Planning Assembly Of Large Truss Structures In Outer Space

NASA Technical Reports Server (NTRS)

De Mello, Luiz S. Homem; Desai, Rajiv S.

1992-01-01

Report dicusses developmental algorithm used in systematic planning of sequences of operations in which large truss structures assembled in outer space. Assembly sequence represented by directed graph called "assembly graph", in which each arc represents joining of two parts or subassemblies. Algorithm generates assembly graph, working backward from state of complete assembly to initial state, in which all parts disassembled. Working backward more efficient than working forward because it avoids intermediate dead ends.

AND/OR graph representation of assembly plans

NASA Astrophysics Data System (ADS)

Homem de Mello, Luiz S.; Sanderson, Arthur C.

1990-04-01

A compact representation of all possible assembly plans of a product using AND/OR graphs is presented as a basis for efficient planning algorithms that allow an intelligent robot to pick a course of action according to instantaneous conditions. The AND/OR graph is equivalent to a state transition graph but requires fewer nodes and simplifies the search for feasible plans. Three applications are discussed: (1) the preselection of the best assembly plan, (2) the recovery from execution errors, and (3) the opportunistic scheduling of tasks. An example of an assembly with four parts illustrates the use of the AND/OR graph representation in assembly-plan preselection, based on the weighting of operations according to complexity of manipulation and stability of subassemblies. A hypothetical error situation is discussed to show how a bottom-up search of the AND/OR graph leads to an efficient recovery.

AND/OR graph representation of assembly plans

NASA Technical Reports Server (NTRS)

Homem De Mello, Luiz S.; Sanderson, Arthur C.

1990-01-01

A compact representation of all possible assembly plans of a product using AND/OR graphs is presented as a basis for efficient planning algorithms that allow an intelligent robot to pick a course of action according to instantaneous conditions. The AND/OR graph is equivalent to a state transition graph but requires fewer nodes and simplifies the search for feasible plans. Three applications are discussed: (1) the preselection of the best assembly plan, (2) the recovery from execution errors, and (3) the opportunistic scheduling of tasks. An example of an assembly with four parts illustrates the use of the AND/OR graph representation in assembly-plan preselection, based on the weighting of operations according to complexity of manipulation and stability of subassemblies. A hypothetical error situation is discussed to show how a bottom-up search of the AND/OR graph leads to an efficient recovery.

Enabling Graph Appliance for Genome Assembly

DOE Office of Scientific and Technical Information (OSTI.GOV)

Singh, Rina; Graves, Jeffrey A; Lee, Sangkeun

2015-01-01

In recent years, there has been a huge growth in the amount of genomic data available as reads generated from various genome sequencers. The number of reads generated can be huge, ranging from hundreds to billions of nucleotide, each varying in size. Assembling such large amounts of data is one of the challenging computational problems for both biomedical and data scientists. Most of the genome assemblers developed have used de Bruijn graph techniques. A de Bruijn graph represents a collection of read sequences by billions of vertices and edges, which require large amounts of memory and computational power to storemore » and process. This is the major drawback to de Bruijn graph assembly. Massively parallel, multi-threaded, shared memory systems can be leveraged to overcome some of these issues. The objective of our research is to investigate the feasibility and scalability issues of de Bruijn graph assembly on Cray s Urika-GD system; Urika-GD is a high performance graph appliance with a large shared memory and massively multithreaded custom processor designed for executing SPARQL queries over large-scale RDF data sets. However, to the best of our knowledge, there is no research on representing a de Bruijn graph as an RDF graph or finding Eulerian paths in RDF graphs using SPARQL for potential genome discovery. In this paper, we address the issues involved in representing a de Bruin graphs as RDF graphs and propose an iterative querying approach for finding Eulerian paths in large RDF graphs. We evaluate the performance of our implementation on real world ebola genome datasets and illustrate how genome assembly can be accomplished with Urika-GD using iterative SPARQL queries.« less

Bringing the fathead minnow into the genomic era | Science ...

EPA Pesticide Factsheets

The fathead minnow is a well-established ecotoxicological model organism that has been widely used for regulatory ecotoxicity testing and research for over a half century. While a large amount of molecular information has been gathered on the fathead minnow over the years, the lack of genomic sequence data has limited the utility of the fathead minnow for certain applications. To address this limitation, high-throughput Illumina sequencing technology was employed to sequence the fathead minnow genome. Approximately 100X coverage was achieved by sequencing several libraries of paired-end reads with differing genome insert sizes. Two draft genome assemblies were generated using the SOAPdenovo and String Graph Assembler (SGA) methods, respectively. When these were compared, the SOAPdenovo assembly had a higher scaffold N50 value of 60.4 kbp versus 15.4 kbp, and it also performed better in a Core Eukaryotic Genes Mapping Analysis (CEGMA), mapping 91% versus 67% of genes. As such, this assembly was selected for further development and annotation. The foundation for genome annotation was generated using AUGUSTUS, an ab initio method for gene prediction. A total of 43,345 potential coding sequences were predicted on the genome assembly. These predicted sequences were translated to peptides and queried in a BLAST search against all vertebrates, with 28,290 of these sequences corresponding to zebrafish peptides and 5,242 producing no significant alignments. Additional ty

Dynamic self-assembly of charged colloidal strings and walls in simple fluid flows.

PubMed

Abe, Yu; Zhang, Bo; Gordillo, Leonardo; Karim, Alireza Mohammad; Francis, Lorraine F; Cheng, Xiang

2017-02-22

Colloidal particles can self-assemble into various ordered structures in fluid flows that have potential applications in biomedicine, materials synthesis and encryption. These dynamic processes are also of fundamental interest for probing the general principles of self-assembly under non-equilibrium conditions. Here, we report a simple microfluidic experiment, where charged colloidal particles self-assemble into flow-aligned 1D strings with regular particle spacing near a solid boundary. Using high-speed confocal microscopy, we systematically investigate the influence of flow rates, electrostatics and particle polydispersity on the observed string structures. By studying the detailed dynamics of stable flow-driven particle pairs, we quantitatively characterize interparticle interactions. Based on the results, we construct a simple model that explains the intriguing non-equilibrium self-assembly process. Our study shows that the colloidal strings arise from a delicate balance between attractive hydrodynamic coupling and repulsive electrostatic interaction between particles. Finally, we demonstrate that, with the assistance of transverse electric fields, a similar mechanism also leads to the formation of 2D colloidal walls.

Wireline system for multiple direct push tool usage

DOEpatents

Bratton, Wesley L.; Farrington, Stephen P.; Shinn, II, James D.; Nolet, Darren C.

2003-11-11

A tool latching and retrieval system allows the deployment and retrieval of a variety of direct push subsurface characterization tools through an embedded rod string during a single penetration without requiring withdrawal of the string from the ground. This enables the in situ interchange of different tools, as well as the rapid retrieval of soil core samples from multiple depths during a single direct push penetration. The system includes specialized rods that make up the rod string, a tool housing which is integral to the rod string, a lock assembly, and several tools which mate to the lock assembly.

Counting surface-kernel epimorphisms from a co-compact Fuchsian group to a cyclic group with motivations from string theory and QFT

NASA Astrophysics Data System (ADS)

Bibak, Khodakhast; Kapron, Bruce M.; Srinivasan, Venkatesh

2016-09-01

Graphs embedded into surfaces have many important applications, in particular, in combinatorics, geometry, and physics. For example, ribbon graphs and their counting is of great interest in string theory and quantum field theory (QFT). Recently, Koch et al. (2013) [12] gave a refined formula for counting ribbon graphs and discussed its applications to several physics problems. An important factor in this formula is the number of surface-kernel epimorphisms from a co-compact Fuchsian group to a cyclic group. The aim of this paper is to give an explicit and practical formula for the number of such epimorphisms. As a consequence, we obtain an 'equivalent' form of Harvey's famous theorem on the cyclic groups of automorphisms of compact Riemann surfaces. Our main tool is an explicit formula for the number of solutions of restricted linear congruence recently proved by Bibak et al. using properties of Ramanujan sums and of the finite Fourier transform of arithmetic functions.

Actomyosin purse strings: renewable resources that make morphogenesis robust and resilient

PubMed Central

Rodriguez-Diaz, Alice; Toyama, Yusuke; Abravanel, Daniel L.; Wiemann, John M.; Wells, Adrienne R.; Tulu, U. Serdar; Edwards, Glenn S.; Kiehart, Daniel P.

