed literature describing informatics systems that support or automate the processes of systematic review or each of the tasks of the systematic review. Several projects focus on automating, simplifying and/or streamlining specific tasks of the systematic review. Some tasks are already fully automated while others are still largely manual. In this review, we describe each task and the effect that its automation would have on the entire systematic review process, summarize the existing information system support for each task, and highlight where further research is needed for realizing automation for the task. Integration of the systems that automate systematic review tasks may lead to a revised systematic review workflow. We envisage the optimized workflow will lead to system in which each systematic review is described as a computer program that automatically retrieves relevant trials, appraises them, extracts and synthesizes data, evaluates the risk of bias, performs meta-analysis calculations, and produces a report in real time. PMID:25005128

  14. Definitive Metabolite Identification Coupled with Automated Ligand Identification System (ALIS) Technology: A Novel Approach to Uncover Structure-Activity Relationships and Guide Drug Design in a Factor IXa Inhibitor Program.

    PubMed

    Zhang, Ting; Liu, Yong; Yang, Xianshu; Martin, Gary E; Yao, Huifang; Shang, Jackie; Bugianesi, Randal M; Ellsworth, Kenneth P; Sonatore, Lisa M; Nizner, Peter; Sherer, Edward C; Hill, Susan E; Knemeyer, Ian W; Geissler, Wayne M; Dandliker, Peter J; Helmy, Roy; Wood, Harold B

    2016-03-10

    A potent and selective Factor IXa (FIXa) inhibitor was subjected to a series of liver microsomal incubations, which generated a number of metabolites. Using automated ligand identification system-affinity selection (ALIS-AS) methodology, metabolites in the incubation mixture were prioritized by their binding affinities to the FIXa protein. Microgram quantities of the metabolites of interest were then isolated through microisolation analytical capabilities, and structurally characterized using MicroCryoProbe heteronuclear 2D NMR techniques. The isolated metabolites recovered from the NMR experiments were then submitted directly to an in vitro FIXa enzymatic assay. The order of the metabolites' binding affinity to the Factor IXa protein from the ALIS assay was completely consistent with the enzymatic assay results. This work showcases an innovative and efficient approach to uncover structure-activity relationships (SARs) and guide drug design via microisolation-structural characterization and ALIS capabilities. PMID:26871940

  15. Discovery of Jurassic ammonite-bearing series in Jebel Bou Hedma (South-Central Tunisian Atlas): Implications for stratigraphic correlations and paleogeographic reconstruction

    NASA Astrophysics Data System (ADS)

    Bahrouni, Néjib; Houla, Yassine; Soussi, Mohamed; Boughdiri, Mabrouk; Ali, Walid Ben; Nasri, Ahmed; Bouaziz, Samir

    2016-01-01

    Recent geological mapping undertaken in the Southern-Central Atlas of Tunisia led to the discovery of Jurassic ammonite-bearing series in the Jebel Bou Hedma E-W anticline structure. These series represent the Southernmost Jurassic rocks ever documented in the outcrops of the Tunisian Atlas. These series which outcrop in a transitional zone between the Southern Tunisian Atlas and the Chott basin offer a valuable benchmark for new stratigraphic correlation with the well-known Jurassic series of the North-South Axis of Central Tunisia and also with the Jurassic subsurface successions transected by petroleum wells in the study area. The preliminary investigations allowed the identification, within the most complete section outcropping in the center of the structure, of numerous useful biochronological and sedimentological markers helping in the establishment of an updated Jurassic stratigraphic framework chart of South-Western Tunisia. Additionally, the Late Jurassic succession documents syn-sedimentary features such as slumping, erosion and reworking of sediments and ammonite faunas that can be considered as strong witnesses of an important geodynamic event around the Jurassic-Cretaceous boundary. These stratigraphic and geodynamic new data make of the Jurassic of Jebel Bou Hedma a key succession for stratigraphic correlation attempt between Atlas Tunisian series and those currently buried in the Chott basin or outcropping in the Saharan platform. Furthermore, the several rich-ammonite identified horizons within the Middle and Upper Jurassic series constitute reliable time lines that can be useful for both paleogeographic and geodynamic reconstructions of this part of the North African Tethyan margin but also in the refinement of the potential migration routes for ammonite populations from the Maghrebian Southern Tethys to Arabia.

  16. To automate or not to automate: this is the question

    PubMed Central

    Cymborowski, M.; Klimecka, M.; Chruszcz, M.; Zimmerman, M. D.; Shumilin, I. A.; Borek, D.; Lazarski, K.; Joachimiak, A.; Otwinowski, Z.; Anderson, W.

    2010-01-01

    New protocols and instrumentation significantly boost the outcome of structural biology, which has resulted in significant growth in the number of deposited Protein Data Bank structures. However, even an enormous increase of the productivity of a single step of the structure determination process may not significantly shorten the time between clone and deposition or publication. For example, in a medium size laboratory equipped with the LabDB and HKL-3000 systems, we show that automation of some (and integration of all) steps of the X-ray structure determination pathway is critical for laboratory productivity. Moreover, we show that the lag period after which the impact of a technology change is observed is longer than expected. PMID:20526815

  17. To automate or not to automate : this is the question.

    SciTech Connect

    Cymborowski, M.; Klimecka, M.; Chruszcz, M.; Zimmerman, M.; Shumilin, I.; Borek, D.; Lazarski, K.; Joachimiak, A.; Otwinowski, Z.; Anderson, W.; Minor, W.; Biosciences Division; Univ. of Virginia; Univ. of Texas; Northwestern Univ.; Univ. of Chicago

    2010-06-06

    New protocols and instrumentation significantly boost the outcome of structural biology, which has resulted in significant growth in the number of deposited Protein Data Bank structures. However, even an enormous increase of the productivity of a single step of the structure determination process may not significantly shorten the time between clone and deposition or publication. For example, in a medium size laboratory equipped with the LabDB and HKL-3000 systems, we show that automation of some (and integration of all) steps of the X-ray structure determination pathway is critical for laboratory productivity. Moreover, we show that the lag period after which the impact of a technology change is observed is longer than expected.

  18. Automation synthesis modules review.

    PubMed

    Boschi, S; Lodi, F; Malizia, C; Cicoria, G; Marengo, M

    2013-06-01

    The introduction of (68)Ga labelled tracers has changed the diagnostic approach to neuroendocrine tumours and the availability of a reliable, long-lived (68)Ge/(68)Ga generator has been at the bases of the development of (68)Ga radiopharmacy. The huge increase in clinical demand, the impact of regulatory issues and a careful radioprotection of the operators have boosted for extensive automation of the production process. The development of automated systems for (68)Ga radiochemistry, different engineering and software strategies and post-processing of the eluate were discussed along with impact of automation with regulations.

  19. Tectono-Stratigraphic framework and Palaeozoic evolution of the Chinese South Tianshan

    NASA Astrophysics Data System (ADS)

    Alexeiev, D. V.; Biske, Yu. S.; Wang, Bo; Djenchuraeva, A. V.; Getman, O. F.; Aristov, V. A.; Kröner, A.; Liu, Hongsheng; Zhong, Linglin

    2015-03-01

    A stratigraphic and structural study was carried out in the central part of the Chinese South Tianshan (STS) within a 50-100 km-wide transect centered on the Dushanzi-Kuqa road (83°-85° E). Our data elucidate the tectonic structure and evolution of the Palaeozoic sedimentary basin, document overthrust structures in the late Carboniferous-early Permian orogenic belt and suggest correlations between the western and eastern segments of the STS in Kyrgyzstan and China. We recognise a series of lithotectonic units in the study area that have different stratigraphic characteristics and were formed within (a) continental margin and slope of the Kazakhstan continent, (b) Turkestan (South Tianshan) ocean, (c) intra-oceanic carbonate sea-mounts, which at least partly evolved on top of an extinct island arc, (d) a back-arc oceanic-crust basin, (e) external deeper marine and internal shallow-marine areas of the Tarim shelf and (f) Tarim craton. The overall structure of the basin was similar within Kyrgyzstan and China. The main distinction of the western areas is a lack of ophiolites on the southern flank of the belt, a poorly expressed arc in the axial part, and a more complicated facial setting of the central area, where carbonate banks were separated by deeper marine depressions with cherty deposits. The eastern sector is defined by a continental arc that evolved on the northern margin of the Tarim craton in the Silurian and became separated from the continent in the latest Silurian-early Devonian. There is also a middle Palaeozoic metamorphic belt on the southern flank of the STS. A pre-Carboniferous unconformity, previously assumed throughout the study area, is only confirmed within the continental massifs of Kazakhstan and Tarim. As in the western areas, the unconformity does not exist within the STS. Continuous sedimentation in the STS occurred from the Early Devonian to the early Bashkirian in marginal parts of the belt and up to Gzhelian age in the axial part

  20. Automated Fabrication Technologies for High Performance Polymer Composites

    NASA Technical Reports Server (NTRS)

    Shuart , M. J.; Johnston, N. J.; Dexter, H. B.; Marchello, J. M.; Grenoble, R. W.

    1998-01-01

    New fabrication technologies are being exploited for building high graphite-fiber-reinforced composite structure. Stitched fiber preforms and resin film infusion have been successfully demonstrated for large, composite wing structures. Other automatic processes being developed include automated placement of tacky, drapable epoxy towpreg, automated heated head placement of consolidated ribbon/tape, and vacuum-assisted resin transfer molding. These methods have the potential to yield low cost high performance structures by fabricating composite structures to net shape out-of-autoclave.

  1. Tectono-stratigraphic evolution and crustal architecture of the Orphan Basin during North Atlantic rifting

    NASA Astrophysics Data System (ADS)

    Gouiza, Mohamed; Hall, Jeremy; Welford, J. Kim

    2016-06-01

    The Orphan Basin is located in the deep offshore of the Newfoundland margin, and it is bounded by the continental shelf to the west, the Grand Banks to the south, and the continental blocks of Orphan Knoll and Flemish Cap to the east. The Orphan Basin formed in Mesozoic time during the opening of the North Atlantic Ocean between eastern Canada and western Iberia-Europe. This work, based on well data and regional seismic reflection profiles across the basin, indicates that the continental crust was affected by several extensional episodes between the Jurassic and the Early Cretaceous, separated by events of uplift and erosion. The preserved tectono-stratigraphic sequences in the basin reveal that deformation initiated in the eastern part of the Orphan Basin in the Jurassic and spread towards the west in the Early Cretaceous, resulting in numerous rift structures filled with a Jurassic-Lower Cretaceous syn-rift succession and overlain by thick Upper Cretaceous to Cenozoic post-rift sediments. The seismic data show an extremely thinned crust (4-16 km thick) underneath the eastern and western parts of the Orphan Basin, forming two sub-basins separated by a wide structural high with a relatively thick crust (17 km thick). Quantifying the crustal architecture in the basin highlights the large discrepancy between brittle extension localized in the upper crust and the overall crustal thinning. This suggests that continental deformation in the Orphan Basin involved, in addition to the documented Jurassic and Early Cretaceous rifting, an earlier brittle rift phase which is unidentifiable in seismic data and a depth-dependent thinning of the crust driven by localized lower crust ductile flow.

  2. Fully automated segmentation of cartilage from the MR images of knee using a multi-atlas and local structural analysis method

    PubMed Central

    Lee, June-Goo; Gumus, Serter; Moon, Chan Hong; Kwoh, C. Kent; Bae, Kyongtae Ty

    2014-01-01

    Purpose: To develop a fully automated method to segment cartilage from the magnetic resonance (MR) images of knee and to evaluate the performance of the method on a public, open dataset. Methods: The segmentation scheme consisted of three procedures: multiple-atlas building, applying a locally weighted vote (LWV), and region adjustment. In the atlas building procedure, all training cases were registered to a target image by a nonrigid registration scheme and the best matched atlases selected. A LWV algorithm was applied to merge the information from these atlases and generate the initial segmentation result. Subsequently, for the region adjustment procedure, the statistical information of bone, cartilage, and surrounding regions was computed from the initial segmentation result. The statistical information directed the automated determination of the seed points inside and outside bone regions for the graph-cut based method. Finally, the region adjustment was conducted by the revision of outliers and the inclusion of abnormal bone regions. Results: A total of 150 knee MR images from a public, open dataset (available atwww.ski10.org) were used for the development and evaluation of this approach. The 150 cases were divided into the training set (100 cases) and the test set (50 cases). The cartilages were segmented successfully in all test cases in an average of 40 min computation time. The average dice similarity coefficient was 71.7% ± 8.0% for femoral and 72.4% ± 6.9% for tibial cartilage. Conclusions: The authors have developed a fully automated segmentation program for knee cartilage from MR images. The performance of the program based on 50 test cases was highly promising. PMID:25186408

  3. Automated fiber placement: Evolution and current demonstrations

    NASA Technical Reports Server (NTRS)

    Grant, Carroll G.; Benson, Vernon M.

    1993-01-01

    The automated fiber placement process has been in development at Hercules since 1980. Fiber placement is being developed specifically for aircraft and other high performance structural applications. Several major milestones have been achieved during process development. These milestones are discussed in this paper. The automated fiber placement process is currently being demonstrated on the NASA ACT program. All demonstration projects to date have focused on fiber placement of transport aircraft fuselage structures. Hercules has worked closely with Boeing and Douglas on these demonstration projects. This paper gives a description of demonstration projects and results achieved.

  4. Monitoring of the physical status of Mars-500 subjects as a model of structuring an automated system in support of the training process in an exploration mission

    NASA Astrophysics Data System (ADS)

    Fomina, Elena; Savinkina, Alexandra; Kozlovskaya, Inesa; Lysova, Nataliya; Angeli, Tomas; Chernova, Maria; Uskov, Konstantin; Kukoba, Tatyana; Sonkin, Valentin; Ba, Norbert

    Physical training sessions aboard the ISS are performed under the permanent continuous control from Earth. Every week the instructors give their recommendations on how to proceed with the training considering the results of analysis of the daily records of training cosmonauts and data of the monthly fitness testing. It is obvious that in very long exploration missions this system of monitoring will be inapplicable. For this reason we venture to develop an automated system to control the physical training process using the current ISS locomotion test parameters as the leading criteria. Simulation of an extended exploration mission in experiment MARS-500 enabled the trial application of the automated system for assessing shifts in cosmonauts’ physical status in response to exercises of varying category and dismissal periods. Methods. Six subjects spent 520 days in the analog of an interplanetary vehicle at IBMP (Moscow). A variety of training regimens and facilities were used to maintain a high level of physical performance of the subjects. The resistance exercises involved expanders, strength training device (MDS) and vibrotraining device (Galileo). The cycling exercises were performed on the bicycle ergometer (VB-3) and a treadmill with the motor in or out of motion. To study the effect of prolonged periods of dismissal from training on physical performance, the training flow was interrupted for a month once in the middle and then at the end of isolation. In addition to the in-flight locomotion test integrated into the automated training control system, the physical status of subjects was attested by analysis of the records of the monthly incremental testing on the bicycle ergometer and MDS. Results. It was demonstrated that the recommended training regimens maintained high physical performance levels despite the limited motor activities in isolation. According to the locomotion testing, the subjects increased velocity significantly and reduced the physiological

  5. Automated Lattice Perturbation Theory

    SciTech Connect

    Monahan, Christopher

    2014-11-01

    I review recent developments in automated lattice perturbation theory. Starting with an overview of lattice perturbation theory, I focus on the three automation packages currently "on the market": HiPPy/HPsrc, Pastor and PhySyCAl. I highlight some recent applications of these methods, particularly in B physics. In the final section I briefly discuss the related, but distinct, approach of numerical stochastic perturbation theory.

  6. Automated Pilot Advisory System

    NASA Technical Reports Server (NTRS)

    Parks, J. L., Jr.; Haidt, J. G.

    1981-01-01

    An Automated Pilot Advisory System (APAS) was developed and operationally tested to demonstrate the concept that low cost automated systems can provide air traffic and aviation weather advisory information at high density uncontrolled airports. The system was designed to enhance the see and be seen rule of flight, and pilots who used the system preferred it over the self announcement system presently used at uncontrolled airports.

  7. Automated Status Notification System

    NASA Technical Reports Server (NTRS)

    2005-01-01

    NASA Lewis Research Center's Automated Status Notification System (ASNS) was born out of need. To prevent "hacker attacks," Lewis' telephone system needed to monitor communications activities 24 hr a day, 7 days a week. With decreasing staff resources, this continuous monitoring had to be automated. By utilizing existing communications hardware, a UNIX workstation, and NAWK (a pattern scanning and processing language), we implemented a continuous monitoring system.

  8. Stratigraphic relations and hydrologic properties of the Paintbrush Tuff (PTn) hydrologic unit, Yucca Mountain, Nevada

    SciTech Connect

    Moyer, T.C.; Geslin, J.K.; Flint, L.E.

    1996-08-01

    Yucca Mountain is being investigated as a potential site for a high- level nuclear waste repository. The intent of this study was to clarify stratigraphic relations within the Paintbrush Tuff (PTn) unit at Yucca Mountain in order to better understand vertical and lateral variations in hydrologic properties as they relate to the lithologic character of these rocks. This report defines informal stratigraphic units within the PTn interval, demonstrates their lateral continuity in the Yucca Mountain region, describes later and vertical variations within them, and characterizes their hydrologic properties and importance to numerical flow and transport models. We present tables summarizing the depth to stratigraphic contacts in cored borehole studies, and unit descriptions and correlations in 10 measured sections.

  9. Stratigraphic and palaeoenvironmental summary of the south-east Georgia Embayment: a correlation of exploratory wells

    USGS Publications Warehouse

    Poppe, L.J.; Popenoe, P.; Poag, C.W.; Swift, B.A.

    1995-01-01

    A Continental Offshore Stratigraphic Test (COST) well and six exploratory wells have been drilled in the south-east Georgia embayment. The oldest rocks penetrated are weakly metamorphosed Lower Ordovician quartz arenites and Silurian shales and argillites in the Transco 1005-1 well and Upper Devonian argillites in the COST GE-1 well. The Palaeozoic strata are unconformably overlain by interbedded non-marine Jurassic sandstones and shales and marginal marine Lower Cretaceous rocks. Together, these rocks are stratigraphically equivalent to the onshore Fort Pierce and Cotton Valley(?) Formations and rocks of the Lower Cretaceous Comanchean Provincial Series. The Upper Cretaceous part of the section is composed mainly of neritic calcareous shales and shaley limestones stratigraphically equivalent to the primarily marginal marine facies of the onshore Atkinson, Cape Fear and Middendorf Formations and Black Creek Group, and to limestones and shales of the Lawson Limestone and Peedee Formations. Cenozoic strata are also described. -from Authors

  10. Automated Groundwater Screening

    SciTech Connect

    Taylor, Glenn A.; Collard, Leonard, B.

    2005-10-31

    The Automated Intruder Analysis has been extended to include an Automated Ground Water Screening option. This option screens 825 radionuclides while rigorously applying the National Council on Radiation Protection (NCRP) methodology. An extension to that methodology is presented to give a more realistic screening factor for those radionuclides which have significant daughters. The extension has the promise of reducing the number of radionuclides which must be tracked by the customer. By combining the Automated Intruder Analysis with the Automated Groundwater Screening a consistent set of assumptions and databases is used. A method is proposed to eliminate trigger values by performing rigorous calculation of the screening factor thereby reducing the number of radionuclides sent to further analysis. Using the same problem definitions as in previous groundwater screenings, the automated groundwater screening found one additional nuclide, Ge-68, which failed the screening. It also found that 18 of the 57 radionuclides contained in NCRP Table 3.1 failed the screening. This report describes the automated groundwater screening computer application.

  11. Automated imagery orthorectification pilot

    NASA Astrophysics Data System (ADS)

    Slonecker, E. Terrence; Johnson, Brad; McMahon, Joe

    2009-10-01

    Automated orthorectification of raw image products is now possible based on the comprehensive metadata collected by Global Positioning Systems and Inertial Measurement Unit technology aboard aircraft and satellite digital imaging systems, and based on emerging pattern-matching and automated image-to-image and control point selection capabilities in many advanced image processing systems. Automated orthorectification of standard aerial photography is also possible if a camera calibration report and sufficient metadata is available. Orthorectification of historical imagery, for which only limited metadata was available, was also attempted and found to require some user input, creating a semi-automated process that still has significant potential to reduce processing time and expense for the conversion of archival historical imagery into geospatially enabled, digital formats, facilitating preservation and utilization of a vast archive of historical imagery. Over 90 percent of the frames of historical aerial photos used in this experiment were successfully orthorectified to the accuracy of the USGS 100K base map series utilized for the geospatial reference of the archive. The accuracy standard for the 100K series maps is approximately 167 feet (51 meters). The main problems associated with orthorectification failure were cloud cover, shadow and historical landscape change which confused automated image-to-image matching processes. Further research is recommended to optimize automated orthorectification methods and enable broad operational use, especially as related to historical imagery archives.

  12. Stratigraphic evidence from the Appalachian Basin for continuation of the Taconian orogeny into Early Silurian time

    NASA Astrophysics Data System (ADS)

    Ettensohn, Frank R.; Brett, Carlton E.

    2002-01-01

    Traditional interpretations of the Appalachian Basin during Silurian time suggest a period of tectonic stability between Taconian and Acadian orogenies. However, recent interpretations of evidence from deformation and igneous sources in the northern Appalachians indicate Silurian tectonism centered on and near the St. Lawrence promontory and that this tectonism probably effected sedimentation in parts of the Appalachian Basin during much of Silurian time. Of special interest is the tectonism that extended from latest Ordovician into Early Silurian time and the nature of its relationships with known orogenic events. Although evidence and interpretations from deformation and igneous sources have become increasingly well established, there has been little support from the stratigraphic record. Now, however, criteria based on the implications of flexural models, namely the nature and distribution of unconformities, the presence of flexural stratigraphic sequences, and the distribution in time and space of dark-shale-filled foreland basins, provide stratigraphic evidence from the Appalachian Basin that supports Early Silurian (Medinan; early Llandoverian) tectonism related to Taconian orogeny. In particular, the distribution and local angularity of the Ordovician-Silurian or Cherokee unconformity suggest major tectonic influence and a latest Ordovician to Early Silurian inception for that tectonism. An overlying flexural stratigraphic sequence represented by the Lower Silurian Medina Group and the presence of a dark-shale-filled foreland basin reflected by the Power Glen-lower Cabot Head shales support interpretations of flexural subsidence related to deformational loading. Moreover, the distribution in space and time of the foreland basin containing these shales indicates that the basin is more likely a continuation of the northwestwardly shifting trend of earlier Taconian basins than that of later Salinic basins. Although the kinematic regime may be different from

  13. The Implications of Stratigraphic Compatibility for Character Integration among Fossil Taxa.

    PubMed

    Wagner, Peter J; Estabrook, George F

    2015-09-01

    Two characters are stratigraphically compatible if some phylogenies indicate that their combinations (state-pairs) evolved without homoplasy and in an order consistent with the fossil record. Simulations assuming independent character change indicate that we expect approximately 95% of compatible character pairs to also be stratigraphically compatible over a wide range of sampling regimes and general evolutionary models. However, two general models of rate heterogeneity elevate expected stratigraphic incompatibility: "early burst" models, where rates of change are higher among early members of a clade than among later members of that clade, and "integration" models, where the evolution of characters is correlated in some manner. Both models have important theoretical and methodological implications. Therefore, we examine 259 metazoan clades for deviations from expected stratigraphic compatibility. We do so first assuming independent change with equal rates of character change through time. We then repeat the analysis assuming independent change with separate "early" and "late" rates (with "early" = the first third of taxa in a clade), with the early and late rates chosen to maximize the probability of the observed compatibility among the early taxa and then the whole clade. We single out Cambrian trilobites as a possible "control" group because morphometric studies suggest that integration patterns are not conserved among closely related species. Even allowing for early bursts, we see excess stratigraphic incompatibility (i.e., negative deviations) in significantly more clades than expected at 0.50, 0.25, and 0.05 [Formula: see text] values. This pattern is particularly strong in chordates, echinoderms, and arthropods. However, stratigraphic compatibility among Cambrian trilobites matches the expectations of integration studies, as they (unlike post-Cambrian trilobites) do not deviate from the expectations of independent change with no early bursts. Thus, these

  14. Identification and Mapping of the Edwards Stratigraphic Sequence in the State of Chihuahua Assisted by ten ArcMap Based Layers

    NASA Astrophysics Data System (ADS)

    Martinez-Pina, C.; Granados, A.; Goodell, P.

    2007-05-01

    Edwards Formation is a reef limestone that hosts one of the largest aquifers of the State of Texas. In 2004 the United States and Mexico signed an agreement intended to characterize and identify the shared binational underground resources. Texas Water Development Board Report 360 established for the Edwards Aquifer an area of more than 31,000 km2, half of which is in the State of Coahuila, Mexico (the agreement did not include the State of Chihuahua). This led to the idea that Chihuahua may also have hydrologic potential in the Edwards equivalent, where numerous large cavern systems are already recognized (Naica's Sword Cavern, and the Coyame, Nombre de Dios and Bocagrande Caverns). The objective of this study is to establish the existence, in the State of Chihuahua, of the stratigraphic sequence and geohydrologic properties such as faulting, sinkholes, and springs, within the Edwards equivalent. The Consejo de Recursos Minerales geologic map, INEGI's hydrologic study, petroleum, mining and hydrogeology studies of Chihuahua, and many others, constitute the database used. ArcMap is used to define the geologic framework and construct different thematic layers (structural, lithological, hydrological) that would aid in the identification of the stratigraphic sequence. The results show that all the Edwards Stratigraphic Sequence (ESS) exists in Chihuahua; that there are isolated areas of groundwater production in eastern Chihuahua possibly from ESS but this is not well established. Overall the ESS presents an unusual opportunity as a potentially productive aquifer in the State of Chihuahua.

  15. A simple high-precision Jacob's staff design for the high-resolution stratigrapher

    USGS Publications Warehouse

    Elder, W.P.

    1989-01-01

    The new generation of high-resolution stratigraphic research depends upon detailed bed-by-bed analysis to enhance regional correlation potential. The standard Jacob's staff is not an efficient and precise tool for measuring thin-bedded strata. The high-precision Jacob's staff design presented and illustrated in this paper meets the qualifications required of such an instrument. The prototype of this simple design consists of a sliding bracket that holds a Brunton-type compass at right angles to a ruled-off staff. This instrument provides rapid and accurate measurement of both thick- or thin-bedded sequences, thus decreasing field time and increasing stratigraphic precision. -Author

  16. Stratigraphic Profiles for Selected Hanford Site Seismometer Stations and Other Locations

    SciTech Connect

    Last, George V.

    2014-02-01

    Stratigraphic profiles were constructed for eight selected Hanford Site seismometer stations, five Hanford Site facility reference locations, and seven regional three-component broadband seismometer stations. These profiles provide interpretations of the subsurface layers to support estimation of ground motions from past earthquakes, and the prediction of ground motions from future earthquakes. In most cases these profiles terminated at the top of the Wanapum Basalt, but at selected sites profiles were extended down to the top of the crystalline basement. The composite one-dimensional stratigraphic profiles were based primarily on previous interpretations from nearby boreholes, and in many cases the nearest deep borehole is located kilometers away.

  17. CABFAC/USGS, a FORTRAN program for Q-mode factor analysis of stratigraphically ordered samples

    USGS Publications Warehouse

    Adams, David P.

    1976-01-01

    This program is a revision of the CABFAC program of Kovan and Imbrie (1971) which incorporates the following improvements: each factor is plotted against depth on the printer; samples are ordered stratigraphically by the program, so that input data need not be ordered stratigraphically; an option has been added to transform all variables to zero means before calculating the cosine-theta matrix; and all subroutines are variable-dimensioned, so that the size of .the program may be changed by simply altering the main program.

  18. A preliminary guidebook for identifying stratigraphic contacts at the Nevada Test Site

    SciTech Connect

    Pawloski, G.A.; McKague, H.L.; Wagoner, J.L.; McKinnis, W.B.

    1992-01-01

    Lithologic variation, regional depositional trends, and the lack of written guidelines have resulted in inconsistencies in the recognition of stratigraphic contacts in drill holes at the Nevada Test Site (NTS). Stratigraphic identification, based on mineralogy of discrete samples, can be augmented by geophysical logs and downhole movies to more accurately and consistently locate contacts between units. Criteria are established for locating the base of the Pahute Mesa ash-flow tuff, the top of the Ammonia Tanks ash-flow tuff, the top of the Ammonia Tanks bedded tuff, and the top and the base of the Rainier Mesa Tuff.