2008-01-01

Dorsal closure in Drosophila is a model system for cell sheet morphogenesis and wound healing. During closure two sheets of lateral epidermis move dorsally to close over the amnioserosa and form a continuous epidermis. Forces from the amnioserosa and actomyosin-rich, supracellular purse strings at the leading edges of these lateral epidermal sheets drive closure. Purse strings generate the largest force for closure and occur during development and wound healing throughout phylogeny. We use laser microsurgery to remove some or all of the purse strings from developing embryos. Free edges produced by surgery undergo characteristic responses as follows. Intact cells in the free edges, which previously had no purse string, recoil away from the incision and rapidly assemble new, secondary purse strings. Next, recoil slows, then pauses at a turning point. Following a brief delay, closure resumes and is powered to completion by the secondary purse strings. We confirm that the assembly of the secondary purse strings requires RhoA. We show that α-actinin alternates with nonmuscle myosin II along purse strings and requires nonmuscle myosin II for its localization. Together our data demonstrate that purse strings are renewable resources that contribute to the robust and resilient nature of closure. PMID:19404432

Smartphone Application Enabling Global Graph Exploitation and Research

DTIC Science & Technology

2013-05-01

employed, blue collar, white collar Religion Mild theology, radical theology Skill Photography, writing, electrical, mechanical, computer, driving...findViewById( R.id.religion_spinner ); 480: String religion = s9.getSelectedItem().toString(); 481: 482: Spinner s10 = (Spinner) findViewById...34Choose Suspect Religion ") || skill.equals("Choose Suspect Skill") || address.equals("Choose Suspect Address")) 504: { 505: Toast msg

Automatic extraction of numeric strings in unconstrained handwritten document images

NASA Astrophysics Data System (ADS)

Haji, M. Mehdi; Bui, Tien D.; Suen, Ching Y.

2011-01-01

Numeric strings such as identification numbers carry vital pieces of information in documents. In this paper, we present a novel algorithm for automatic extraction of numeric strings in unconstrained handwritten document images. The algorithm has two main phases: pruning and verification. In the pruning phase, the algorithm first performs a new segment-merge procedure on each text line, and then using a new regularity measure, it prunes all sequences of characters that are unlikely to be numeric strings. The segment-merge procedure is composed of two modules: a new explicit character segmentation algorithm which is based on analysis of skeletal graphs and a merging algorithm which is based on graph partitioning. All the candidate sequences that pass the pruning phase are sent to a recognition-based verification phase for the final decision. The recognition is based on a coarse-to-fine approach using probabilistic RBF networks. We developed our algorithm for the processing of real-world documents where letters and digits may be connected or broken in a document. The effectiveness of the proposed approach is shown by extensive experiments done on a real-world database of 607 documents which contains handwritten, machine-printed and mixed documents with different types of layouts and levels of noise.

Automated Solar Module Assembly Line

NASA Technical Reports Server (NTRS)

Bycer, M.

1979-01-01

The gathering of information that led to the design approach of the machine, and a summary of the findings in the areas of study along with a description of each station of the machine are discussed. The machine is a cell stringing and string applique machine which is flexible in design, capable of handling a variety of cells and assembling strings of cells which can then be placed in a matrix up to 4 ft x 2 ft. in series or parallel arrangement. The target machine cycle is to be 5 seconds per cell. This machine is primarily adapted to 100 MM round cells with one or two tabs between cells. It places finished strings of up to twelve cells in a matrix of up to six such strings arranged in series or in parallel.

From free fields to AdS space. II

NASA Astrophysics Data System (ADS)

Gopakumar, Rajesh

2004-07-01

We continue with the program of paper I [Phys. Rev. D 70, 025009 (2004)] to implement open-closed string duality on free gauge field theory (in the large-N limit). In this paper we consider correlators such as <∏ni=1TrΦJi(xi)>. The Schwinger parametrization of this n-point function exhibits a partial gluing up into a set of basic skeleton graphs. We argue that the moduli space of the planar skeleton graphs is exactly the same as the moduli space of genus zero Riemann surfaces with n holes. In other words, we can explicitly rewrite the n-point (planar) free-field correlator as an integral over the moduli space of a sphere with n holes. A preliminary study of the integrand also indicates compatibility with a string theory on AdS space. The details of our argument are quite insensitive to the specific form of the operators and generalize to diagrams of a higher genus as well. We take this as evidence of the field theory’s ability to reorganize itself into a string theory.

The combination of direct and paired link graphs can boost repetitive genome assembly

PubMed Central

Shi, Wenyu; Ji, Peifeng

2017-01-01

Abstract Currently, most paired link based scaffolding algorithms intrinsically mask the sequences between two linked contigs and bypass their direct link information embedded in the original de Bruijn assembly graph. Such disadvantage substantially complicates the scaffolding process and leads to the inability of resolving repetitive contig assembly. Here we present a novel algorithm, inGAP-sf, for effectively generating high-quality and continuous scaffolds. inGAP-sf achieves this by using a new strategy based on the combination of direct link and paired link graphs, in which direct link is used to increase graph connectivity and to decrease graph complexity and paired link is employed to supervise the traversing process on the direct link graph. Such advantage greatly facilitates the assembly of short-repeat enriched regions. Moreover, a new comprehensive decision model is developed to eliminate the noise routes accompanying with the introduced direct link. Through extensive evaluations on both simulated and real datasets, we demonstrated that inGAP-sf outperforms most of the genome scaffolding algorithms by generating more accurate and continuous assembly, especially for short repetitive regions. PMID:27924003

Assembly planning based on subassembly extraction

NASA Technical Reports Server (NTRS)

Lee, Sukhan; Shin, Yeong Gil

1990-01-01

A method is presented for the automatic determination of assembly partial orders from a liaison graph representation of an assembly through the extraction of preferred subassemblies. In particular, the authors show how to select a set of tentative subassemblies by decomposing a liaison graph into a set of subgraphs based on feasibility and difficulty of disassembly, how to evaluate each of the tentative subassemblies in terms of assembly cost using the subassembly selection indices, and how to construct a hierarchical partial order graph (HPOG) as an assembly plan. The method provides an approach to assembly planning by identifying spatial parallelism in assembly as a means of constructing temporal relationships among assembly operations and solves the problem of finding a cost-effective assembly plan in a flexible environment. A case study of the assembly planning of a mechanical assembly is presented.

Bonder for Solar-Cell Strings

NASA Technical Reports Server (NTRS)

Garwood, G.; Frasch, W.

1982-01-01

String bonder for solar-cell arrays eliminates tedious manual assembly procedure that could damage cell face. Vacuum arm picks up face-down cell from cell-inverting work station and transfers it to string conveyor without changing cell orientation. Arm is activated by signal from microprocessor.

Bioinspired heterostructured bead-on-string fibers via controlling the wet-assembly of nanoparticles.

PubMed

Zhao, Lin; Song, Cheng; Zhang, Miaoxin; Zheng, Yongmei

2014-09-21

A kind of bioinspired heterostructured bead-on-string fiber (BHBF), composed of poly-(methyl methacrylate) (PMMA) and titanium tetrachloride (TiCl4) hydrolyzed nanoparticles, was prepared via integrating a wet-assembly system, including PMMA electrospinning, fog of nanoparticles and water coalescence at multi-stages. The wet-assembly of BHBF was regulated by the difference in surface energy and Laplace pressure. Especially, BHBF is characteristic of a hydrophilic rough bead for excellent water collection ability.

Efficient quantum pseudorandomness with simple graph states

NASA Astrophysics Data System (ADS)

Mezher, Rawad; Ghalbouni, Joe; Dgheim, Joseph; Markham, Damian

2018-02-01

Measurement based (MB) quantum computation allows for universal quantum computing by measuring individual qubits prepared in entangled multipartite states, known as graph states. Unless corrected for, the randomness of the measurements leads to the generation of ensembles of random unitaries, where each random unitary is identified with a string of possible measurement results. We show that repeating an MB scheme an efficient number of times, on a simple graph state, with measurements at fixed angles and no feedforward corrections, produces a random unitary ensemble that is an ɛ -approximate t design on n qubits. Unlike previous constructions, the graph is regular and is also a universal resource for measurement based quantum computing, closely related to the brickwork state.