  19. Desperately Seeking Authority Control: Automated Systems Are Not Providing It.

    ERIC Educational Resources Information Center

    Johnston, Sarah Hager

    1990-01-01

    Reports on a survey which assessed automated authority control capabilities of 18 vendors' automated library systems, software, or services. Graphs rank vendors according to overall score, authority record source, format/storage of authority records, database dynamics, matching/linking authority and bibliographic records, syndetic structure,…

  20. Morphological changes in the Jurassic and Cretaceous radiolarians (Nassellaria) at different stratigraphic levels

    NASA Astrophysics Data System (ADS)

    Vishnevskaya, Valentina

    2014-05-01

    Analysis of the geographic and stratigraphic distribution of the genera most famous in the Jurassic - Early Cretaceous family Parvicingulidae Pessagno, 1977 (Rhaetian-Barremian) radiolarians (Nassellaria), which consists of up to 200 species, 17 genera, showed that if high conical its representatives with belt-like cameras and apical horn (Parvicingula, Proparvicingula, Praeparvicingula, Atalantria, Canelonus, Elodium, Darvelus, Nitrader) come from the Pacific paleogeographic province (Vishnevskaya, 2011), and had occupied the Boreal and the Notal (Antarctic-related) regions, the other genera (Mirifusus, Ristola, Tethysetta, Caneta, Svinitzium, Pseudocrolanium, Wrangelium) had a preferential distribution in the Tethyan region and their occurrence associated with temperature optima - beginning of Sinemurian, Aalenian, late Kimmeridgian-Valanginian (Vishnevskaya, 2012), while the extinction coincided with the cooling at the end of the Aptian-Albian. An archaic cyrtids appeared at the beginning of the Jurassic - family Bagotidae Pessagno et Whalen, 1982 (Hettangian-Tithonian), 9 genera, 6 of whom died in the early Toarcian and family Hsuidae Pessagno et Whalen, 1982 (Hettangian-Albian), 10 genera, 6 of which had arisen in the Pliensbachian and evolved rapidly due to a sharp increase in the number of segments, while the Middle Jurassic subspherical morphotypes extinct in the late Callovian. Family Archaeodictyomitridae Pessagno, 1977, 8 genera, which probably gave rise to the modern cyrtids appeared in Hettangian and died in the early Paleocene. The evolution of Cretaceous morphotypes took place due to increasing of the number of divisions. Analysis of the stratigraphic distribution of the genera of cosmopolitan family Xitidae Pessagno, 1977 (Bajocian-Eocene) showed that it includes 13 genera, 11 of which appeared in the Cretaceous. The rapid evolution in the Cretaceous due to short-lived genera Foremanina Empson-Morin (Campanian), Novixitus Pessagno and Tuguriella O

  1. Approaches to automated protein crystal harvesting

    PubMed Central

    Deller, Marc C.; Rupp, Bernhard

    2014-01-01

    The harvesting of protein crystals is almost always a necessary step in the determination of a protein structure using X-ray crystallographic techniques. However, protein crystals are usually fragile and susceptible to damage during the harvesting process. For this reason, protein crystal harvesting is the single step that remains entirely dependent on skilled human intervention. Automation has been implemented in the majority of other stages of the structure-determination pipeline, including cloning, expression, purification, crystallization and data collection. The gap in automation between crystallization and data collection results in a bottleneck in throughput and presents unfortunate opportunities for crystal damage. Several automated protein crystal harvesting systems have been developed, including systems utilizing microcapillaries, microtools, microgrippers, acoustic droplet ejection and optical traps. However, these systems have yet to be commonly deployed in the majority of crystallography laboratories owing to a variety of technical and cost-related issues. Automation of protein crystal harvesting remains essential for harnessing the full benefits of fourth-generation synchrotrons, free-electron lasers and microfocus beamlines. Furthermore, automation of protein crystal harvesting offers several benefits when compared with traditional manual approaches, including the ability to harvest microcrystals, improved flash-cooling procedures and increased throughput. PMID:24637746

  2. Approaches to automated protein crystal harvesting.

    PubMed

    Deller, Marc C; Rupp, Bernhard

    2014-02-01

    The harvesting of protein crystals is almost always a necessary step in the determination of a protein structure using X-ray crystallographic techniques. However, protein crystals are usually fragile and susceptible to damage during the harvesting process. For this reason, protein crystal harvesting is the single step that remains entirely dependent on skilled human intervention. Automation has been implemented in the majority of other stages of the structure-determination pipeline, including cloning, expression, purification, crystallization and data collection. The gap in automation between crystallization and data collection results in a bottleneck in throughput and presents unfortunate opportunities for crystal damage. Several automated protein crystal harvesting systems have been developed, including systems utilizing microcapillaries, microtools, microgrippers, acoustic droplet ejection and optical traps. However, these systems have yet to be commonly deployed in the majority of crystallography laboratories owing to a variety of technical and cost-related issues. Automation of protein crystal harvesting remains essential for harnessing the full benefits of fourth-generation synchrotrons, free-electron lasers and microfocus beamlines. Furthermore, automation of protein crystal harvesting offers several benefits when compared with traditional manual approaches, including the ability to harvest microcrystals, improved flash-cooling procedures and increased throughput. PMID:24637746

  3. Reconstructing the geomorphic history of Liang Bua, Flores, Indonesia: a stratigraphic interpretation of the occupational environment.

    PubMed

    Westaway, K E; Sutikna, T; Saptomo, W E; Jatmiko; Morwood, M J; Roberts, R G; Hobbs, D R

    2009-11-01

    Liang Bua, in Flores, Indonesia, was formed as a subterranean chamber over 600ka. From this time to the present, a series of geomorphic events influenced the structure of the cave and cave deposits, creating a complex stratigraphy. Within these deposits, nine main sedimentary units have been identified. The stratigraphic relationships between these units provide the evidence needed to reconstruct the geomorphic history of the cave. This history was dominated by water action, including slope wash processes, channel formation, pooling of water, and flowstone precipitation, which created waterfalls, cut-and-fill stratigraphy, large pools of water, and extensive flowstone cappings. The reconstructed sequence of events over the last 190k.yr. has been summarized by a series of time slices that demonstrate the nature of the occupational environment in Liang Bua. The earliest artifacts at the site, dated to approximately 190ka, testify to hominin presence in the area, but the reconstructions suggest that occupation of the cave itself may not have been possible until after approximately 100ka. At approximately 95ka, channel erosion of a basal unit, which displays evidence of deposition in a pond environment, created a greater relief on the cave floor, and formed remanent areas of higher ground that later became a focus for hominin occupation from 74-61ka by the west wall and in the center of the cave, and from approximately 18-17ka by the east wall. These zones have been identified according to the sloping nature of the stratigraphy and the distribution of artifacts, and their locations have implications for the archaeological interpretation of the site. PMID:19269678

  4. Reconstructing the geomorphic history of Liang Bua, Flores, Indonesia: a stratigraphic interpretation of the occupational environment.

    PubMed

    Westaway, K E; Sutikna, T; Saptomo, W E; Jatmiko; Morwood, M J; Roberts, R G; Hobbs, D R

    2009-11-01

    Liang Bua, in Flores, Indonesia, was formed as a subterranean chamber over 600ka. From this time to the present, a series of geomorphic events influenced the structure of the cave and cave deposits, creating a complex stratigraphy. Within these deposits, nine main sedimentary units have been identified. The stratigraphic relationships between these units provide the evidence needed to reconstruct the geomorphic history of the cave. This history was dominated by water action, including slope wash processes, channel formation, pooling of water, and flowstone precipitation, which created waterfalls, cut-and-fill stratigraphy, large pools of water, and extensive flowstone cappings. The reconstructed sequence of events over the last 190k.yr. has been summarized by a series of time slices that demonstrate the nature of the occupational environment in Liang Bua. The earliest artifacts at the site, dated to approximately 190ka, testify to hominin presence in the area, but the reconstructions suggest that occupation of the cave itself may not have been possible until after approximately 100ka. At approximately 95ka, channel erosion of a basal unit, which displays evidence of deposition in a pond environment, created a greater relief on the cave floor, and formed remanent areas of higher ground that later became a focus for hominin occupation from 74-61ka by the west wall and in the center of the cave, and from approximately 18-17ka by the east wall. These zones have been identified according to the sloping nature of the stratigraphy and the distribution of artifacts, and their locations have implications for the archaeological interpretation of the site.

  5. Stratigraphic, lithologic, and major element geochemical constraints on magmatic evolution at Lassen volcanic center, California

    SciTech Connect

    Clynne, M.A. )

    1990-11-10

    The evolution of the Lassen volcanic center is described in three stages. Stages 1 and 2 comprise the Brokeoff volcano, and 80 km{sup 3} andesitic stratocone, active from 600 to 400 ka. Brokeoff volcano is compositionally equivalent to the regional basaltic andesite to andesite volcanism in the Lassen region and is the result of structurally controlled focusing of the diffuse regional magic magmatism. Stage 3 comprises a silicic dome field and adjacent area of hybrid andesites and has a total volume of about 100 km{sup 3}. Volcanism during stage III was episodic and is subdivided into four sequences of lithologically and temporarily distinct lavas. Stage 3 began at 400 ka with a rhyolitic, caldera-forming pyroclastic eruption and chemically related lavas. Additional sequences of dacite erupted between 250-200 ka and 100-0 ka. Hybrid andesites erupted adjacent to the silicic dome field between 300 and 0 ka. Porphyritic andesite and dacite with high Al{sub 2}O{sub 3}, low TiO{sub 2}, medium K{sub 2}O and FeO/MgO ratios of 1.5-2.0 are the most abundant rock types in the Lassen volcanic center. However, the single most voluminous unit is sparsely phyric rhyolite pumice. Although major element variation can be modeled by fractional crystallization, petrographic and stratigraphic evidence indicates that magma mixing is an important but subtle process in Brokeoff lavas and suggests that lavas evolved in small independent batches. Disequilibrium mineral assemblages in the stage 3 lavas indicate that they are not directly derived from Brokeoff andesite by fractional crystallization. Mixing of silicic magma with regional mafic magma and disaggregation of andesite quenched magmatic inclusions play dominant roles in the compositional diversity of stage 3 lavas.

  6. Classical seismic sequence stratigraphic interpretation of intraslope basin fill: Deepwater Nigeria

    SciTech Connect

    Duncan, E.A.

    1995-08-01

    Detailed interpretation of seismic facies patterns performed within the workstation environment provides an observation based methodology for constructing depositional models of turbidite and other reservoir bearing systems expected in deepwater Nigeria. The increased fidelity of the workstation allows greater detail and accuracy to be imposed onto depositional model construction by vastly improving the discrimination of depositional from structural seismic reflection geometries. In deepwater Nigeria interslope basins, depositional cyclicity is clearly indicated by vertical seismic facies successions in the same way as can be recognized in bed thickness trends from outcrop or well log data. The recognition of the seismic facies successions appears to break the stratigraphy into at least fourth and fifth order scale sequences. Highly {open_quotes}zoomed{close_quotes} instantaneous phase displays enhance the reflection character so that near outcrop scale (resolution less than 50 mters) interpretations of depositional facies can be made. Common seismic facies and geologic interpretation include: (1) low angle erosional surfaces as channel scour or mass wasting detachment; (2) low relief mounds, often in compensation cycle overlapping stacks reflecting compacted channelbelt fill; (3) unidirectional, low angle clinoform sets suggesting laterial accretion within a channel belt or possible contourite mounds; (4) abrupt, shingled blocks illustrating tilted fault blocks of small scale intraformation slumping; and (5) high reflection amplitude and continuous, parallel reflections of pelagic and hemipelagic condensed sections. There are other subtle seismic facies resolvable given the incraesed fidelity of the workstation interpretation. Mapping and translation of these geometries into more robust stratigraphic predictions should have positive impact on exploration and development success.

  7. Improving Acceptance of Automated Counseling Procedures.

    ERIC Educational Resources Information Center

    Johnson, James H.; And Others

    This paper discusses factors that may influence the acceptance of automated counseling procedures by the military. A consensual model of the change process is presented which structures organizational readiness, the change strategy, and acceptance as integrated variables to be considered in a successful installation. A basic introduction to the…

  8. Tectono-stratigraphic evolution of the northeastern Pyrenean Foreland Basin

    NASA Astrophysics Data System (ADS)

    Christophoul, Frédéric; Ford, Mary; Grool, Arjan; Géraldine, Rougier; Louis, Hemmer

    2016-04-01

    The Aquitaine basin, on the northern flank of the Pyrenees was subject to intense hydrocarbon exploration until the 1990's, generating a huge dataset that has been under-exploited until now. In the framework of the French Pyramid ANR project this dataset was used, together with new field data, to reconstruct the evolution of this retroforeland basin. This study focuses on the eastern retroforeland, from the Corbières to east to the Toulouse Fault to the west. In terms of age, the main depocentres are however contemporary along the whole eastern basin: 1) From Upper Cretaceous to Paleocene (Campanian to Selandian) the early foreland basin, known as the "Flysch Trough", was filled by a succession of turbidites passing upward into fluvial sediments that prograded axially from the east. 2) From Thanetian to Oligocene, a second cycle started with a deepening upward trend until the Ypresian (inner carbonate platform to mixed open marine) and changed to a shallowing upward succession, passing from open marine sediments, coastal clastic deposits and then to coarse fluvial deposits from Upper Ypresian to Oligocene. Progradation was again initially axial from the east. However, a new south to north fluvial drainage developed from the emerging relief of the Pyrenees to the south. In terms of location and structural style of these depocentres, the salt-free eastern basin (from the Corbières in the east to the Toulouse Fault to the west) reveals a distinctive style to the salt-rich western basin. In eastern foreland (Corbières to Aude Valley), syntectonic depocentres migrated north as a series of wedge-top basins between Late Cretaceous and Late Eocene. The thick-skinned syn-sedimentary foreland structures progressively die out westward. In the western part of the study area (Plantaurel to Petites Pyrenees) stacked depocentres of the same age are preserved in the footwall of the North Pyrenean Frontal thrust recording a slower northward migration associated with a northward

  9. Chert horizons as time-stratigraphic markers in Ordovician and Silurian of eastern Great Basin

    SciTech Connect

    Cameron, G.J.

    1986-08-01

    Data from numerous measured sections show that distinct chert horizons occur at or near the same stratigraphic intervals in a number of Ordovician and Silurian dolomite sequences in the eastern Great basin of Nevada and Utah. In many cases a shallow-water origin for the chert is inferred because of silicified shelfal fauna and lack of deeper water indicators. The cherty intervals appear to transgress across environmentally controlled lithologic boundaries. This fact, coupled with the regional extent of the chert, suggests that these intervals can be used as time-stratigraphic marker horizons. This concept is useful in assessing the degree of stratigraphic thinning of Upper Silurian strata along a regional unconformity. Although chert is almost ubiquitously present in certain stratigraphic intervals, the abundance of chert-bearing horizons within an individual section varies. By contouring the abundance of chert-bearing intervals within the Silurian system, a well-defined pattern is documented that increases in abundance to the northeast toward the northwestern corner of Utah. The ratio of chert to dolomite within the intervals increases correspondingly. It is suggested that the chert is the result of silica supersaturation from the settling of wind-blow volcanic ash on the Silurian epicontinental sea. The distribution of the chert was largely a function of paleowind currents from an easterly or northerly active volcanic source area.

  10. Inorganic geochemistry of Devonian shales in southern West Virginia: geographic and stratigraphic trends

    SciTech Connect

    Hohn, M.E.; Neal, D.W.; Renton, J.J.

    1980-04-01

    Samples of cuttings from twenty-one wells and a core from a single well in southern West Virginia were analyzed for major and minor elements: silicon, aluminum, iron, magnesium, calcium, sodium, titanium, phosphorus, manganese, sulfur, zinc, and strontium. Stratigraphic and geographic controls on elemental abundances were studied through canonical correlations, factor analyses, and trend surface analyses. The most abundant elements, silicon and aluminum, show gradual trends through the stratigraphic column of most wells, with silicon increasing and aluminum decreasing up-section. Other elements such as calcium, sulfur, and titanium change abruptly in abundance at certain stratigraphic boundaries. Important geographic trends run east-west: for instance, one can see an increase in sulfur and a decrease in titanium to the west; and a decrease in silicon from the east to the central part of the study area, then an increase further west. Although observed vertical trends in detrital minerals and geographic patterns in elemental abundances agree with the accepted view of a prograding delta complex during Late Devonian time, geographically-local, time restricted depositional processes influenced elemental percentages in subsets of the wells and the stratigraphic intervals studied. The black shales of lower Huron age do not represent simply a return of depositional conditions present in the earlier Rhinestreet time; nor do the gray shales of the Ohio Shale represent the same environmental conditions as the Big White Slate.

  11. Stratigraphic data for wells at and near the Idaho National Engineering Laboratory, Idaho

    SciTech Connect

    Anderson, S.R.; Ackerman, D.J.; Liszewski, M.J.; Frieburger, R.M.

    1996-05-01

    A stratigraphic data base containing 230 stratigraphic units in 333 wells was constructed for deposits that make up the unsaturated zone and the Snake River Plain aquifer at and near INEL in eastern Idaho. Stratigraphic units, which were identified and correlated using data from numerous outcrops, 26 continuous cores, and 328 natural-gamma logs available in Dec. 1993, include 121 basalt-flow groups, 102 sedimentary interbeds, 6 andesite-flow groups, and 1 rhyolite dome. By volume, basalt flows make up about 90% of the deposits underlying most of this 890 mi{sup 2} area. Basalt, sediment, andesite, and rhyolite were identified from outcrops and cores that were selectively evaluated. Stratigraphic units were correlated using these data and natural-gamma logs. Best correlations were for basalt and sediment at Test Area North, the Naval Reactors Area, the Test Reactor Area, ICPP, and the Radioactive Waste Management Complex (RWMC), where most cores and 2/3 of the logs were obtained. Correlations range from good at the RWMC to uncertain the eastern half of the study area. A computer diskette containing the data is included.

  12. Stratigraphic signature of lithospheric deformation style in post-rift passive margin basins

    NASA Astrophysics Data System (ADS)

    Rouby, Delphine; Huismans, Ritske; Robin, Cecile; Braun, Jean; Granjeon, Didier

    2016-04-01

    We revise commonly accepted models explaining long-term stratigraphic trends along Atlantic-type passive margins by including the impact of complex lithosphere deformation at depth and it's coupling with surface processes. To achieve this, we simulated the evolution of a passive margin basin using a cascade of three modeling tools: a thermo-mechanical model of the syn-rift stretching of the lithosphere, a flexural and thermal model of the post-rift stage that includes coupling with surface processes and, finally, a stratigraphic model of the associated sedimentary basin architecture. We compare two necking styles that lead to different margin geometries: wide and narrow margins that form by heterogeneous stretching. Wide margins, forming thinner and wider sedimentary wedges, show significantly larger aggradation component and longer preservation duration, in more continental/proximal depositional facies. Narrow margins are characterized by enhanced erosion and by-pass during transgression. Through a parametric analysis we constrain the relative contribution of lithosphere deformation and surface processes on the stratigraphic trends and show that both may contribute equally to the stratigraphic architecture. For example, enhanced erosion in narrow margins impacts the volume of sediments delivered to the basin, which, in turn, significantly increases the subsidence. Our simulations also underline the importance of the assumed sediment transport length, which controls whether the main depocentres remain in the necking zone or reach the more distal parts of the margin.

  13. Seismic stratigraphy and stratigraphic modelling of the South-eastern German Molasse Basin

    SciTech Connect

    Aigner, T.; Jin, J.; Luterbacher, P.

    1995-08-01

    Although the German Molasse Basin can be regarded as a mature hydrocarbon province, no regional sequence stratigraphic analysis has been carried out so far. We have studied seismic lines and well data from the region between the Isar and Inn rivers (SE Germany) that have been generously supplied by German oil companies (DEE, BEB, Mobil, RWE-DEA and Wintershall). Initial work indicates that five major seismic sequences within three main depositional cycles are developed. The Alpine thrust belt to the south serves as the primary sediment source in the foreland basin. However, sedimentary infill mainly took place parallel to the basin axis. Our analysis suggests that the stratigraphic development of the Molasse Basin was mainly controlled by eustatic sea-level changes which caused the shoreline to shift in the W-E direction. The shifting of the depocenter axis in a N-S direction was controlled by the tectonic evolution of the thrust belt. The sea-level curve determined by seismic stratigraphy and well-derived subsidence curves have been used as input parameters for stratigraphic modelling, using the programs GeoMOD and PHIL. Basin-fill simulations with PHIL are in good agreement with the main features of the sequence stratigraphy and the distribution of the systems tracts observed in the study area. The qualitative sea-level curve for the German Molasse Basin derived from the seismostratigraphic analysis could be quantified by the stratigraphic exercises.

  14. Neoproterozoic variations in the C-isotopic composition of seawater: stratigraphic and biogeochemical implications

    NASA Technical Reports Server (NTRS)

    Kaufman, A. J.; Knoll, A. H.

    1995-01-01

    The recent proliferation of stratigraphic studies of delta 13C variation in carbonates and organic C in later Neoproterozoic and basal Cambrian successions (approximately 850-530 Ma) indicates a strong oscillating trend in the C-isotopic composition of surface seawater. Alone, this trend does not adequately characterize discrete intervals in Neoproterozoic time. However, integrated with the vectorial signals provided by fossils and Sr-isotopic variations, C isotope chemostratigraphy facilitates the interbasinal correlation of later Neoproterozoic successions. Results of these studies are evaluated in terms of four stratigraphic intervals: (1) the Precambrian/Cambrian boundary, (2) the post-Varanger terminal Proterozoic, (3) the late Cryogenian, and (4) the early Cryogenian. Where biostratigraphic or radiometric data constrain the age of Neoproterozoic sedimentary sequences, secular variations in C and Sr isotopes can provide a level of stratigraphic resolution exceeding that provided by fossils alone. Isotopic data place strong constraints on the chemical evolution of seawater, linking it to major tectonic and paleoclimatic events. They also provide a biogeochemical framework for the understanding of the initial radiation of macroscopic metazoans, which is associated stratigraphically, and perhaps causally, with a global increase in the burial of organic C and a concomitant rise of atmospheric O2.

  15. Neoproterozoic variations in the C-isotopic composition of seawater: stratigraphic and biogeochemical implications.

    PubMed

    Kaufman, A J; Knoll, A H

    1995-01-01

    The recent proliferation of stratigraphic studies of delta 13C variation in carbonates and organic C in later Neoproterozoic and basal Cambrian successions (approximately 850-530 Ma) indicates a strong oscillating trend in the C-isotopic composition of surface seawater. Alone, this trend does not adequately characterize discrete intervals in Neoproterozoic time. However, integrated with the vectorial signals provided by fossils and Sr-isotopic variations, C isotope chemostratigraphy facilitates the interbasinal correlation of later Neoproterozoic successions. Results of these studies are evaluated in terms of four stratigraphic intervals: (1) the Precambrian/Cambrian boundary, (2) the post-Varanger terminal Proterozoic, (3) the late Cryogenian, and (4) the early Cryogenian. Where biostratigraphic or radiometric data constrain the age of Neoproterozoic sedimentary sequences, secular variations in C and Sr isotopes can provide a level of stratigraphic resolution exceeding that provided by fossils alone. Isotopic data place strong constraints on the chemical evolution of seawater, linking it to major tectonic and paleoclimatic events. They also provide a biogeochemical framework for the understanding of the initial radiation of macroscopic metazoans, which is associated stratigraphically, and perhaps causally, with a global increase in the burial of organic C and a concomitant rise of atmospheric O2.

  16. Paleomagnetic Evidence for the Tectono-Stratigraphic Evolution of the Mt.Galili Area / MER / Ethiopia

    NASA Astrophysics Data System (ADS)

    Popp, F.; Scholger, R.

    2007-12-01

    zone in respect to the migration of the Afar triple junction since~4my *[6]. Another impact of this tectonic environment concerns the generation of weakened zones within the thinned crust induced by crosscutting structural items, subsequently allowing the supply of supercritical crustal melts and finally resulting in explosive eruptions. An extensive dispersed ignimbrite layer (Dhidinley Mb.) yielded an absolute age of ~4,1 my( sanidine, Ar/Ar)*[5]. B: Our stratigraphic age determination of the MGF is focused on magnetic reversal events documented in magmatic layers upon and below the mentioned Dhidinley ignimbrite selfsame demonstrating reverse polarity of its PMV. The uppermost Caashacado Mb. of the MGF exhibits normal polarity contained in gray ignimbrite layers at the top of the pile. We consider this reversal event providing a max. age of 3,58 my (Gauss/Gilbert crossover)*[2]. On the other hand the lowermost lava flow containing normal polarity was excavated by rotational rift block tilting. We consider this reversal event providing a min. age of 4,18 my (Gilbert/Cochiti crossover)*[2]. The mentioned age classifications are consistent with biochronological valuations *[3, 5]. References cited: *[1]: Besse, J. & Courtillot, V. (2002): J.Geophys.Res.107/B11/2300 *[2]: Cande, S.C., & Kent D.V.,(1995): J. Geophys. Res., 100, 6,093-6,095. *[3]: Kullmer O.et al (in rev.): Palaios. *[4]: Macchiarelli R.et al (2004): Coll. Antropol. 28 Suppl 2:65-76. *[5]: Urbanek C. et al (2005): Joannea Geologie und Paläontologie 6: 29-43. *[6]: Wolfenden E.,et al(2004): EPSL 224: 213-228.

  17. Facies, Stratigraphic and Depositional Model of the Sediments in the Abrolhos Archipelago (Bahia, BRAZIL)

    NASA Astrophysics Data System (ADS)

    Matte, R. R.; Zambonato, E. E.

    2012-04-01

    Located in the Mucuri Basin on the continental shelf of southern Bahia state, northeast Brazil, about 70 km from the city of Caravelas,the Abrolhos archipelago is made up of five islands; Santa Barbara, Redonda, Siriba, Guarita and Sueste. The exhumed sediments in the Abrolhos archipelago are a rare record of the turbidite systems which fill the Brazilian Atlantic Basin, and are probably an unprecedented example of a plataform turbidite system (Dr. Mutti, personal communication). Despite the limited area, the outcrops display a wide facies variation produced by different depositional processes, and also allow for the observation of the layer geometries. Associated with such sedimentary rocks, the Abrolhos Volcanic Complex belongs stratigraphically to the Abrolhos Formation. These igneous rocks were dated by the Ar / Ar method, with ages ranging from 60 to 40 My, placing such Volcanic Complex between the Paleocene and Eocene. The sedimentary section is best exposed in the Santa Barbara and Redonda islands and altogether it is 70 m thick. The measured vertical sections show a good stratigraphic correlation between the rocks of the western portion of the first island and those of Redonda Island. However, there is no correlation between the eastern and western portions of Santa Barbara Island, since they are very likely interrupted by the igneous intrusion and possibly by faulting. The sedimentary stack consists of deposits with alternated regressive and transgressive episodes interpreted as high frequency sequences. The coarse facies, sandstones and conglomerates, with abrupt or erosive bases record regressive phases. On the other hand, finer sandstones and siltstones facies, which are partly bioturbated, correspond to phases of a little sediment supply. In the central and eastern portions of Santa Barbara Island, there is a trend of progradational stacking, while both in the western portion of Santa Barbara and in Redonda islands an agradational trend is observed

  18. Automated telescope scheduling

    NASA Technical Reports Server (NTRS)

    Johnston, Mark D.

    1988-01-01

    With the ever increasing level of automation of astronomical telescopes the benefits and feasibility of automated planning and scheduling are becoming more apparent. Improved efficiency and increased overall telescope utilization are the most obvious goals. Automated scheduling at some level has been done for several satellite observatories, but the requirements on these systems were much less stringent than on modern ground or satellite observatories. The scheduling problem is particularly acute for Hubble Space Telescope: virtually all observations must be planned in excruciating detail weeks to months in advance. Space Telescope Science Institute has recently made significant progress on the scheduling problem by exploiting state-of-the-art artificial intelligence software technology. What is especially interesting is that this effort has already yielded software that is well suited to scheduling groundbased telescopes, including the problem of optimizing the coordinated scheduling of more than one telescope.

  19. Materials Testing and Automation

    NASA Astrophysics Data System (ADS)

    Cooper, Wayne D.; Zweigoron, Ronald B.

    1980-07-01

    The advent of automation in materials testing has been in large part responsible for recent radical changes in the materials testing field: Tests virtually impossible to perform without a computer have become more straightforward to conduct. In addition, standardized tests may be performed with enhanced efficiency and repeatability. A typical automated system is described in terms of its primary subsystems — an analog station, a digital computer, and a processor interface. The processor interface links the analog functions with the digital computer; it includes data acquisition, command function generation, and test control functions. Features of automated testing are described with emphasis on calculated variable control, control of a variable that is computed by the processor and cannot be read directly from a transducer. Three calculated variable tests are described: a yield surface probe test, a thermomechanical fatigue test, and a constant-stress-intensity range crack-growth test. Future developments are discussed.

  20. Automated Factor Slice Sampling

    PubMed Central

    Tibbits, Matthew M.; Groendyke, Chris; Haran, Murali; Liechty, John C.