Self-force on an electric dipole in the spacetime of a cosmic string

DOE Office of Scientific and Technical Information (OSTI.GOV)

Muniz, C.R., E-mail: celiomuniz@yahoo.com; Bezerra, V.B., E-mail: valdir@ufpb.br

2014-01-15

We calculate the electrostatic self-force on an electric dipole in the spacetime generated by a static, thin, infinite and straight cosmic string. The electric dipole is held fixed in different configurations, namely, parallel, perpendicular to the cosmic string and oriented along the azimuthal direction around this topological defect, which is stretched along the z axis. We show that the self-force is equivalent to an interaction of the electric dipole with an effective dipole moment which depends on the linear mass density of the cosmic string and on the configuration. The plots of the self-forces as functions of the parameter whichmore » determines the angular deficit of the cosmic string are shown for those different configurations. -- Highlights: •Review of regularized Green’s function applied to the problem. •Self-force on an electric dipole in the string spacetime for some orientations. •Representation via graphs of the self-forces versus angular parameter of the cosmic string. •Self-force induced by the string seen as an interaction between two dipoles. •Discussion about the superposition principle in this non-trivial background.« less

deBGR: an efficient and near-exact representation of the weighted de Bruijn graph

PubMed Central

Pandey, Prashant; Bender, Michael A.; Johnson, Rob; Patro, Rob

2017-01-01

Abstract Motivation: Almost all de novo short-read genome and transcriptome assemblers start by building a representation of the de Bruijn Graph of the reads they are given as input. Even when other approaches are used for subsequent assembly (e.g. when one is using ‘long read’ technologies like those offered by PacBio or Oxford Nanopore), efficient k-mer processing is still crucial for accurate assembly, and state-of-the-art long-read error-correction methods use de Bruijn Graphs. Because of the centrality of de Bruijn Graphs, researchers have proposed numerous methods for representing de Bruijn Graphs compactly. Some of these proposals sacrifice accuracy to save space. Further, none of these methods store abundance information, i.e. the number of times that each k-mer occurs, which is key in transcriptome assemblers. Results: We present a method for compactly representing the weighted de Bruijn Graph (i.e. with abundance information) with essentially no errors. Our representation yields zero errors while increasing the space requirements by less than 18–28% compared to the approximate de Bruijn graph representation in Squeakr. Our technique is based on a simple invariant that all weighted de Bruijn Graphs must satisfy, and hence is likely to be of general interest and applicable in most weighted de Bruijn Graph-based systems. Availability and implementation: https://github.com/splatlab/debgr. Contact: rob.patro@cs.stonybrook.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:28881995

Positional bias in variant calls against draft reference assemblies.

PubMed

Briskine, Roman V; Shimizu, Kentaro K

2017-03-28

Whole genome resequencing projects may implement variant calling using draft reference genomes assembled de novo from short-read libraries. Despite lower quality of such assemblies, they allowed researchers to extend a wide range of population genetic and genome-wide association analyses to non-model species. As the variant calling pipelines are complex and involve many software packages, it is important to understand inherent biases and limitations at each step of the analysis. In this article, we report a positional bias present in variant calling performed against draft reference assemblies constructed from de Bruijn or string overlap graphs. We assessed how frequently variants appeared at each position counted from ends of a contig or scaffold sequence, and discovered unexpectedly high number of variants at the positions related to the length of either k-mers or reads used for the assembly. We detected the bias in both publicly available draft assemblies from Assemblathon 2 competition as well as in the assemblies we generated from our simulated short-read data. Simulations confirmed that the bias causing variants are predominantly false positives induced by reads from spatially distant repeated sequences. The bias is particularly strong in contig assemblies. Scaffolding does not eliminate the bias but tends to mitigate it because of the changes in variants' relative positions and alterations in read alignments. The bias can be effectively reduced by filtering out the variants that reside in repetitive elements. Draft genome sequences generated by several popular assemblers appear to be susceptible to the positional bias potentially affecting many resequencing projects in non-model species. The bias is inherent to the assembly algorithms and arises from their particular handling of repeated sequences. It is recommended to reduce the bias by filtering especially if higher-quality genome assembly cannot be achieved. Our findings can help other researchers to improve the quality of their variant data sets and reduce artefactual findings in downstream analyses.

Nanoparticle string formation on self-assembled copolymer films

NASA Astrophysics Data System (ADS)

Jenczyk, J.; Woźniak-Budych, M.; Jarek, M.; Grzeszkowiak, M.; Nowaczyk, G.; Jurga, S.

2017-06-01

Nanoparticles (NP) string formations on self-assembled copolymeric substrates has been observed. These "thread of beads" like structures develop via simple colloidal droplet evaporation during meniscus rim withdrawal on polystyrene-block-poly(ethylene oxide) (PS-PEO) copolymer surfaces. It is shown that the process is triggered by the presence of the substrate impurities, which lead to NP aggregate formations serving as string initiation sites. The growth mechanism of these linear structures seems to be capillarity-driven. Moreover, there is an exceptional alignment coupling between NP strips and the block copolymer (BC) domains observed. BC directed NP assembly stems from a gold nanocrystal surface functionalization, which introduces selective affinity for one particular type of BC domain. The presented results reveal a potential fabrication method of NP wires characterized by remarkably low width and thickness comparable with the size of the individual constituent NP.

Deciding Termination for Ancestor Match- Bounded String Rewriting Systems

NASA Technical Reports Server (NTRS)

Geser, Alfons; Hofbauer, Dieter; Waldmann, Johannes

2005-01-01

Termination of a string rewriting system can be characterized by termination on suitable recursively defined languages. This kind of termination criteria has been criticized for its lack of automation. In an earlier paper we have shown how to construct an automated termination criterion if the recursion is aligned with the rewrite relation. We have demonstrated the technique with Dershowitz's forward closure criterion. In this paper we show that a different approach is suitable when the recursion is aligned with the inverse of the rewrite relation. We apply this idea to Kurth's ancestor graphs and obtain ancestor match-bounded string rewriting systems. Termination is shown to be decidable for this class. The resulting method improves upon those based on match-boundedness or inverse match-boundedness.

A simplifying feature of the heterotic one loop four graviton amplitude

NASA Astrophysics Data System (ADS)

Basu, Anirban

2018-01-01

We show that the weight four modular graph functions that contribute to the integrand of the t8t8D4R4 term at one loop in heterotic string theory do not require regularization, and hence the integrand is simple. This is unlike the graphs that contribute to the integrands of the other gravitational terms at this order in the low momentum expansion, and these integrands require regularization. This property persists for an infinite number of terms in the effective action, and their integrands do not require regularization. We find non-trivial relations between weight four graphs of distinct topologies that do not require regularization by performing trivial manipulations using auxiliary diagrams.

LightAssembler: fast and memory-efficient assembly algorithm for high-throughput sequencing reads.

PubMed

El-Metwally, Sara; Zakaria, Magdi; Hamza, Taher

2016-11-01

The deluge of current sequenced data has exceeded Moore's Law, more than doubling every 2 years since the next-generation sequencing (NGS) technologies were invented. Accordingly, we will able to generate more and more data with high speed at fixed cost, but lack the computational resources to store, process and analyze it. With error prone high throughput NGS reads and genomic repeats, the assembly graph contains massive amount of redundant nodes and branching edges. Most assembly pipelines require this large graph to reside in memory to start their workflows, which is intractable for mammalian genomes. Resource-efficient genome assemblers combine both the power of advanced computing techniques and innovative data structures to encode the assembly graph efficiently in a computer memory. LightAssembler is a lightweight assembly algorithm designed to be executed on a desktop machine. It uses a pair of cache oblivious Bloom filters, one holding a uniform sample of [Formula: see text]-spaced sequenced [Formula: see text]-mers and the other holding [Formula: see text]-mers classified as likely correct, using a simple statistical test. LightAssembler contains a light implementation of the graph traversal and simplification modules that achieves comparable assembly accuracy and contiguity to other competing tools. Our method reduces the memory usage by [Formula: see text] compared to the resource-efficient assemblers using benchmark datasets from GAGE and Assemblathon projects. While LightAssembler can be considered as a gap-based sequence assembler, different gap sizes result in an almost constant assembly size and genome coverage. https://github.com/SaraEl-Metwally/LightAssembler CONTACT: sarah_almetwally4@mans.edu.egSupplementary information: Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Automated solar module assembly line

NASA Technical Reports Server (NTRS)

Bycer, M.

1980-01-01

The solar module assembly machine which Kulicke and Soffa delivered under this contract is a cell tabbing and stringing machine, and capable of handling a variety of cells and assembling strings up to 4 feet long which then can be placed into a module array up to 2 feet by 4 feet in a series of parallel arrangement, and in a straight or interdigitated array format. The machine cycle is 5 seconds per solar cell. This machine is primarily adapted to 3 inch diameter round cells with two tabs between cells. Pulsed heat is used as the bond technique for solar cell interconnects. The solar module assembly machine unloads solar cells from a cassette, automatically orients them, applies flux and solders interconnect ribbons onto the cells. It then inverts the tabbed cells, connects them into cell strings, and delivers them into a module array format using a track mounted vacuum lance, from which they are taken to test and cleaning benches prior to final encapsulation into finished solar modules. Throughout the machine the solar cell is handled very carefully, and any contact with the collector side of the cell is avoided or minimized.

TISK 1.0: An easy-to-use Python implementation of the time-invariant string kernel model of spoken word recognition.