    2013-01-01

    Markov chain Monte Carlo (MCMC) algorithms offer a very general approach for sampling from arbitrary distributions. However, designing and tuning MCMC algorithms for each new distribution, can be challenging and time consuming. It is particularly difficult to create an efficient sampler when there is strong dependence among the variables in a multivariate distribution. We describe a two-pronged approach for constructing efficient, automated MCMC algorithms: (1) we propose the “factor slice sampler”, a generalization of the univariate slice sampler where we treat the selection of a coordinate basis (factors) as an additional tuning parameter, and (2) we develop an approach for automatically selecting tuning parameters in order to construct an efficient factor slice sampler. In addition to automating the factor slice sampler, our tuning approach also applies to the standard univariate slice samplers. We demonstrate the efficiency and general applicability of our automated MCMC algorithm with a number of illustrative examples. PMID:24955002

  1. Automation in medicinal chemistry.

    PubMed

    Reader, John C

    2004-01-01

    The implementation of appropriate automation can make a significant improvement in productivity at each stage of the drug discovery process, if it is incorporated into an efficient overall process. Automated chemistry has evolved rapidly from the 'combinatorial' techniques implemented in many industrial laboratories in the early 1990's which focused primarily on the hit discovery phase, and were highly dependent on solid-phase techniques and instrumentation derived from peptide synthesis. Automated tools and strategies have been developed which can impact the hit discovery, hit expansion and lead optimization phases, not only in synthesis, but also in reaction optimization, work-up, and purification of compounds. This article discusses the implementation of some of these techniques, based especially on experiences at Millennium Pharmaceuticals Research and Development Ltd.

  2. Automated Camera Calibration

    NASA Technical Reports Server (NTRS)

    Chen, Siqi; Cheng, Yang; Willson, Reg

    2006-01-01

    Automated Camera Calibration (ACAL) is a computer program that automates the generation of calibration data for camera models used in machine vision systems. Machine vision camera models describe the mapping between points in three-dimensional (3D) space in front of the camera and the corresponding points in two-dimensional (2D) space in the camera s image. Calibrating a camera model requires a set of calibration data containing known 3D-to-2D point correspondences for the given camera system. Generating calibration data typically involves taking images of a calibration target where the 3D locations of the target s fiducial marks are known, and then measuring the 2D locations of the fiducial marks in the images. ACAL automates the analysis of calibration target images and greatly speeds the overall calibration process.

  3. Power subsystem automation study

    NASA Technical Reports Server (NTRS)

    Imamura, M. S.; Moser, R. L.; Veatch, M.

    1983-01-01

    Generic power-system elements and their potential faults are identified. Automation functions and their resulting benefits are defined and automation functions between power subsystem, central spacecraft computer, and ground flight-support personnel are partitioned. All automation activities were categorized as data handling, monitoring, routine control, fault handling, planning and operations, or anomaly handling. Incorporation of all these classes of tasks, except for anomaly handling, in power subsystem hardware and software was concluded to be mandatory to meet the design and operational requirements of the space station. The key drivers are long mission lifetime, modular growth, high-performance flexibility, a need to accommodate different electrical user-load equipment, onorbit assembly/maintenance/servicing, and potentially large number of power subsystem components. A significant effort in algorithm development and validation is essential in meeting the 1987 technology readiness date for the space station.

  4. Automated fiber pigtailing technology

    NASA Astrophysics Data System (ADS)

    Strand, O. T.; Lowry, M. E.; Lu, S. Y.; Nelson, D. C.; Nikkel, D. J.; Pocha, M. D.; Young, K. D.

    1994-02-01

    The high cost of optoelectronic (OE) devices is due mainly to the labor-intensive packaging process. Manually pigtailing such devices as single-mode laser diodes and modulators is very time consuming with poor quality control. The Photonics Program and the Engineering Research Division at LLNL are addressing several issues associated with automatically packaging OE devices. A furry automated system must include high-precision fiber alignment, fiber attachment techniques, in-situ quality control, and parts handling and feeding. This paper will present on-going work at LLNL in the areas of automated fiber alignment and fiber attachment. For the fiber alignment, we are building an automated fiber pigtailing machine (AFPM) which combines computer vision and object recognition algorithms with active feedback to perform sub-micron alignments of single-mode fibers to modulators and laser diodes. We expect to perform sub-micron alignments in less than five minutes with this technology. For fiber attachment, we are building various geometries of silicon microbenches which include on-board heaters to solder metal-coated fibers and other components in place; these designs are completely compatible with an automated process of OE packaging. We have manually attached a laser diode, a thermistor, and a thermo-electric heater to one of our microbenches in less than 15 minutes using the on-board heaters for solder reflow; an automated process could perform this same exercise in only a few minutes. Automated packaging techniques such as these will help lower the costs of OE devices.

  5. Automated gas chromatography

    DOEpatents

    Mowry, Curtis D.; Blair, Dianna S.; Rodacy, Philip J.; Reber, Stephen D.

    1999-01-01

    An apparatus and process for the continuous, near real-time monitoring of low-level concentrations of organic compounds in a liquid, and, more particularly, a water stream. A small liquid volume of flow from a liquid process stream containing organic compounds is diverted by an automated process to a heated vaporization capillary where the liquid volume is vaporized to a gas that flows to an automated gas chromatograph separation column to chromatographically separate the organic compounds. Organic compounds are detected and the information transmitted to a control system for use in process control. Concentrations of organic compounds less than one part per million are detected in less than one minute.

  6. Ground based automated telescope

    SciTech Connect

    Colgate, S.A.; Thompson, W.

    1980-01-01

    Recommendation that a ground-based automated telescope of the 2-meter class be built for remote multiuser use as a natural facility. Experience dictates that a primary consideration is a time shared multitasking operating system with virtual memory overlayed with a real time priority interrupt. The primary user facility is a remote terminal networked to the single computer. Many users must have simultaneous time shared access to the computer for program development. The telescope should be rapid slewing, and hence a light weight construction. Automation allows for the closed loop pointing error correction independent of extreme accuracy of the mount.

  7. Automated software development workstation

    NASA Technical Reports Server (NTRS)

    1986-01-01

    Engineering software development was automated using an expert system (rule-based) approach. The use of this technology offers benefits not available from current software development and maintenance methodologies. A workstation was built with a library or program data base with methods for browsing the designs stored; a system for graphical specification of designs including a capability for hierarchical refinement and definition in a graphical design system; and an automated code generation capability in FORTRAN. The workstation was then used in a demonstration with examples from an attitude control subsystem design for the space station. Documentation and recommendations are presented.

  8. Automating the CMS DAQ

    SciTech Connect

    Bauer, G.; et al.

    2014-01-01

    We present the automation mechanisms that have been added to the Data Acquisition and Run Control systems of the Compact Muon Solenoid (CMS) experiment during Run 1 of the LHC, ranging from the automation of routine tasks to automatic error recovery and context-sensitive guidance to the operator. These mechanisms helped CMS to maintain a data taking efficiency above 90% and to even improve it to 95% towards the end of Run 1, despite an increase in the occurrence of single-event upsets in sub-detector electronics at high LHC luminosity.

  9. Automated knowledge generation

    NASA Technical Reports Server (NTRS)

    Myler, Harley R.; Gonzalez, Avelino J.

    1988-01-01

    The general objectives of the NASA/UCF Automated Knowledge Generation Project were the development of an intelligent software system that could access CAD design data bases, interpret them, and generate a diagnostic knowledge base in the form of a system model. The initial area of concentration is in the diagnosis of the process control system using the Knowledge-based Autonomous Test Engineer (KATE) diagnostic system. A secondary objective was the study of general problems of automated knowledge generation. A prototype was developed, based on object-oriented language (Flavors).

  10. Stratigraphic And Lithofacies Study Of Distal Rain-Triggered Lahars: The Case Of West Coast Of Ecuador

    NASA Astrophysics Data System (ADS)

    Mulas, M.; Chunga, K.; Peña Carpio, E.; Falquez Torres, D. A.; Alcivar, R., Sr.; Lopez Coronel, M. C.

    2015-12-01

    The central zone of the coast of Ecuador at the north of Manabí Province, on the area comprised between Salango and Jama communities, is characterized by the presence of whitish to grey, centimeters to meters thick, consolidated to loose distal ash deposits. Recent archeological studies on Valdivia (3500 BC) and Manteña (800-1500 AC - Harris et al. 2004) civilizations remains link this deposits with the intense eruptive phases that afflicted Ecuador 700-900 years ago (Usselman, 2006). Stratigraphic evidences and bibliographic datations of paleosols (Estrada, 1962; Mothes and Hall, 2008), allowed to estimate that these deposits are linked with the 800 BP eruption of Quilotoa and the following eruptions of Cotopaxi. According to the Smith and Lowe classification (1991), the deposits outcropping on the coast (located at a distance greater than 160 km from the volcanic vents), varied from whitish to grey, loose to weakly consolidated, massive to weakly stratified, centimeters to meters thick, coarse to fine ash matrix layers (diluite streamflow facies) to massive, large angular to sub-rounded siltitic blocks-rich and coarse to medium ash matrix deposits (debris flow facies). These types of lithofacies are associated to a rain-triggered lahar (De Belizal et al., 2013). The presence in some stratigraphic sections of sharp contacts, laminated layers of very fine ash, and also cm-thick sand and silt layers between the ash beds of the same deposits permit to understand that the different pulses were generated in short periods and after a long period. Structures like water pipes imply that the lahar went into the sea (Schneider, 2004), and allow the reconstruction of the paleotopographic condition during the emplacement of these deposits. This study focuses on the characterization of these types of deposits, permit to understand the kind of risk that may affect the towns located on the coast of Ecuador after VEI 4 to 6 eruptions on short time and within years.

  11. Human Factors In Aircraft Automation

    NASA Technical Reports Server (NTRS)

    Billings, Charles

    1995-01-01

    Report presents survey of state of art in human factors in automation of aircraft operation. Presents examination of aircraft automation and effects on flight crews in relation to human error and aircraft accidents.

  12. RCrane: semi-automated RNA model building

    PubMed Central

    Keating, Kevin S.; Pyle, Anna Marie

    2012-01-01

    RNA crystals typically diffract to much lower resolutions than protein crystals. This low-resolution diffraction results in unclear density maps, which cause considerable difficulties during the model-building process. These difficulties are exacerbated by the lack of computational tools for RNA modeling. Here, RCrane, a tool for the partially automated building of RNA into electron-density maps of low or intermediate resolution, is presented. This tool works within Coot, a common program for macromolecular model building. RCrane helps crystallographers to place phosphates and bases into electron density and then automatically predicts and builds the detailed all-atom structure of the traced nucleotides. RCrane then allows the crystallographer to review the newly built structure and select alternative backbone conformations where desired. This tool can also be used to automatically correct the backbone structure of previously built nucleotides. These automated corrections can fix incorrect sugar puckers, steric clashes and other structural problems. PMID:22868764

  13. Stratigraphic and interregional changes in Pennsylvanian coal-swamp vegetation: Environmental inferences

    USGS Publications Warehouse

    Phillips, T.L.; Peppers, R.A.; DiMichele, W.A.

    1985-01-01

    Quantitative analysis of Pennsylvanian coal-swamp vegetation provides a means of inferring organization and structure of communities. Distribution of these communities further provides inferences about environmental factors, including paleoclimate. Our observations are based on in situ, structurally preserved peat deposits in coal-ball concretions from 32 coal seams in the eastern one-half of the United States and from several seams in western Europe and on spore assemblages from more than 150 seams. There were three times of particularly significant and nearly synchronous vegetational changes in the Midcontinent and Appalachian coal regions during the Pennsylvanian Period. Each was different in kind and magnitude. The first marked changes occurred during the early part of the Middle Pennsylvanian with the fluctuating decline in the high level of lycopod dominance. The abundance of cordaites increased. There was a rise in the occurrences of the lycopod herbs to form intercalated marshlands and an overall increase in floral diversity. Changes ensuing from this time also include shifts in dominant species of lycopod trees and a sustained rise in abundance and diversity of tree-fern spores. The next significant time of change was during the middle part of the Middle Pennsylvanian, representing both a culmination of earlier trends and expansions of cordaites in the Midcontinent where there was a maximum change in species without net loss of diversity. Tree ferns and medullosan pteridosperms attained subdominant levels of abundance and diverse lycopod species dominated except in the Atokan-Desmoinesian transition of the Midcontinent. The third and sharpest break occurred near the Middle-Late Pennsylvanian boundary when extinctionsof the dominant, coal-swamp lycopods allowed development of tree-fern dominance. The Late Pennsylvanian coal swamps apparently were colonized or recolonized mainly by species from outside coal swamps rather than by the survivor populations of

  14. A technique for recording polycrystalline structure and orientation during in situ deformation cycles of rock analogues using an automated fabric analyser.

    PubMed

    Peternell, M; Russell-Head, D S; Wilson, C J L

    2011-05-01

    Two in situ plane-strain deformation experiments on norcamphor and natural ice using synchronous recording of crystal c-axis orientations have been performed with an automated fabric analyser and a newly developed sample press and deformation stage. Without interrupting the deformation experiment, c-axis orientations are determined for each pixel in a 5 × 5 mm sample area at a spatial resolution of 5 μm/pixel. In the case of norcamphor, changes in microstructures and associated crystallographic information, at a strain rate of ∼2 × 10(-5) s(-1), were recorded for the first time during a complete in situ deformation-cycle experiment that consisted of an annealing, deformation and post-deformation annealing path. In the case of natural ice, slower external strain rates (∼1 × 10(-6) s(-1)) enabled the investigation of small changes in the polycrystal aggregate's crystallography and microstructure for small amounts of strain. The technical setup and first results from the experiments are presented.

  15. The 3D Euler solutions using automated Cartesian grid generation

    NASA Technical Reports Server (NTRS)

    Melton, John E.; Enomoto, Francis Y.; Berger, Marsha J.

    1993-01-01

    Viewgraphs on 3-dimensional Euler solutions using automated Cartesian grid generation are presented. Topics covered include: computational fluid dynamics (CFD) and the design cycle; Cartesian grid strategy; structured body fit; grid generation; prolate spheroid; and ONERA M6 wing.

  16. Automated Student Model Improvement

    ERIC Educational Resources Information Center

    Koedinger, Kenneth R.; McLaughlin, Elizabeth A.; Stamper, John C.

    2012-01-01

    Student modeling plays a critical role in developing and improving instruction and instructional technologies. We present a technique for automated improvement of student models that leverages the DataShop repository, crowd sourcing, and a version of the Learning Factors Analysis algorithm. We demonstrate this method on eleven educational…

  17. Library Automation: An Overview.

    ERIC Educational Resources Information Center

    Saffady, William

    1989-01-01

    Surveys the current state of computer applications in six areas of library work: circulation control; descriptive cataloging; catalog maintenance and production; reference services; acquisitions; and serials control. Motives for automation are discussed, and examples of representative vendors, products, and services are given. (15 references) (LRW)

  18. Automation in haemostasis.

    PubMed

    Huber, A R; Méndez, A; Brunner-Agten, S

    2013-01-01

    Automatia, an ancient Greece goddess of luck who makes things happen by themselves and on her own will without human engagement, is present in our daily life in the medical laboratory. Automation has been introduced and perfected by clinical chemistry and since then expanded into other fields such as haematology, immunology, molecular biology and also coagulation testing. The initial small and relatively simple standalone instruments have been replaced by more complex systems that allow for multitasking. Integration of automated coagulation testing into total laboratory automation has become possible in the most recent years. Automation has many strengths and opportunities if weaknesses and threats are respected. On the positive side, standardization, reduction of errors, reduction of cost and increase of throughput are clearly beneficial. Dependence on manufacturers, high initiation cost and somewhat expensive maintenance are less favourable factors. The modern lab and especially the todays lab technicians and academic personnel in the laboratory do not add value for the doctor and his patients by spending lots of time behind the machines. In the future the lab needs to contribute at the bedside suggesting laboratory testing and providing support and interpretation of the obtained results. The human factor will continue to play an important role in testing in haemostasis yet under different circumstances.