PubMed

You, Heejo; Magnuson, James S

2018-06-01

This article describes a new Python distribution of TISK, the time-invariant string kernel model of spoken word recognition (Hannagan et al. in Frontiers in Psychology, 4, 563, 2013). TISK is an interactive-activation model similar to the TRACE model (McClelland & Elman in Cognitive Psychology, 18, 1-86, 1986), but TISK replaces most of TRACE's reduplicated, time-specific nodes with theoretically motivated time-invariant, open-diphone nodes. We discuss the utility of computational models as theory development tools, the relative merits of TISK as compared to other models, and the ways in which researchers might use this implementation to guide their own research and theory development. We describe a TISK model that includes features that facilitate in-line graphing of simulation results, integration with standard Python data formats, and graph and data export. The distribution can be downloaded from https://github.com/maglab-uconn/TISK1.0 .

An investigation of Hebbian phase sequences as assembly graphs

PubMed Central

Almeida-Filho, Daniel G.; Lopes-dos-Santos, Vitor; Vasconcelos, Nivaldo A. P.; Miranda, José G. V.; Tort, Adriano B. L.; Ribeiro, Sidarta

2014-01-01

Hebb proposed that synapses between neurons that fire synchronously are strengthened, forming cell assemblies and phase sequences. The former, on a shorter scale, are ensembles of synchronized cells that function transiently as a closed processing system; the latter, on a larger scale, correspond to the sequential activation of cell assemblies able to represent percepts and behaviors. Nowadays, the recording of large neuronal populations allows for the detection of multiple cell assemblies. Within Hebb's theory, the next logical step is the analysis of phase sequences. Here we detected phase sequences as consecutive assembly activation patterns, and then analyzed their graph attributes in relation to behavior. We investigated action potentials recorded from the adult rat hippocampus and neocortex before, during and after novel object exploration (experimental periods). Within assembly graphs, each assembly corresponded to a node, and each edge corresponded to the temporal sequence of consecutive node activations. The sum of all assembly activations was proportional to firing rates, but the activity of individual assemblies was not. Assembly repertoire was stable across experimental periods, suggesting that novel experience does not create new assemblies in the adult rat. Assembly graph attributes, on the other hand, varied significantly across behavioral states and experimental periods, and were separable enough to correctly classify experimental periods (Naïve Bayes classifier; maximum AUROCs ranging from 0.55 to 0.99) and behavioral states (waking, slow wave sleep, and rapid eye movement sleep; maximum AUROCs ranging from 0.64 to 0.98). Our findings agree with Hebb's view that assemblies correspond to primitive building blocks of representation, nearly unchanged in the adult, while phase sequences are labile across behavioral states and change after novel experience. The results are compatible with a role for phase sequences in behavior and cognition. PMID:24782715

String model for the dynamics of glass-forming liquids

PubMed Central

Pazmiño Betancourt, Beatriz A.; Douglas, Jack F.; Starr, Francis W.

2014-01-01

We test the applicability of a living polymerization theory to describe cooperative string-like particle rearrangement clusters (strings) observed in simulations of a coarse-grained polymer melt. The theory quantitatively describes the interrelation between the average string length L, configurational entropy Sconf, and the order parameter for string assembly Φ without free parameters. Combining this theory with the Adam-Gibbs model allows us to predict the relaxation time τ in a lower temperature T range than accessible by current simulations. In particular, the combined theories suggest a return to Arrhenius behavior near Tg and a low T residual entropy, thus avoiding a Kauzmann “entropy crisis.” PMID:24880303

String model for the dynamics of glass-forming liquids.

PubMed

Pazmiño Betancourt, Beatriz A; Douglas, Jack F; Starr, Francis W

2014-05-28

We test the applicability of a living polymerization theory to describe cooperative string-like particle rearrangement clusters (strings) observed in simulations of a coarse-grained polymer melt. The theory quantitatively describes the interrelation between the average string length L, configurational entropy Sconf, and the order parameter for string assembly Φ without free parameters. Combining this theory with the Adam-Gibbs model allows us to predict the relaxation time τ in a lower temperature T range than accessible by current simulations. In particular, the combined theories suggest a return to Arrhenius behavior near Tg and a low T residual entropy, thus avoiding a Kauzmann "entropy crisis."

The "No Crossing Constraint" in Autosegmental Phonology.

ERIC Educational Resources Information Center

Coleman, John; Local, John

A discussion of autosegmental phonology (AP), a theory of phonological representation that uses graphs rather than strings as the central data structure, considers its principal constraint, the "No Crossing Constraint" (NCC). The NCC is the statement that in a well-formed autosegmental diagram, lines of association may not cross. After…

An efficient and scalable graph modeling approach for capturing information at different levels in next generation sequencing reads

PubMed Central

2013-01-01

Background Next generation sequencing technologies have greatly advanced many research areas of the biomedical sciences through their capability to generate massive amounts of genetic information at unprecedented rates. The advent of next generation sequencing has led to the development of numerous computational tools to analyze and assemble the millions to billions of short sequencing reads produced by these technologies. While these tools filled an important gap, current approaches for storing, processing, and analyzing short read datasets generally have remained simple and lack the complexity needed to efficiently model the produced reads and assemble them correctly. Results Previously, we presented an overlap graph coarsening scheme for modeling read overlap relationships on multiple levels. Most current read assembly and analysis approaches use a single graph or set of clusters to represent the relationships among a read dataset. Instead, we use a series of graphs to represent the reads and their overlap relationships across a spectrum of information granularity. At each information level our algorithm is capable of generating clusters of reads from the reduced graph, forming an integrated graph modeling and clustering approach for read analysis and assembly. Previously we applied our algorithm to simulated and real 454 datasets to assess its ability to efficiently model and cluster next generation sequencing data. In this paper we extend our algorithm to large simulated and real Illumina datasets to demonstrate that our algorithm is practical for both sequencing technologies. Conclusions Our overlap graph theoretic algorithm is able to model next generation sequencing reads at various levels of granularity through the process of graph coarsening. Additionally, our model allows for efficient representation of the read overlap relationships, is scalable for large datasets, and is practical for both Illumina and 454 sequencing technologies. PMID:24564333

Graph Structured Program Evolution: Evolution of Loop Structures

NASA Astrophysics Data System (ADS)

Shirakawa, Shinichi; Nagao, Tomoharu

Recently, numerous automatic programming techniques have been developed and applied in various fields. A typical example is genetic programming (GP), and various extensions and representations of GP have been proposed thus far. Complex programs and hand-written programs, however, may contain several loops and handle multiple data types. In this chapter, we propose a new method called Graph Structured Program Evolution (GRAPE). The representation of GRAPE is a graph structure; therefore, it can represent branches and loops using this structure. Each programis constructed as an arbitrary directed graph of nodes and a data set. The GRAPE program handles multiple data types using the data set for each type, and the genotype of GRAPE takes the form of a linear string of integers. We apply GRAPE to three test problems, factorial, exponentiation, and list sorting, and demonstrate that the optimum solution in each problem is obtained by the GRAPE system.

Representations of mechanical assembly sequences

NASA Technical Reports Server (NTRS)

Homem De Mello, Luiz S.; Sanderson, Arthur C.

1991-01-01

Five types of representations for assembly sequences are reviewed: the directed graph of feasible assembly sequences, the AND/OR graph of feasible assembly sequences, the set of establishment conditions, and two types of sets of precedence relationships. (precedence relationships between the establishment of one connection between parts and the establishment of another connection, and precedence relationships between the establishment of one connection and states of the assembly process). The mappings of one representation into the others are established. The correctness and completeness of these representations are established. The results presented are needed in the proof of correctness and completeness of algorithms for the generation of mechanical assembly sequences.

Directional antennas for electromagnetic mapping in a borehole

DOEpatents

Reagor, David Wesley; Nguyen, Doan Ngoc; Ashworth, Stephen Paul

2017-05-02

A bottom hole assembly used for a field operation is disclosed herein. The bottom hole assembly can include at least one directional antenna disposed on an outer surface of a first tubing pipe of a tubing string, where the at least one directional antenna receives a first electric current from at least one power source, where the first electric current generates a first magnetic field that radiates from the at least one directional antenna into a formation. The bottom hole assembly can also include at least one receiver disposed on a second tubing pipe of the tubing string, where the at least one receiver receives the first magnetic field returning from the formation.

Twistor-strings and gravity tree amplitudes

NASA Astrophysics Data System (ADS)

Adamo, Tim; Mason, Lionel

2013-04-01

Recently we discussed how Einstein supergravity tree amplitudes might be obtained from the original Witten and Berkovits twistor-string theory when external conformal gravitons are restricted to be Einstein gravitons. Here we obtain a more systematic understanding of the relationship between conformal and Einstein gravity amplitudes in that twistor-string theory. We show that although it does not in general yield Einstein amplitudes, we can nevertheless obtain some partial twistor-string interpretation of the remarkable formulae recently been found by Hodges and generalized to all tree amplitudes by Cachazo and Skinner. The Hodges matrix and its higher degree generalizations encode the world sheet correlators of the twistor string. These matrices control both Einstein amplitudes and those of the conformal gravity arising from the Witten and Berkovits twistor-string. Amplitudes in the latter case arise from products of the diagonal elements of the generalized Hodges matrices and reduced determinants give the former. The reduced determinants arise if the contractions in the worldsheet correlator are restricted to form connected trees at MHV. The (generalized) Hodges matrices arise as weighted Laplacian matrices for the graph of possible contractions in the correlators and the reduced determinants of these weighted Laplacian matrices give the sum of the connected tree contributions by an extension of the matrix-tree theorem.

Xander: employing a novel method for efficient gene-targeted metagenomic assembly

DOE PAGES

Wang, Qiong; Fish, Jordan A.; Gilman, Mariah; ...

2015-08-05

Here, metagenomics can provide important insight into microbial communities. However, assembling metagenomic datasets has proven to be computationally challenging. Current methods often assemble only fragmented partial genes. We present a novel method for targeting assembly of specific protein-coding genes. This method combines a de Bruijn graph, as used in standard assembly approaches, and a protein profile hidden Markov model (HMM) for the gene of interest, as used in standard annotation approaches. These are used to create a novel combined weighted assembly graph. Xander performs both assembly and annotation concomitantly using information incorporated in this graph. We demonstrate the utility ofmore » this approach by assembling contigs for one phylogenetic marker gene and for two functional marker genes, first on Human Microbiome Project (HMP)-defined community Illumina data and then on 21 rhizosphere soil metagenomic datasets from three different crops totaling over 800 Gbp of unassembled data. We compared our method to a recently published bulk metagenome assembly method and a recently published gene-targeted assembler and found our method produced more, longer, and higher quality gene sequences. In conclusion, xander combines gene assignment with the rapid assembly of full-length or near full-length functional genes from metagenomic data without requiring bulk assembly or post-processing to find genes of interest. HMMs used for assembly can be tailored to the targeted genes, allowing flexibility to improve annotation over generic annotation pipelines.« less

F-RAG: Generating Atomic Coordinates from RNA Graphs by Fragment Assembly.

PubMed

Jain, Swati; Schlick, Tamar

2017-11-24

Coarse-grained models represent attractive approaches to analyze and simulate ribonucleic acid (RNA) molecules, for example, for structure prediction and design, as they simplify the RNA structure to reduce the conformational search space. Our structure prediction protocol RAGTOP (RNA-As-Graphs Topology Prediction) represents RNA structures as tree graphs and samples graph topologies to produce candidate graphs. However, for a more detailed study and analysis, construction of atomic from coarse-grained models is required. Here we present our graph-based fragment assembly algorithm (F-RAG) to convert candidate three-dimensional (3D) tree graph models, produced by RAGTOP into atomic structures. We use our related RAG-3D utilities to partition graphs into subgraphs and search for structurally similar atomic fragments in a data set of RNA 3D structures. The fragments are edited and superimposed using common residues, full atomic models are scored using RAGTOP's knowledge-based potential, and geometries of top scoring models is optimized. To evaluate our models, we assess all-atom RMSDs and Interaction Network Fidelity (a measure of residue interactions) with respect to experimentally solved structures and compare our results to other fragment assembly programs. For a set of 50 RNA structures, we obtain atomic models with reasonable geometries and interactions, particularly good for RNAs containing junctions. Additional improvements to our protocol and databases are outlined. These results provide a good foundation for further work on RNA structure prediction and design applications. Copyright © 2017 Elsevier Ltd. All rights reserved.

Meraculous2

DOE Office of Scientific and Technical Information (OSTI.GOV)

2014-06-01

meraculous2 is a whole genome shotgun assembler for short-reads that is capable of assembling large, polymorphic genomes with modest computational requirements. Meraculous relies on an efficient and conservative traversal of the subgraph of the k-mer (deBruijn) graph of oligonucleotides with unique high quality extensions in the dataset, avoiding an explicit error correction step as used in other short-read assemblers. Additional features include (1) handling of allelic variation using "bubble" structures within the deBruijn graph, (2) gap closing of repetitive and low quality regions using localized assemblies, and (3) an improved scaffolding algorithm that produces more complete assemblies without compromising onmore » scaffolding accuracy« less

Xander: employing a novel method for efficient gene-targeted metagenomic assembly.

PubMed

Wang, Qiong; Fish, Jordan A; Gilman, Mariah; Sun, Yanni; Brown, C Titus; Tiedje, James M; Cole, James R

2015-01-01

Metagenomics can provide important insight into microbial communities. However, assembling metagenomic datasets has proven to be computationally challenging. Current methods often assemble only fragmented partial genes. We present a novel method for targeting assembly of specific protein-coding genes. This method combines a de Bruijn graph, as used in standard assembly approaches, and a protein profile hidden Markov model (HMM) for the gene of interest, as used in standard annotation approaches. These are used to create a novel combined weighted assembly graph. Xander performs both assembly and annotation concomitantly using information incorporated in this graph. We demonstrate the utility of this approach by assembling contigs for one phylogenetic marker gene and for two functional marker genes, first on Human Microbiome Project (HMP)-defined community Illumina data and then on 21 rhizosphere soil metagenomic datasets from three different crops totaling over 800 Gbp of unassembled data. We compared our method to a recently published bulk metagenome assembly method and a recently published gene-targeted assembler and found our method produced more, longer, and higher quality gene sequences. Xander combines gene assignment with the rapid assembly of full-length or near full-length functional genes from metagenomic data without requiring bulk assembly or post-processing to find genes of interest. HMMs used for assembly can be tailored to the targeted genes, allowing flexibility to improve annotation over generic annotation pipelines. This method is implemented as open source software and is available at https://github.com/rdpstaff/Xander_assembler.

Leak checker data logging system

DOEpatents

Gannon, J.C.; Payne, J.J.

1996-09-03

A portable, high speed, computer-based data logging system for field testing systems or components located some distance apart employs a plurality of spaced mass spectrometers and is particularly adapted for monitoring the vacuum integrity of a long string of a superconducting magnets such as used in high energy particle accelerators. The system provides precise tracking of a gas such as helium through the magnet string when the helium is released into the vacuum by monitoring the spaced mass spectrometers allowing for control, display and storage of various parameters involved with leak detection and localization. A system user can observe the flow of helium through the magnet string on a real-time basis hour the exact moment of opening of the helium input valve. Graph reading can be normalized to compensate for magnet sections that deplete vacuum faster than other sections between testing to permit repetitive testing of vacuum integrity in reduced time. 18 figs.

Leak checker data logging system

DOEpatents

Gannon, Jeffrey C.; Payne, John J.

1996-01-01

A portable, high speed, computer-based data logging system for field testing systems or components located some distance apart employs a plurality of spaced mass spectrometers and is particularly adapted for monitoring the vacuum integrity of a long string of a superconducting magnets such as used in high energy particle accelerators. The system provides precise tracking of a gas such as helium through the magnet string when the helium is released into the vacuum by monitoring the spaced mass spectrometers allowing for control, display and storage of various parameters involved with leak detection and localization. A system user can observe the flow of helium through the magnet string on a real-time basis hour the exact moment of opening of the helium input valve. Graph reading can be normalized to compensate for magnet sections that deplete vacuum faster than other sections between testing to permit repetitive testing of vacuum integrity in reduced time.

PhAST: pharmacophore alignment search tool.

PubMed

Hähnke, Volker; Hofmann, Bettina; Grgat, Tomislav; Proschak, Ewgenij; Steinhilber, Dieter; Schneider, Gisbert

2009-04-15

We present a ligand-based virtual screening technique (PhAST) for rapid hit and lead structure searching in large compound databases. Molecules are represented as strings encoding the distribution of pharmacophoric features on the molecular graph. In contrast to other text-based methods using SMILES strings, we introduce a new form of text representation that describes the pharmacophore of molecules. This string representation opens the opportunity for revealing functional similarity between molecules by sequence alignment techniques in analogy to homology searching in protein or nucleic acid sequence databases. We favorably compared PhAST with other current ligand-based virtual screening methods in a retrospective analysis using the BEDROC metric. In a prospective application, PhAST identified two novel inhibitors of 5-lipoxygenase product formation with minimal experimental effort. This outcome demonstrates the applicability of PhAST to drug discovery projects and provides an innovative concept of sequence-based compound screening with substantial scaffold hopping potential. 2008 Wiley Periodicals, Inc.