  19. Building Automation Systems.

    ERIC Educational Resources Information Center

    Honeywell, Inc., Minneapolis, Minn.

    A number of different automation systems for use in monitoring and controlling building equipment are described in this brochure. The system functions include--(1) collection of information, (2) processing and display of data at a central panel, and (3) taking corrective action by sounding alarms, making adjustments, or automatically starting and…

  20. Automated CCTV Tester

    2000-09-13

    The purpose of an automated CCTV tester is to automatically and continuously monitor multiple perimeter security cameras for changes in a camera's measured resolution and alignment (camera looking at the proper area). It shall track and record the image quality and position of each camera and produce an alarm when a camera is out of specification.

  1. Blastocyst microinjection automation.

    PubMed

    Mattos, Leonardo S; Grant, Edward; Thresher, Randy; Kluckman, Kimberly

    2009-09-01

    Blastocyst microinjections are routinely involved in the process of creating genetically modified mice for biomedical research, but their efficiency is highly dependent on the skills of the operators. As a consequence, much time and resources are required for training microinjection personnel. This situation has been aggravated by the rapid growth of genetic research, which has increased the demand for mutant animals. Therefore, increased productivity and efficiency in this area are highly desired. Here, we pursue these goals through the automation of a previously developed teleoperated blastocyst microinjection system. This included the design of a new system setup to facilitate automation, the definition of rules for automatic microinjections, the implementation of video processing algorithms to extract feedback information from microscope images, and the creation of control algorithms for process automation. Experimentation conducted with this new system and operator assistance during the cells delivery phase demonstrated a 75% microinjection success rate. In addition, implantation of the successfully injected blastocysts resulted in a 53% birth rate and a 20% yield of chimeras. These results proved that the developed system was capable of automatic blastocyst penetration and retraction, demonstrating the success of major steps toward full process automation.

  2. Library Automation in Australia.

    ERIC Educational Resources Information Center

    Blank, Karen L.

    1984-01-01

    Discussion of Australia's move toward library automation highlights development of a national bibliographic network, local and regional cooperation, integrated library systems, telecommunications, and online systems, as well as microcomputer usage, ergonomics, copyright issues, and national information policy. Information technology plans of the…

  3. Automated Management Of Documents

    NASA Technical Reports Server (NTRS)

    Boy, Guy

    1995-01-01

    Report presents main technical issues involved in computer-integrated documentation. Problems associated with automation of management and maintenance of documents analyzed from perspectives of artificial intelligence and human factors. Technologies that may prove useful in computer-integrated documentation reviewed: these include conventional approaches to indexing and retrieval of information, use of hypertext, and knowledge-based artificial-intelligence systems.

  4. Mining Your Automated System.

    ERIC Educational Resources Information Center

    Larsen, Patricia M., Ed.; And Others

    1996-01-01

    Four articles address issues of collecting, compiling, reporting, and interpreting statistics generated by automated library systems for administrative decision making. Topics include using a management information system to forecast growth and assess areas for downsizing; statistics for collection development and analysis; and online system…

  5. Automated conflict resolution issues

    NASA Technical Reports Server (NTRS)

    Wike, Jeffrey S.

    1991-01-01

    A discussion is presented of how conflicts for Space Network resources should be resolved in the ATDRSS era. The following topics are presented: a description of how resource conflicts are currently resolved; a description of issues associated with automated conflict resolution; present conflict resolution strategies; and topics for further discussion.

  6. Automating Food Service.

    ERIC Educational Resources Information Center

    Kavulla, Timothy A.

    1986-01-01

    The Wichita, Kansas, Public Schools' Food Service Department Project Reduction in Paperwork (RIP) is designed to automate certain paperwork functions, thus reducing cost and flow of paper. This article addresses how RIP manages free/reduced meal applications and meets the objectives of reducing paper and increasing accuracy, timeliness, and…

  7. Automated Estimating System (AES)

    SciTech Connect

    Holder, D.A.

    1989-09-01

    This document describes Version 3.1 of the Automated Estimating System, a personal computer-based software package designed to aid in the creation, updating, and reporting of project cost estimates for the Estimating and Scheduling Department of the Martin Marietta Energy Systems Engineering Division. Version 3.1 of the Automated Estimating System is capable of running in a multiuser environment across a token ring network. The token ring network makes possible services and applications that will more fully integrate all aspects of information processing, provides a central area for large data bases to reside, and allows access to the data base by multiple users. Version 3.1 of the Automated Estimating System also has been enhanced to include an Assembly pricing data base that may be used to retrieve cost data into an estimate. A WBS Title File program has also been included in Version 3.1. The WBS Title File program allows for the creation of a WBS title file that has been integrated with the Automated Estimating System to provide WBS titles in update mode and in reports. This provides for consistency in WBS titles and provides the capability to display WBS titles on reports generated at a higher WBS level.

  8. Automated Administrative Data Bases

    NASA Technical Reports Server (NTRS)

    Marrie, M. D.; Jarrett, J. R.; Reising, S. A.; Hodge, J. E.

    1984-01-01

    Improved productivity and more effective response to information requirements for internal management, NASA Centers, and Headquarters resulted from using automated techniques. Modules developed to provide information on manpower, RTOPS, full time equivalency, and physical space reduced duplication, increased communication, and saved time. There is potential for greater savings by sharing and integrating with those who have the same requirements.

  9. Automating Small Libraries.

    ERIC Educational Resources Information Center

    Swan, James

    1996-01-01

    Presents a four-phase plan for small libraries strategizing for automation: inventory and weeding, data conversion, implementation, and enhancements. Other topics include selecting a system, MARC records, compatibility, ease of use, industry standards, searching capabilities, support services, system security, screen displays, circulation modules,…

  10. CLAN Automation Plan.

    ERIC Educational Resources Information Center

    Nevada State Library and Archives, Carson City.

    The Central Libraries Automated Network (CLAN) of Nevada is a cooperative system which shares circulation, cataloging, and acquisitions systems and numerous online databases. Its mission is to provide public access to information and efficient library administration through shared computer systems, databases, and telecommunications. This document…

  11. Automated EEG acquisition

    NASA Technical Reports Server (NTRS)

    Frost, J. D., Jr.; Hillman, C. E., Jr.

    1977-01-01

    Automated self-contained portable device can be used by technicians with minimal training. Data acquired from patient at remote site are transmitted to centralized interpretation center using conventional telephone equipment. There, diagnostic information is analyzed, and results are relayed back to remote site.

  12. Automated Essay Scoring

    ERIC Educational Resources Information Center

    Dikli, Semire

    2006-01-01

    The impacts of computers on writing have been widely studied for three decades. Even basic computers functions, i.e. word processing, have been of great assistance to writers in modifying their essays. The research on Automated Essay Scoring (AES) has revealed that computers have the capacity to function as a more effective cognitive tool (Attali,…

  13. Recognition of Tidal Bore Deposits in the Stratigraphic Record

    NASA Astrophysics Data System (ADS)

    Fielding, C. R.; Joeckel, M.

    2015-12-01

    Tidal bores are upstream-propagating hydraulic jumps that episodically form the leading edge of flood tides in upstream-narrowing, gently sloping, coastal rivers which experience high tidal ranges (6 m+, typically). They attain 9 m in height and can penetrate more than 100 km inboard of a shoreline. The deposits of tidal bores, if they can be confidently diagnosed in ancient successions, constitute an unequivocal line of evidence in support of deposition within the tidal-fluvial zone of a lowland river. Deposits of modern tidal bores have been documented, and two recent studies have interpreted tidal bore deposits in ancient (Jurassic and Pennsylvanian) sedimentary rocks. The ancient tidal bore deposits recognized thus far comprise laterally discontinuous, erosionally-based beds of massive to faintly stratified sand, locally muddy and rich in detrital plant debris. Paleoflow structures, where preserved, indicate upstream-directed flow. The beds are enclosed by other, more pervasively stratified sandstones that were the product of ebb and flood-oriented currents in the ancient tidal rivers. The interpreted bore deposits are anomalous in the context of these normal current deposits, and indicate erosive scouring of the substrate followed by the en masse deposition of sand from suspension and upstream advection. Multiple horizons of putative tidal bore deposits are recognized in both the Jurassic and Pennsylvanian examples, suggesting that they were not the product of low-frequency, high-magnitude events such as tsunami or debris flows. It is anticipated that more examples of ancient tidal bore deposits will come to light now that diagnostic criteria are available, and that these will contribute to the fuller recognition of tidally-modulated fluvial deposits in the rock record.

  14. Automated pipelines for spectroscopic analysis

    NASA Astrophysics Data System (ADS)

    Allende Prieto, C.

    2016-09-01

    The Gaia mission will have a profound impact on our understanding of the structure and dynamics of the Milky Way. Gaia is providing an exhaustive census of stellar parallaxes, proper motions, positions, colors and radial velocities, but also leaves some glaring holes in an otherwise complete data set. The radial velocities measured with the on-board high-resolution spectrograph will only reach some 10 % of the full sample of stars with astrometry and photometry from the mission, and detailed chemical information will be obtained for less than 1 %. Teams all over the world are organizing large-scale projects to provide complementary radial velocities and chemistry, since this can now be done very efficiently from the ground thanks to large and mid-size telescopes with a wide field-of-view and multi-object spectrographs. As a result, automated data processing is taking an ever increasing relevance, and the concept is applying to many more areas, from targeting to analysis. In this paper, I provide a quick overview of recent, ongoing, and upcoming spectroscopic surveys, and the strategies adopted in their automated analysis pipelines.

  15. Including stratigraphic hierarchy information in geostatistical simulation: a demonstration study on analogs of alluvial sediments

    NASA Astrophysics Data System (ADS)

    Comunian, Alessandro; Felletti, Fabrizio; Giacobbo, Francesca; Giudici, Mauro; Bersezio, Riccardo

    2015-04-01

    When building a geostatistical model of the hydrofacies distribution in a volume block it is important to include all the relevant available information. Localised information about the observed hydrofacies (hard data) are routinely included in the simulation procedures. Non stationarities in the hydrofacies distribution can be handled by considering auxiliary (soft) data extracted, for example, from the results of geophysical surveys. This piece of information can be included as auxiliary data both in variogram based methods (i.e. co-Kriging) and in multiple-point statistics (MPS) methods. The latter methods allow to formalise some soft knowledge about the considered model of heterogeneity using a training image. However, including information related to the stratigraphic hierarchy in the training image is rarely straightforward. In this work, a methodology to include the information about the stratigraphic hierarchy in the simulation process is formalised and implemented in a MPS framework. The methodology is applied and tested by reconstructing two model blocks of alluvial sediments with an approximate volume of few cubic meters. The external faces of the blocks, exposed in a quarry, were thoroughly mapped and their stratigraphic hierarchy was interpreted in a previous study. The bi-dimensional (2D) maps extracted from the faces, which are used as training images and as hard data, present a vertical trend and complex stratigraphic architectures. The training images and the conditioning data are classified according to the proposed stratigraphic hierarchy, and the hydrofacies codes are grouped to allow a sequence of interleaved binary MPS simulation. Every step of the simulation sequence corresponds to a group of hydrofacies defined in the stratigraphic hierarchy. The blocks simulated with the proposed methodology are compared with blocks simulated with a standard MPS approach. The comparisons are performed on many realisations using connectivity indicators and

  16. Gas production from a cold, stratigraphically-bounded gas hydrate deposit at the Mount Elbert Gas Hydrate Stratigraphic Test Well, Alaska North Slope: Implications of uncertainties

    USGS Publications Warehouse

    Moridis, G.J.; Silpngarmlert, S.; Reagan, M.T.; Collett, T.; Zhang, K.

    2011-01-01

    As part of an effort to identify suitable targets for a planned long-term field test, we investigate by means of numerical simulation the gas production potential from unit D, a stratigraphically bounded (Class 3) permafrost-associated hydrate occurrence penetrated in the BPXA-DOE-USGS Mount Elbert Gas Hydrate Stratigraphic Test Well on North Slope, Alaska. This shallow, low-pressure deposit has high porosities (?? = 0.4), high intrinsic permeabilities (k = 10-12 m2) and high hydrate saturations (SH = 0.65). It has a low temperature (T = 2.3-2.6 ??C) because of its proximity to the overlying permafrost. The simulation results indicate that vertical wells operating at a constant bottomhole pressure would produce at very low rates for a very long period. Horizontal wells increase gas production by almost two orders of magnitude, but production remains low. Sensitivity analysis indicates that the initial deposit temperature is by the far the most important factor determining production performance (and the most effective criterion for target selection) because it controls the sensible heat available to fuel dissociation. Thus, a 1 ??C increase in temperature is sufficient to increase the production rate by a factor of almost 8. Production also increases with a decreasing hydrate saturation (because of a larger effective permeability for a given k), and is favored (to a lesser extent) by anisotropy. ?? 2010.

  17. Testing the Origins of Nonmarine Stratigraphic Sequences, Iglesia Basin, Northwest Argentina

    NASA Astrophysics Data System (ADS)

    Ruskin, B. G.; Jordan, T.

    2003-12-01

    The Iglesia Basin is an entirely nonmarine Andean foreland basin consisting of approximately 3.5 km of Tertiary strata unconformably overlying Paleozoic basement. Best described as a wedge-top basin, Iglesia Basin is located in San Juan Province, Argentina at S 30-31\\deg between the Frontal Cordillera and Precordillera fold-thrust belt. Interpretations of seismic reflection profiles and field reconnaissance have suggested basin-wide stratigraphic sequences. Additionally, radiometric and magnetostratigraphic data constrain sequence deposition between approximately 17 and 4 Ma. However, a fundamental question remains unanswered: temporal variability of which control caused development of unconformity-bound nonmarine sequences? Prior to this work, hypotheses about the factors at play, notably tectonism and climate change, remained untested, and fieldwork provided only localized information about the nature of the sequences. The present study examines basin lithofacies more broadly and will independently constrain discharge history (a proxy for climate) and intrabasinal tectonics. Thus far, fuller knowledge of the sedimentation patterns, structural expression, and volcanic history of Iglesia Basin is supplied by information from new outcrop localities near the northern paleomargin and basin center, and from reinterpretation of previously studied localities. A substantial volcanic component to the history of the oldest sequences is inferred from age relationships and continuity of deposits in proximity to the Cerro Negro intrabasinal andesitic center. Reassessment of field-assigned sequence boundaries in terms of continuity and expression, both along-strike and across intrabasinal faults, suggests that lithofacies shifts are more prevalent than erosive surfaces. Radiometric dating of additional tuffaceous units in the Tertiary sequences will allow more conclusive correlation among discontinuous outcrops. Floodplain assemblages of Aridosols and Inceptisols indicate

  18. Stratigraphic signatures of crustal shortening and central Andean geodynamics in the Altiplano plateau, southern Peru

    NASA Astrophysics Data System (ADS)

    Perez, Nicholas D.; Horton, Brian K.