SWAP-Assembler 2: Optimization of De Novo Genome Assembler at Large Scale

DOE Office of Scientific and Technical Information (OSTI.GOV)

Meng, Jintao; Seo, Sangmin; Balaji, Pavan

2016-08-16

In this paper, we analyze and optimize the most time-consuming steps of the SWAP-Assembler, a parallel genome assembler, so that it can scale to a large number of cores for huge genomes with the size of sequencing data ranging from terabyes to petabytes. According to the performance analysis results, the most time-consuming steps are input parallelization, k-mer graph construction, and graph simplification (edge merging). For the input parallelization, the input data is divided into virtual fragments with nearly equal size, and the start position and end position of each fragment are automatically separated at the beginning of the reads. Inmore » k-mer graph construction, in order to improve the communication efficiency, the message size is kept constant between any two processes by proportionally increasing the number of nucleotides to the number of processes in the input parallelization step for each round. The memory usage is also decreased because only a small part of the input data is processed in each round. With graph simplification, the communication protocol reduces the number of communication loops from four to two loops and decreases the idle communication time. The optimized assembler is denoted as SWAP-Assembler 2 (SWAP2). In our experiments using a 1000 Genomes project dataset of 4 terabytes (the largest dataset ever used for assembling) on the supercomputer Mira, the results show that SWAP2 scales to 131,072 cores with an efficiency of 40%. We also compared our work with both the HipMER assembler and the SWAP-Assembler. On the Yanhuang dataset of 300 gigabytes, SWAP2 shows a 3X speedup and 4X better scalability compared with the HipMer assembler and is 45 times faster than the SWAP-Assembler. The SWAP2 software is available at https://sourceforge.net/projects/swapassembler.« less

Efficient Graph Based Assembly of Short-Read Sequences on Hybrid Core Architecture

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sczyrba, Alex; Pratap, Abhishek; Canon, Shane

2011-03-22

Advanced architectures can deliver dramatically increased throughput for genomics and proteomics applications, reducing time-to-completion in some cases from days to minutes. One such architecture, hybrid-core computing, marries a traditional x86 environment with a reconfigurable coprocessor, based on field programmable gate array (FPGA) technology. In addition to higher throughput, increased performance can fundamentally improve research quality by allowing more accurate, previously impractical approaches. We will discuss the approach used by Convey?s de Bruijn graph constructor for short-read, de-novo assembly. Bioinformatics applications that have random access patterns to large memory spaces, such as graph-based algorithms, experience memory performance limitations on cache-based x86more » servers. Convey?s highly parallel memory subsystem allows application-specific logic to simultaneously access 8192 individual words in memory, significantly increasing effective memory bandwidth over cache-based memory systems. Many algorithms, such as Velvet and other de Bruijn graph based, short-read, de-novo assemblers, can greatly benefit from this type of memory architecture. Furthermore, small data type operations (four nucleotides can be represented in two bits) make more efficient use of logic gates than the data types dictated by conventional programming models.JGI is comparing the performance of Convey?s graph constructor and Velvet on both synthetic and real data. We will present preliminary results on memory usage and run time metrics for various data sets with different sizes, from small microbial and fungal genomes to very large cow rumen metagenome. For genomes with references we will also present assembly quality comparisons between the two assemblers.« less

A note on probabilistic models over strings: the linear algebra approach.

PubMed

Bouchard-Côté, Alexandre

2013-12-01

Probabilistic models over strings have played a key role in developing methods that take into consideration indels as phylogenetically informative events. There is an extensive literature on using automata and transducers on phylogenies to do inference on these probabilistic models, in which an important theoretical question is the complexity of computing the normalization of a class of string-valued graphical models. This question has been investigated using tools from combinatorics, dynamic programming, and graph theory, and has practical applications in Bayesian phylogenetics. In this work, we revisit this theoretical question from a different point of view, based on linear algebra. The main contribution is a set of results based on this linear algebra view that facilitate the analysis and design of inference algorithms on string-valued graphical models. As an illustration, we use this method to give a new elementary proof of a known result on the complexity of inference on the "TKF91" model, a well-known probabilistic model over strings. Compared to previous work, our proving method is easier to extend to other models, since it relies on a novel weak condition, triangular transducers, which is easy to establish in practice. The linear algebra view provides a concise way of describing transducer algorithms and their compositions, opens the possibility of transferring fast linear algebra libraries (for example, based on GPUs), as well as low rank matrix approximation methods, to string-valued inference problems.

Modeling Acceleration of a System of Two Objects Using the Concept of Limits

ERIC Educational Resources Information Center

Sokolowski, Andrzej

2018-01-01

Traditional school laboratory exercises on a system of moving objects connected by strings involve deriving expressions for the system acceleration, a = (?F)/m, and sketching a graph of acceleration vs. force. While being in the form of rational functions, these expressions present great opportunities for broadening the scope of the analysis by…

"How Long Is a Piece of String?"

ERIC Educational Resources Information Center

Aitchison, Kate

2001-01-01

Provides a lesson plan designed to form three one-hour sessions with mixed ability groups of 11-12 year olds. The activity involves students estimating road distances by counting the number of map grid lines crossed in going from A to B. The activity is designed to introduce students to graphing calculators. Screenshots from the calculator are…

Liquid metal ion source assembly for external ion injection into an electron string ion source (ESIS)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Segal, M. J., E-mail: mattiti@gmail.com; University of Cape Town, Rondebosch, Cape Town 7700; Bark, R. A.

An assembly for a commercial Ga{sup +} liquid metal ion source in combination with an ion transportation and focusing system, a pulse high-voltage quadrupole deflector, and a beam diagnostics system has been constructed in the framework of the iThemba LABS (Cape Town, South Africa)—JINR (Dubna, Russia) collaboration. First, results on Ga{sup +} ion beam commissioning will be presented. Outlook of further experiments for measurements of charge breeding efficiency in the electron string ion source with the use of external injection of Ga{sup +} and Au{sup +} ion beams will be reported as well.

System and method for damping vibration in a drill string

DOEpatents

Wassell, Mark Ellsworth [Kingwood, TX; Turner, William Evans [Durham, CT; Burgess, Daniel E [Middletown, CT; Perry, Carl Allison [Middletown, CT

2007-05-22

A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.

System and method for damping vibration in a drill string

DOEpatents

Wassell, Mark Ellsworth [Kingwood, TX; Turner, William Evans [Durham, CT; Burgess, Daniel E [Middletown, CT; Perry, Carl Allison [Middletown, CT

2008-05-27

A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.

System and method for damping vibration in a drill string

DOEpatents

Wassell, Mark Ellsworth; Turner, William Evans; Burgess, Daniel E.; Perry, Carl Allison

2012-08-14

A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.

System and method for damping vibration in a drill string

DOEpatents

Wassell, Mark Ellsworth; Turner, William Evans; Burgess, Daniel E; Perry, Carl Allison

2014-03-04

A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.

System and method for damping vibration in a drill string

DOEpatents

Wassell, Mark Ellsworth [Kingwood, TX; Turner, William Evans [Durham, CT; Burgess, Daniel E [Middletown, CT; Perry, Carl Allison [Middletown, CT

2011-08-16

A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.

System and method for damping vibration in a drill string

DOEpatents

Wassell, Mark Ellsworth; Turner, William Evans; Burgess, Daniel E; Perry, Carl Allison

2015-02-03

A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.

Distributed downhole drilling network

DOEpatents

Hall, David R.; Hall, Jr., H. Tracy; Fox, Joe; Pixton, David S.

2006-11-21

A high-speed downhole network providing real-time data from downhole components of a drilling strings includes a bottom-hole node interfacing to a bottom-hole assembly located proximate the bottom end of a drill string. A top-hole node is connected proximate the top end of the drill string. One or several intermediate nodes are located along the drill string between the bottom-hole node and the top-hole node. The intermediate nodes are configured to receive and transmit data packets transmitted between the bottom-hole node and the top-hole node. A communications link, integrated into the drill string, is used to operably connect the bottom-hole node, the intermediate nodes, and the top-hole node. In selected embodiments, a personal or other computer may be connected to the top-hole node, to analyze data received from the intermediate and bottom-hole nodes.

Self-assembly of a nanotube from a black phosphorus nanoribbon on a string of fullerenes at low temperature.