    2014-05-01

    The initiation and evolution of hinterland basins along convergent margins has been variably attributed to partitioning of pre-existing flexural foreland basins, drainage closure by uplift of flanking topographic barriers, and/or isolated strike-slip or extensional processes. In the central Andean plateau, the upper Oligocene to middle Miocene basin fill of the northernmost Altiplano in southern Peru preserves a record of orogenesis between the Western Cordillera magmatic arc and the Eastern Cordillera fold-thrust belt. New stratigraphic, provenance, geochronologic and structural datasets from the ~3.7-km-high Ayaviri hinterland basin suggest that upper-crustal shortening was the dominant factor controlling basin evolution. The basin preserves a ~2300 m thick succession (Puno Group and Lower Tinajani Formation) of fluvial sandstone and overbank siltstone capped abruptly by ~400 m of alluvial fan pebble-boulder conglomerate (Upper Tinajani Formation). New U-Pb zircon geochronologic constraints from 8 tuff horizons and the youngest age populations from 10 sandstone horizons constrain the depositional age between 29.6 ± 1.2 Ma and 15.71 ± 0.97 Ma. The resulting ~15 Myr basin record yields sediment accumulation rates between 110 and 660 m/Myr, comparable to those of major lowland foreland basins. A prominent shift in basin provenance is recorded by detrital zircon U-Pb spectra, conglomerate clast compositions, modal sandstone compositions and paleocurrent data. Newly dated growth strata along the two basin-bounding thrust faults highlight the role of Andean shortening on basin evolution. Footwall growth strata along the southwest-directed Ayaviri fault defining the Eastern Cordillera margin suggests deformation at ~28 Ma. Younger footwall growth strata along the northeast-directed Pasani fault defining the Western Cordillera margin demonstrate an episode of out-of-sequence thrusting at ~16.4 Ma. This event is associated with the provenance and depositional shift of

  19. Stratigraphic significance and global distribution of the δ13C Suess effect during the Anthropocene

    NASA Astrophysics Data System (ADS)

    Paul, André; Mulitza, Stefan

    2015-04-01

    The Anthropocene is the proposed term for the present geological epoch (from the time of the Industrial Revolution onwards), during which human influence significantly impacts the environment. We argue that the burning of isotopically light fossil fuel that causes the so-called 'δ13C Suess effect' leaves such a strong imprint on marine sediments that it may serve to define the onset of this geological epoch, at least since the so-called 'Great Acceleration', i.e., the second half of the 20th century. Sediment data with high temporal resolution from the recent past indeed reveal a trend that corresponds to a negative carbon isotope excursion of the order of one permil, comparable to carbon isotope excursions in the deep past that define stratigraphic boundaries such as the Paleocene-Eocene Thermal Maximum (PETM). A global carbon cycle model based on the MIT general circulation model (MITgcm), fitted with carbon isotopes 13C and 14C and forced with observed changes in the atmospheric carbon dioxide partial pressure and carbon isotopic ratio 13C/12C, allows to investigate the temporal evolution and three-dimensional structure of the anomaly. We show the carbon isotopic ratios of fossil shells of benthic foraminifera (δ13Cc) from two ocean sediment cores GeoB6008 (31° N) und GeoB9501 (17° N) over the Anthropocene (mainly the 20th century). The decrease in δ13Cc at 31° N is about 0.8 permil; off Mauretania (at 17° N in the shadow zone of the subtropical gyre) it still amounts to about 0.4 permil. While the magnitude of the change in the global carbon cycle model is similar, the difference is smaller: The decrease in the model is around 0.9 permil near the location of the northern core and around 0.8 permil near the location of the southern core. The smaller difference of only about 0.1 permil points to a bias in the simulated as opposed to the observed ventilation of the thermocline. We further use a carbon cycle multi-box model to extrapolate this change in δ13

  20. The Manannan Impact Crater on Europa: Determination of Surface Compositions of Key Stratigraphic Units

    NASA Astrophysics Data System (ADS)

    Dalton, J. B.; Prockter, L. M.; Shirley, J. H.; Phillips, C. B.; Kamp, L.

    2011-12-01

    Mannanan is a 22-km-diameter impact crater located at 3 N, 240 W on Europa's orbital trailing side. Detailed high resolution geologic mapping by Moore et al. (2001) revealed the likely presence of extensive deposits of impact melt materials largely filling the crater floor, together with surrounding continuous ejecta deposits that may have been excavated from Europa's interior. Terrains surrounding Mannanàn include some of Europa's visibly darkest surfaces, with extensive areas of chaos, traversed by the prominent structure of Belus Linea. The Mannannàn impact crater and its surrounding areas were imaged during the C3 orbital encounter of the Galileo Mission by the orbiter's Near-Infrared Mapping Spectrometer (NIMS). This NIMS observation (C3ENLINEA01A) has not been subjected to a detailed investigation until now, possibly due to the presence of moderate levels of radiation noise. A "despiked" version of this observation has been produced using methods described in Shirley et al. (2010). In addition, new geologic mapping precisely registered to the NIMS coverage of Manannàn and its surroundings allows the extraction of high-quality near-infrared spectra that are specific to individual geologic units and morphological features. We will present linear mixture modeling solutions for the compositions of several of Manannàn's key stratigraphic units, including the crater floor deposits and the adjacent chaos and linea materials. We will interpret these results in the context of ongoing investigations of the interplay of exogenic and endogenic influences on the surface composition of Europa. This work was performed at the Jet Propulsion Laboratory-California Institute of Technology, Johns Hopkins University-Applied Physics Laboratory, and the SETI Institute under a contract with NASA. Support by NASA's Outer Planets Research program is gratefully acknowledged. Moore, J. M. and 25 others 2001. Impact Features on Europa: Results of the Galileo Europa Mission (GEM

  1. Automated Conflict Resolution For Air Traffic Control

    NASA Technical Reports Server (NTRS)

    Erzberger, Heinz

    2005-01-01

    The ability to detect and resolve conflicts automatically is considered to be an essential requirement for the next generation air traffic control system. While systems for automated conflict detection have been used operationally by controllers for more than 20 years, automated resolution systems have so far not reached the level of maturity required for operational deployment. Analytical models and algorithms for automated resolution have been traffic conditions to demonstrate that they can handle the complete spectrum of conflict situations encountered in actual operations. The resolution algorithm described in this paper was formulated to meet the performance requirements of the Automated Airspace Concept (AAC). The AAC, which was described in a recent paper [1], is a candidate for the next generation air traffic control system. The AAC's performance objectives are to increase safety and airspace capacity and to accommodate user preferences in flight operations to the greatest extent possible. In the AAC, resolution trajectories are generated by an automation system on the ground and sent to the aircraft autonomously via data link .The algorithm generating the trajectories must take into account the performance characteristics of the aircraft, the route structure of the airway system, and be capable of resolving all types of conflicts for properly equipped aircraft without requiring supervision and approval by a controller. Furthermore, the resolution trajectories should be compatible with the clearances, vectors and flight plan amendments that controllers customarily issue to pilots in resolving conflicts. The algorithm described herein, although formulated specifically to meet the needs of the AAC, provides a generic engine for resolving conflicts. Thus, it can be incorporated into any operational concept that requires a method for automated resolution, including concepts for autonomous air to air resolution.

  2. Selected stratigraphic data for drill holes located in Frenchman Flat, Nevada Test Site. Rev. 1

    SciTech Connect

    Drellack, S.L. Jr.

    1997-02-01

    Stratigraphic data are presented in tabular form for 72 holes drilled in Frenchman Flat, Nevada Test Site, between 1950 and 1993. Three pairs of data presentations are included for each hole: depth to formation tops, formation thicknesses, and formation elevations are presented in both field (English) and metric units. Also included for each hole, where available, are various construction data (hole depth, hole diameter, surface location coordinates) and certain information of hydrogeologic significance (depth to water level, top of zeolitization). The event name is given for holes associated with a particular nuclear test. An extensive set of footnotes is included, which indicates data sources and provides other information. The body of the report describes the stratigraphic setting of Frenchman Flat, gives drill-hole naming conventions and database terminology, and provides other background and reference material.

  3. Stratigraphic Subdivision of the Transvaal Dolomite from ERTS imagery. [South Africa

    NASA Technical Reports Server (NTRS)

    Grootenboer, J.; Eriksson, K.; Truswell, J.

    1974-01-01

    ERTS imagery has revealed the presence of broad stratigraphic subdivisions in the previously undifferentiated Transvaal Dolomite of the western Tranvaal, Republic of South Africa. While detailed field mapping in areas of good outcrop, as well as borehole logging has recently led to the recognition of a stratigraphy in the Transvaal Dolomite of the central Transvaal, poor outcrop in the western Transvaal has to date prevented this. The ERTS-imagery, however, clearly reveals the presence of six, and in the far west seven, distinct stratigraphic zones extending along strike for a distance of at least 200 km. The investigation clearly demonstrates the potential applications of ERTS-imagery in geological studies, even in a country where the geology is supposedly well known.

  4. Stratigraphic nomenclature and geologic sections of the Gulf Coastal Plain of Texas

    USGS Publications Warehouse

    Baker, E.T.

    1995-01-01

    Geologic sections showing the subsurface delineation of approximately 100 Stratigraphic units composing the Mesozoic and Cenozoic Eras illustrate the interrelation of these units across most of the Gulf Coastal Plain of Texas. The geologic names that constitute the nomenclature have been published, and the vast majority are approved for use by the U.S. Geological Survey. Four dip sections and four strike sections, extending from the land surface to a maximum of about 18,000 feet below sea level, provide continuity of correlation from the outcrop to the deep subsurface. Stratigraphic units containing water with less than 3,000 milligrams per liter concentration of dissolved solids are shown on the geologic sections and serve as an indicator of water quality in the Gulf Coastal Plain of Texas.

  5. Remote Stratigraphic Analysis: Combined TM and AIS Results in the Wind River/bighorn Basin Area, Wyoming

    NASA Technical Reports Server (NTRS)

    Lang, H. R.; Paylor, E. D.; Adams, S.

    1985-01-01

    An in-progress study demonstrates the utility of airborne imaging spectrometer (AIS) data for unraveling the stratigraphic evolution of a North American, western interior foreland basin. AIS data are used to determine the stratigraphic distribution of mineralogical facies that are diagnostic of specific depositional environments. After wavelength and amplitude calibration using natural ground targets with known spectral characteristics, AIS data identify calcite, dolomite, gypsum and montmorillonite-bearing strata in the Permian-Cretaceous sequence. Combined AIS and TM results illustrate the feasibility of spectral stratigraphy, remote analysis of stratigraphic sequences.

  6. High Fidelity? Temporal and spatial scales of stratigraphic incompleteness and how they compare to environmental forcings

    NASA Astrophysics Data System (ADS)

    Straub, K. M.; Li, Q.; Esposito, C. R.

    2015-12-01

    Stratigraphy contains the most complete record of information necessary to quantitatively reconstruct paleolandscape dynamics, but this record contains significant gaps over a range of time and space scales. These gaps result from stasis on geomorphic surfaces and from erosional events. We examine stratigraphic completeness in a suite of 11 physical experiments where the topography of aggrading deltas was monitored at high temporal and spatial scales. These experiments cover a range of boundary conditions, with both constant and dynamic forcings. Our analysis centers on three time scales: (1) the time at which a record is discretized (t), (2) the time necessary to build a deposit with mean thickness equivalent to the maximum topographic roughness (Tc), and (3) the time necessary for channelized flow to migrate over the entire basin (Tch). These time scales incorporate information pertaining to the evolving topography of actively changing surfaces, kinematics by which the surfaces are changing, and net deposition rate. In constant boundary condition experiments, we find that stratigraphic completeness increases as a power law function of t/Tc until reaching 100% completeness at time scales equal to Tc. The relationship between completeness and t/Tc in experiments experiencing base-level cycles is complex and related to characteristics of the base level cycles. We observe that in our experiments the mean and standard deviation of the width of stratigraphic gaps scales with Tc/Tch. These results place quantitative limits on the fidelity of the stratigraphic record, and thus aid prediction of a depositional environment's capacity to store environmental signals.

  7. Automated generation of weld path trajectories.

    SciTech Connect

    Sizemore, John M.; Hinman-Sweeney, Elaine Marie; Ames, Arlo Leroy

    2003-06-01

    AUTOmated GENeration of Control Programs for Robotic Welding of Ship Structure (AUTOGEN) is software that automates the planning and compiling of control programs for robotic welding of ship structure. The software works by evaluating computer representations of the ship design and the manufacturing plan. Based on this evaluation, AUTOGEN internally identifies and appropriately characterizes each weld. Then it constructs the robot motions necessary to accomplish the welds and determines for each the correct assignment of process control values. AUTOGEN generates these robot control programs completely without manual intervention or edits except to correct wrong or missing input data. Most ship structure assemblies are unique or at best manufactured only a few times. Accordingly, the high cost inherent in all previous methods of preparing complex control programs has made robot welding of ship structures economically unattractive to the U.S. shipbuilding industry. AUTOGEN eliminates the cost of creating robot control programs. With programming costs eliminated, capitalization of robots to weld ship structures becomes economically viable. Robot welding of ship structures will result in reduced ship costs, uniform product quality, and enhanced worker safety. Sandia National Laboratories and Northrop Grumman Ship Systems worked with the National Shipbuilding Research Program to develop a means of automated path and process generation for robotic welding. This effort resulted in the AUTOGEN program, which has successfully demonstrated automated path generation and robot control. Although the current implementation of AUTOGEN is optimized for welding applications, the path and process planning capability has applicability to a number of industrial applications, including painting, riveting, and adhesive delivery.

  8. Automated gas chromatography

    DOEpatents

    Mowry, C.D.; Blair, D.S.; Rodacy, P.J.; Reber, S.D.