PubMed

Cai, Kun; Shi, Jiao; Liu, Ling-Nan; Qin, Qing-Hua

2017-09-13

A string of fullerenes is used for generating a nanotube by self-assembly of a black phosphorus (BP) nanoribbon at a temperature of 8 K. Among the fullerenes in the string, there are at least two fixed fullerenes placed along the edge of the BP ribbon for keeping its configuration stability during winding. By way of molecular dynamics simulations, it is found that successful generation of a BP nanotube depends on the bending stiffness of the ribbon and the attraction between the fullerenes and the ribbon. When the attraction is strong enough, the two edges (along the zigzag direction) of the BP ribbon will be able to bond covalently to form a nanotube. By the molecular dynamics approach, the maximum width of the BP ribbon capable of forming a nanotube with a perfect length is investigated in three typical models. The maximum width of the BP ribbon becomes larger with the string containing more fullerenes. This finding reveals a way to control the width of the BP ribbon which forms a nanotube. It provides guidance for fabricating a BP nanotube with a specified length, the same as to the width of the ribbon.

Coordinates and intervals in graph-based reference genomes.

PubMed

Rand, Knut D; Grytten, Ivar; Nederbragt, Alexander J; Storvik, Geir O; Glad, Ingrid K; Sandve, Geir K

2017-05-18

It has been proposed that future reference genomes should be graph structures in order to better represent the sequence diversity present in a species. However, there is currently no standard method to represent genomic intervals, such as the positions of genes or transcription factor binding sites, on graph-based reference genomes. We formalize offset-based coordinate systems on graph-based reference genomes and introduce methods for representing intervals on these reference structures. We show the advantage of our methods by representing genes on a graph-based representation of the newest assembly of the human genome (GRCh38) and its alternative loci for regions that are highly variable. More complex reference genomes, containing alternative loci, require methods to represent genomic data on these structures. Our proposed notation for genomic intervals makes it possible to fully utilize the alternative loci of the GRCh38 assembly and potential future graph-based reference genomes. We have made a Python package for representing such intervals on offset-based coordinate systems, available at https://github.com/uio-cels/offsetbasedgraph . An interactive web-tool using this Python package to visualize genes on a graph created from GRCh38 is available at https://github.com/uio-cels/genomicgraphcoords .

Segmentation of touching handwritten Japanese characters using the graph theory method

NASA Astrophysics Data System (ADS)

Suwa, Misako

2000-12-01

Projection analysis methods have been widely used to segment Japanese character strings. However, if adjacent characters have overhanging strokes or a touching point doesn't correspond to the histogram minimum, the methods are prone to result in errors. In contrast, non-projection analysis methods being proposed for use on numerals or alphabet characters cannot be simply applied for Japanese characters because of the differences in the structure of the characters. Based on the oversegmenting strategy, a new pre-segmentation method is presented in this paper: touching patterns are represented as graphs and touching strokes are regarded as the elements of proper edge cutsets. By using the graph theoretical technique, the cutset martrix is calculated. Then, by applying pruning rules, potential touching strokes are determined and the patterns are over segmented. Moreover, this algorithm was confirmed to be valid for touching patterns with overhanging strokes and doubly connected patterns in simulations.

Automatic Molecular Design using Evolutionary Techniques

NASA Technical Reports Server (NTRS)

Globus, Al; Lawton, John; Wipke, Todd; Saini, Subhash (Technical Monitor)

1998-01-01

Molecular nanotechnology is the precise, three-dimensional control of materials and devices at the atomic scale. An important part of nanotechnology is the design of molecules for specific purposes. This paper describes early results using genetic software techniques to automatically design molecules under the control of a fitness function. The fitness function must be capable of determining which of two arbitrary molecules is better for a specific task. The software begins by generating a population of random molecules. The population is then evolved towards greater fitness by randomly combining parts of the better individuals to create new molecules. These new molecules then replace some of the worst molecules in the population. The unique aspect of our approach is that we apply genetic crossover to molecules represented by graphs, i.e., sets of atoms and the bonds that connect them. We present evidence suggesting that crossover alone, operating on graphs, can evolve any possible molecule given an appropriate fitness function and a population containing both rings and chains. Prior work evolved strings or trees that were subsequently processed to generate molecular graphs. In principle, genetic graph software should be able to evolve other graph representable systems such as circuits, transportation networks, metabolic pathways, computer networks, etc.

Summing Feynman graphs by Monte Carlo: Planar ϕ3-theory and dynamically triangulated random surfaces

NASA Astrophysics Data System (ADS)

Boulatov, D. V.; Kazakov, V. A.

1988-12-01

New combinatorial identities are suggested relating the ratio of (n - 1)th and nth orders of (planar) perturbation expansion for any quantity to some average over the ensemble of all planar graphs of the nth order. These identities are used for Monte Carlo calculation of critical exponents γstr (string susceptibility) in planar ϕ3-theory and in the dynamically triangulated random surface (DTRS) model near the convergence circle for various dimensions. In the solvable case D = 1 the exact critical properties of the theory are reproduced numerically. After August 3, 1988 the address will be: Cybernetics Council, Academy of Science, ul. Vavilova 40, 117333 Moscow, USSR.

Compacting de Bruijn graphs from sequencing data quickly and in low memory.

PubMed

Chikhi, Rayan; Limasset, Antoine; Medvedev, Paul

2016-06-15

As the quantity of data per sequencing experiment increases, the challenges of fragment assembly are becoming increasingly computational. The de Bruijn graph is a widely used data structure in fragment assembly algorithms, used to represent the information from a set of reads. Compaction is an important data reduction step in most de Bruijn graph based algorithms where long simple paths are compacted into single vertices. Compaction has recently become the bottleneck in assembly pipelines, and improving its running time and memory usage is an important problem. We present an algorithm and a tool bcalm 2 for the compaction of de Bruijn graphs. bcalm 2 is a parallel algorithm that distributes the input based on a minimizer hashing technique, allowing for good balance of memory usage throughout its execution. For human sequencing data, bcalm 2 reduces the computational burden of compacting the de Bruijn graph to roughly an hour and 3 GB of memory. We also applied bcalm 2 to the 22 Gbp loblolly pine and 20 Gbp white spruce sequencing datasets. Compacted graphs were constructed from raw reads in less than 2 days and 40 GB of memory on a single machine. Hence, bcalm 2 is at least an order of magnitude more efficient than other available methods. Source code of bcalm 2 is freely available at: https://github.com/GATB/bcalm rayan.chikhi@univ-lille1.fr. © The Author 2016. Published by Oxford University Press.

EASE (Experimental Assembly of Structures in EVA) overview of selected results

NASA Technical Reports Server (NTRS)

Akin, David L.

1987-01-01

Experimental Assembly of Structures in EVA (EASE) objectives, experimental protocol, neutral buoyancy simulation, task time distribution, assembly task performance, metabolic rate/biomedical readouts are summarized. This presentation is shown in charts, figures, and graphs.

Using Sorting by Reversal: Breakpoint Graph for Gene Assembly in Ciliates

NASA Astrophysics Data System (ADS)

Brijder, Robert; Jan Hoogeboom, Hendrik

2007-09-01

The theory of gene assembly in ciliates has much in common with the theory of sorting by reversal. Both model processes that are based on splicing, and have a fixed begin and end product. The main difference is the type of splicing operations used to obtain the end product from the begin product. In this overview paper we show that the concept of breakpoint graph, known from the theory of sorting by reversal, has many uses in the theory of gene assembly. Our aim is to present the material in an intuitive and informal manner to allow for an efficient introduction into the subject.

Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis

PubMed Central

2012-01-01

Background Chaos Game Representation (CGR) is an iterated function that bijectively maps discrete sequences into a continuous domain. As a result, discrete sequences can be object of statistical and topological analyses otherwise reserved to numerical systems. Characteristically, CGR coordinates of substrings sharing an L-long suffix will be located within 2-L distance of each other. In the two decades since its original proposal, CGR has been generalized beyond its original focus on genomic sequences and has been successfully applied to a wide range of problems in bioinformatics. This report explores the possibility that it can be further extended to approach algorithms that rely on discrete, graph-based representations. Results The exploratory analysis described here consisted of selecting foundational string problems and refactoring them using CGR-based algorithms. We found that CGR can take the role of suffix trees and emulate sophisticated string algorithms, efficiently solving exact and approximate string matching problems such as finding all palindromes and tandem repeats, and matching with mismatches. The common feature of these problems is that they use longest common extension (LCE) queries as subtasks of their procedures, which we show to have a constant time solution with CGR. Additionally, we show that CGR can be used as a rolling hash function within the Rabin-Karp algorithm. Conclusions The analysis of biological sequences relies on algorithmic foundations facing mounting challenges, both logistic (performance) and analytical (lack of unifying mathematical framework). CGR is found to provide the latter and to promise the former: graph-based data structures for sequence analysis operations are entailed by numerical-based data structures produced by CGR maps, providing a unifying analytical framework for a diversity of pattern matching problems. PMID:22551152

On the BV formalism of open superstring field theory in the large Hilbert space

NASA Astrophysics Data System (ADS)

Matsunaga, Hiroaki; Nomura, Mitsuru

2018-05-01

We construct several BV master actions for open superstring field theory in the large Hilbert space. First, we show that a naive use of the conventional BV approach breaks down at the third order of the antifield number expansion, although it enables us to define a simple "string antibracket" taking the Darboux form as spacetime antibrackets. This fact implies that in the large Hilbert space, "string fields-antifields" should be reassembled to obtain master actions in a simple manner. We determine the assembly of the string anti-fields on the basis of Berkovits' constrained BV approach, and give solutions to the master equation defined by Dirac antibrackets on the constrained string field-antifield space. It is expected that partial gauge-fixing enables us to relate superstring field theories based on the large and small Hilbert spaces directly: reassembling string fields-antifields is rather natural from this point of view. Finally, inspired by these results, we revisit the conventional BV approach and construct a BV master action based on the minimal set of string fields-antifields.