    1999-07-13

    An apparatus and process for the continuous, near real-time monitoring of low-level concentrations of organic compounds in a liquid, and, more particularly, a water stream. A small liquid volume of flow from a liquid process stream containing organic compounds is diverted by an automated process to a heated vaporization capillary where the liquid volume is vaporized to a gas that flows to an automated gas chromatograph separation column to chromatographically separate the organic compounds. Organic compounds are detected and the information transmitted to a control system for use in process control. Concentrations of organic compounds less than one part per million are detected in less than one minute. 7 figs.

  9. Automated theorem proving.

    PubMed

    Plaisted, David A

    2014-03-01

    Automated theorem proving is the use of computers to prove or disprove mathematical or logical statements. Such statements can express properties of hardware or software systems, or facts about the world that are relevant for applications such as natural language processing and planning. A brief introduction to propositional and first-order logic is given, along with some of the main methods of automated theorem proving in these logics. These methods of theorem proving include resolution, Davis and Putnam-style approaches, and others. Methods for handling the equality axioms are also presented. Methods of theorem proving in propositional logic are presented first, and then methods for first-order logic. WIREs Cogn Sci 2014, 5:115-128. doi: 10.1002/wcs.1269 CONFLICT OF INTEREST: The authors has declared no conflicts of interest for this article. For further resources related to this article, please visit the WIREs website. PMID:26304304

  10. Automated macromolecular crystallization screening

    DOEpatents

    Segelke, Brent W.; Rupp, Bernhard; Krupka, Heike I.

    2005-03-01

    An automated macromolecular crystallization screening system wherein a multiplicity of reagent mixes are produced. A multiplicity of analysis plates is produced utilizing the reagent mixes combined with a sample. The analysis plates are incubated to promote growth of crystals. Images of the crystals are made. The images are analyzed with regard to suitability of the crystals for analysis by x-ray crystallography. A design of reagent mixes is produced based upon the expected suitability of the crystals for analysis by x-ray crystallography. A second multiplicity of mixes of the reagent components is produced utilizing the design and a second multiplicity of reagent mixes is used for a second round of automated macromolecular crystallization screening. In one embodiment the multiplicity of reagent mixes are produced by a random selection of reagent components.

  11. Automated breeder fuel fabrication

    SciTech Connect

    Goldmann, L.H.; Frederickson, J.R.

    1983-09-01

    The objective of the Secure Automated Fabrication (SAF) Project is to develop remotely operated equipment for the processing and manufacturing of breeder reactor fuel pins. The SAF line will be installed in the Fuels and Materials Examination Facility (FMEF). The FMEF is presently under construction at the Department of Energy's (DOE) Hanford site near Richland, Washington, and is operated by the Westinghouse Hanford Company (WHC). The fabrication and support systems of the SAF line are designed for computer-controlled operation from a centralized control room. Remote and automated fuel fabriction operations will result in: reduced radiation exposure to workers; enhanced safeguards; improved product quality; near real-time accountability, and increased productivity. The present schedule calls for installation of SAF line equipment in the FMEF beginning in 1984, with qualifying runs starting in 1986 and production commencing in 1987. 5 figures.

  12. Compact reactor design automation

    NASA Technical Reports Server (NTRS)

    Nassersharif, Bahram; Gaeta, Michael J.

    1991-01-01

    A conceptual compact reactor design automation experiment was performed using the real-time expert system G2. The purpose of this experiment was to investigate the utility of an expert system in design; in particular, reactor design. The experiment consisted of the automation and integration of two design phases: reactor neutronic design and fuel pin design. The utility of this approach is shown using simple examples of formulating rules to ensure design parameter consistency between the two design phases. The ability of G2 to communicate with external programs even across networks provides the system with the capability of supplementing the knowledge processing features with conventional canned programs with possible applications for realistic iterative design tools.

  13. Automated assembly in space

    NASA Technical Reports Server (NTRS)

    Srivastava, Sandanand; Dwivedi, Suren N.; Soon, Toh Teck; Bandi, Reddy; Banerjee, Soumen; Hughes, Cecilia

    1989-01-01

    The installation of robots and their use of assembly in space will create an exciting and promising future for the U.S. Space Program. The concept of assembly in space is very complicated and error prone and it is not possible unless the various parts and modules are suitably designed for automation. Certain guidelines are developed for part designing and for an easy precision assembly. Major design problems associated with automated assembly are considered and solutions to resolve these problems are evaluated in the guidelines format. Methods for gripping and methods for part feeding are developed with regard to the absence of gravity in space. The guidelines for part orientation, adjustments, compliances and various assembly construction are discussed. Design modifications of various fasteners and fastening methods are also investigated.

  14. Spheroidal carbonaceous particles are a defining stratigraphic marker for the Anthropocene

    NASA Astrophysics Data System (ADS)

    Swindles, Graeme T.; Watson, Elizabeth; Turner, T. Edward; Galloway, Jennifer M.; Hadlari, Thomas; Wheeler, Jane; Bacon, Karen L.

    2015-05-01

    There has been recent debate over stratigraphic markers used to demarcate the Anthropocene from the Holocene Epoch. However, many of the proposed markers are found only in limited areas of the world or do not reflect human impacts on the environment. Here we show that spheroidal carbonaceous particles (SCPs), a distinct form of black carbon produced from burning fossil fuels in energy production and heavy industry, provide unambiguous stratigraphic markers of the human activities that have rapidly changed planet Earth over the last century. SCPs are found in terrestrial and marine sediments or ice cores in every continent, including remote areas such as the high Arctic and Antarctica. The rapid increase in SCPs mostly occurs in the mid-twentieth century and is contemporaneous with the ‘Great Acceleration’. It therefore reflects the intensification of fossil fuel usage and can be traced across the globe. We integrate global records of SCPs and propose that the global rapid increase in SCPs in sedimentary records can be used to inform a Global Standard Stratigraphic Age for the Anthropocene. A high-resolution SCP sequence from a lake or peatland may provide the much-needed ‘Golden Spike’ (Global Boundary Stratotype Section and Point).

  15. Stratigraphic expressions of the Holocene-Anthropocene transition revealed in sediments from remote lakes

    NASA Astrophysics Data System (ADS)

    Wolfe, Alexander P.; Hobbs, William O.; Birks, Hilary H.; Briner, Jason P.; Holmgren, Sofia U.; Ingólfsson, Ólafur; Kaushal, Sujay S.; Miller, Gifford H.; Pagani, Mark; Saros, Jasmine E.; Vinebrooke, Rolf D.

    2013-01-01

    Stratigraphic boundaries are ideally defined by distinct lithological, geochemical, and palaeobiological signatures, to which a chronological framework can be applied. We present a range of observations that illustrate how the Holocene-Anthropocene transition meets these criteria in its expression in sediments from remote arctic and alpine lakes, removed from direct, catchment-scale, anthropogenic influences. In glaciated lake basins, the retreat of glaciers commonly leads to lithological successions from proglacial clastic sedimentation to non-glacial organic deposition. Sediments from the majority of lakes record marked depletions in the nitrogen stable isotopic composition of sediment organic matter, reflecting anthropogenic influences on the global nitrogen cycle. In all cases, siliceous microfossil assemblages (diatoms and chrysophytes) change markedly and directionally, with regional nuances. These stratigraphic fingerprints begin to appear in the sediment record after AD 1850, but accelerate in pulses between AD 1950 and 1970 and again after AD 1980. Our review indicates that recent environmental changes associated with humankind's dominance of key global biogeochemical cycles are sufficiently pervasive to be imprinted on the sediment record of remote lakes. Moreover, these changes are of sufficient magnitude to conclude that the Holocene has effectively ended, and that the concept of Anthropocene more aptly describes current planetary dynamics. The synthesis of these observations pertains directly to ongoing discussions concerning the eventual formalization of a new stratigraphic boundary.

  16. Architecture of delta plain deposits in a sequence stratigraphic framework: The upper carboniferous of eastern Kentucky

    SciTech Connect

    Buter, S.J. )

    1993-09-01

    Fluvio-deltaic sequences of the Upper Carboniferous Four Corners formation in the Appalachian basin of eastern Kentucky are reinterpreted using sequence stratigraphic techniques. A data set of correlated large-scale road-cut exposures and continuous coring records was processed and used in a three-dimensional (3-D) reservoir modeling program in order to obtain a detailed model of the 3-D architecture of the stratigraphic succession. The architecture of the sediment bodies is related to the position within the depositional system. The 140-m-thick Four Corners formation comprises three facies associations, which are cyclically organized. The boundaries between the cycles are formed by erosive surfaces, and are developed as lowstand incised valleys. A subsequent base-level rise resulted in the infilling of these valleys with amalgamated stacked channel deposits (early transgressive systems tract). Flood plain aggradation and extensive peat accumulation occurred during progressive rise (transgressive systems tracts). Marine flooding took place in the upper part of the sequence (late transgressive systems tract) and was followed by prograding mouthbar deposits during base-level stabilization (highstand). The sequence stratigraphic approach to these Upper Carboniferous cyclothems highlights the importance of relative sea level changes and may improve our understanding of sediment body geometries and architecture, resulting in more accurate predictive geological reservoir models of the subsurface.

  17. Revised Cretaceous and Tertiary stratigraphic nomenclature in the Colville Basin, Northern Alaska

    USGS Publications Warehouse

    Mull, Charles G.; Houseknecht, David W.; Bird, Kenneth J.

    2003-01-01

    A revised stratigraphic nomenclature is proposed for Cretaceous and Tertiary geologic units of the central and western North Slope of Alaska. This revised nomenclature is a simplified and broadly applicable scheme suitable for a suite of digital geologic quadrangle maps being prepared jointly by the U.S. Geological Survey and the Alaska Department of Natural Resources, Division of Geological and Geophysical Surveys and Division of Oil and Gas. This revised nomenclature scheme is a simplification of a complex stratigraphic terminology that developed piecemeal during five decades of geologic investigations of the North Slope. It is based on helicopter-supported geologic field investigations incorporating information from high-resolution aerial photography, satellite imagery, paleontology, reflection seismic records, and sequence stratigraphic concepts. This revised nomenclature proposes the abandonment of the Colville Group; demotion of the Nanushuk Group to formation status; abandonment of six formations (Kukpowruk, Tuktu, Grandstand, Corwin, Chandler, and Ninuluk); revision of four formations (Sagavanirktok, Prince Creek, Schrader Bluff, and Seabee); elevation of the Tuluvak Tongue of the Prince Creek Formation to formation status; revision of two members (Franklin Bluffs Member and Sagwon Member of the Sagavanirktok Formation); abandonment of eight members or tongues (Kogosukruk, Rogers Creek, Barrow Trail, Sentinel Hill, Ayiyak, Shale Wall, Niakogon, and Killik); and definition of one new member (White Hills Member of the Sagavanirktok Formation).

  18. Spheroidal carbonaceous particles are a defining stratigraphic marker for the Anthropocene

    PubMed Central

    Swindles, Graeme T.; Watson, Elizabeth; Turner, T. Edward; Galloway, Jennifer M.; Hadlari, Thomas; Wheeler, Jane; Bacon, Karen L.

    2015-01-01

    There has been recent debate over stratigraphic markers used to demarcate the Anthropocene from the Holocene Epoch. However, many of the proposed markers are found only in limited areas of the world or do not reflect human impacts on the environment. Here we show that spheroidal carbonaceous particles (SCPs), a distinct form of black carbon produced from burning fossil fuels in energy production and heavy industry, provide unambiguous stratigraphic markers of the human activities that have rapidly changed planet Earth over the last century. SCPs are found in terrestrial and marine sediments or ice cores in every continent, including remote areas such as the high Arctic and Antarctica. The rapid increase in SCPs mostly occurs in the mid-twentieth century and is contemporaneous with the ‘Great Acceleration’. It therefore reflects the intensification of fossil fuel usage and can be traced across the globe. We integrate global records of SCPs and propose that the global rapid increase in SCPs in sedimentary records can be used to inform a Global Standard Stratigraphic Age for the Anthropocene. A high-resolution SCP sequence from a lake or peatland may provide the much-needed ‘Golden Spike’ (Global Boundary Stratotype Section and Point). PMID:26020614

  19. Sequence stratigraphic interpretations in a continental strike-slip Basin - Southern Dead Sea, Israel

    SciTech Connect

    Csato, I.; Kendall, C.

    1996-12-31

    Sequence stratigraphic interpretations of subsurface data from the Southern Dead Sea have been integrated with computer modeling of the stratigraphy, demonstrating that the sedimentary fill was controlled by extremely high rates of subsidence (1000 m/MY), salt tectonics, multiple sediment sources, and lake-level fluctuations. The southern part of the basin is underlain by half-grabens and full-grabens. A northwest-southeast directed shear zone (5-6 km wide) closes the basin to the north, while the large Amaziahu growth fault, developed by gravity sliding and salt-withdrawal, separates the basin into two segments. Fan deltas entered the basin at its southern and northern ends, while salt and lacustrine offshore sediments accumulated in its interior. The southern and northern lacustrine systems interfinger in a mixing zone which changed position as a function of lake-level variations. The advance of the northern system was accompanied by lake level falls, while lake-level rises favored an influx from the southern system. The northern sedimentary system gradually became more dominant. The stratigraphic simulation revealed that the lake-level falls paralleled those of the Mediterranean sea, but with a slight (0.3-0.4 MY) delay. Combined stratigraphic and thermal maturation modeling suggests that sediments in the deepest part of the basin are currently within the oil generation window. Significant pinch-out zones flanking the Mount Sedom diapir, buried fan delta complexes, and the peculiar interfingering, zones may be important exploration targets.

  20. Spheroidal carbonaceous particles are a defining stratigraphic marker for the Anthropocene.

    PubMed

    Swindles, Graeme T; Watson, Elizabeth; Turner, T Edward; Galloway, Jennifer M; Hadlari, Thomas; Wheeler, Jane; Bacon, Karen L

    2015-01-01

    There has been recent debate over stratigraphic markers used to demarcate the Anthropocene from the Holocene Epoch. However, many of the proposed markers are found only in limited areas of the world or do not reflect human impacts on the environment. Here we show that spheroidal carbonaceous particles (SCPs), a distinct form of black carbon produced from burning fossil fuels in energy production and heavy industry, provide unambiguous stratigraphic markers of the human activities that have rapidly changed planet Earth over the last century. SCPs are found in terrestrial and marine sediments or ice cores in every continent, including remote areas such as the high Arctic and Antarctica. The rapid increase in SCPs mostly occurs in the mid-twentieth century and is contemporaneous with the 'Great Acceleration'. It therefore reflects the intensification of fossil fuel usage and can be traced across the globe. We integrate global records of SCPs and propose that the global rapid increase in SCPs in sedimentary records can be used to inform a Global Standard Stratigraphic Age for the Anthropocene. A high-resolution SCP sequence from a lake or peatland may provide the much-needed 'Golden Spike' (Global Boundary Stratotype Section and Point).