Communication: Theoretical prediction of free-energy landscapes for complex self-assembly

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jacobs, William M.; Reinhardt, Aleks; Frenkel, Daan

2015-01-14

We present a technique for calculating free-energy profiles for the nucleation of multicomponent structures that contain as many species as building blocks. We find that a key factor is the topology of the graph describing the connectivity of the target assembly. By considering the designed interactions separately from weaker, incidental interactions, our approach yields predictions for the equilibrium yield and nucleation barriers. These predictions are in good agreement with corresponding Monte Carlo simulations. We show that a few fundamental properties of the connectivity graph determine the most prominent features of the assembly thermodynamics. Surprisingly, we find that polydispersity in themore » strengths of the designed interactions stabilizes intermediate structures and can be used to sculpt the free-energy landscape for self-assembly. Finally, we demonstrate that weak incidental interactions can preclude assembly at equilibrium due to the combinatorial possibilities for incorrect association.« less

Equipment development for automated assembly of solar modules

NASA Technical Reports Server (NTRS)

Hagerty, J. J.

1982-01-01

Prototype equipment was developed which allows for totally automated assembly in the three major areas of module manufacture: cell stringing, encapsulant layup and cure and edge sealing. The equipment is designed to be used in conjunction with a standard Unimate 2000B industrial robot although the design is adaptable to other transport systems.

Optimizing DNA assembly based on statistical language modelling.

PubMed

Fang, Gang; Zhang, Shemin; Dong, Yafei

2017-12-15

By successively assembling genetic parts such as BioBrick according to grammatical models, complex genetic constructs composed of dozens of functional blocks can be built. However, usually every category of genetic parts includes a few or many parts. With increasing quantity of genetic parts, the process of assembling more than a few sets of these parts can be expensive, time consuming and error prone. At the last step of assembling it is somewhat difficult to decide which part should be selected. Based on statistical language model, which is a probability distribution P(s) over strings S that attempts to reflect how frequently a string S occurs as a sentence, the most commonly used parts will be selected. Then, a dynamic programming algorithm was designed to figure out the solution of maximum probability. The algorithm optimizes the results of a genetic design based on a grammatical model and finds an optimal solution. In this way, redundant operations can be reduced and the time and cost required for conducting biological experiments can be minimized. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

Project on Teaching Charts and Graphs to ABE Students. Part I: Teacher's Guide [and] Part II: Transparency Assembly Package.

ERIC Educational Resources Information Center

Renton Vocational Inst., WA.

The teacher's guide and collection of transparency masters are designed for use in teaching adult basic education (ABE) students how to read and interpret graphs and charts. Covered in the individual lessons of the instructional unit are the reading and interpretation of charts as well as picture, line, bar, and circle graphs. Each unit contains a…

Hydro-ball in-core instrumentation system and method of operation

DOEpatents

Tower, Stephen N.; Veronesi, Luciano; Braun, Howard E.

1990-01-01

A hydro-ball in-core instrumentation system employs detector strings each comprising a wire having radiation sensitive balls affixed diametrically at spaced positions therealong and opposite tip ends of which are transportable by fluid drag through interior passageways. In the passageways primary coolant is caused to flow selectively in first and second opposite directions for transporting the detector strings from stored positions in an exterior chamber to inserted positions within the instrumentation thimbles of the fuel rod assemblies of a pressure vessel, and for return. The coolant pressure within the detector passageways is the same as that within the vessel; face contact, disconnectable joints between sections of the interior passageways within the vessel facilitate assembly and disassembly of the vessel for refueling and routine maintenance operations. The detector strings may pass through a very short bend radius thereby minimizing space requirements for the connections of the instrumentation system to the vessel and concomitantly the vessel containment structure. Improved radiation mapping and a significant reduction in potential exposure of personnel to radiation are provided. Both top head and bottom head penetration embodiments are disclosed.

A Graph-Centric Approach for Metagenome-Guided Peptide and Protein Identification in Metaproteomics

PubMed Central

Tang, Haixu; Li, Sujun; Ye, Yuzhen

2016-01-01

Metaproteomic studies adopt the common bottom-up proteomics approach to investigate the protein composition and the dynamics of protein expression in microbial communities. When matched metagenomic and/or metatranscriptomic data of the microbial communities are available, metaproteomic data analyses often employ a metagenome-guided approach, in which complete or fragmental protein-coding genes are first directly predicted from metagenomic (and/or metatranscriptomic) sequences or from their assemblies, and the resulting protein sequences are then used as the reference database for peptide/protein identification from MS/MS spectra. This approach is often limited because protein coding genes predicted from metagenomes are incomplete and fragmental. In this paper, we present a graph-centric approach to improving metagenome-guided peptide and protein identification in metaproteomics. Our method exploits the de Bruijn graph structure reported by metagenome assembly algorithms to generate a comprehensive database of protein sequences encoded in the community. We tested our method using several public metaproteomic datasets with matched metagenomic and metatranscriptomic sequencing data acquired from complex microbial communities in a biological wastewater treatment plant. The results showed that many more peptides and proteins can be identified when assembly graphs were utilized, improving the characterization of the proteins expressed in the microbial communities. The additional proteins we identified contribute to the characterization of important pathways such as those involved in degradation of chemical hazards. Our tools are released as open-source software on github at https://github.com/COL-IU/Graph2Pro. PMID:27918579

The present and future of de novo whole-genome assembly.

PubMed

Sohn, Jang-Il; Nam, Jin-Wu

2018-01-01

As the advent of next-generation sequencing (NGS) technology, various de novo assembly algorithms based on the de Bruijn graph have been developed to construct chromosome-level sequences. However, numerous technical or computational challenges in de novo assembly still remain, although many bright ideas and heuristics have been suggested to tackle the challenges in both experimental and computational settings. In this review, we categorize de novo assemblers on the basis of the type of de Bruijn graphs (Hamiltonian and Eulerian) and discuss the challenges of de novo assembly for short NGS reads regarding computational complexity and assembly ambiguity. Then, we discuss how the limitations of the short reads can be overcome by using a single-molecule sequencing platform that generates long reads of up to several kilobases. In fact, the long read assembly has caused a paradigm shift in whole-genome assembly in terms of algorithms and supporting steps. We also summarize (i) hybrid assemblies using both short and long reads and (ii) overlap-based assemblies for long reads and discuss their challenges and future prospects. This review provides guidelines to determine the optimal approach for a given input data type, computational budget or genome. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

The String of Pearls: Chinese Maritime Presence in the Indian Ocean and Its Effect on Indian Naval Doctrine

DTIC Science & Technology

2012-12-01

6 The term psychophysical refers to the link between physical stimulus and psychological changes. Rose McDermott, Risk Taking in International...Foreign Policy., Barbara Farnham, “Roosevelt and the Munich Crisis: Insights from Prospect Theory,” Political Psychology 13, no. 2 (1992)., Mark L. Haas...gains.170 Losses hurt worse from a psychological standpoint than gains feel good. Figure 9. Prospect Value Graph (From Jervis, 1992

Classification of self-assembling protein nanoparticle architectures for applications in vaccine design

NASA Astrophysics Data System (ADS)

Indelicato, G.; Burkhard, P.; Twarock, R.

2017-04-01

We introduce here a mathematical procedure for the structural classification of a specific class of self-assembling protein nanoparticles (SAPNs) that are used as a platform for repetitive antigen display systems. These SAPNs have distinctive geometries as a consequence of the fact that their peptide building blocks are formed from two linked coiled coils that are designed to assemble into trimeric and pentameric clusters. This allows a mathematical description of particle architectures in terms of bipartite (3,5)-regular graphs. Exploiting the relation with fullerene graphs, we provide a complete atlas of SAPN morphologies. The classification enables a detailed understanding of the spectrum of possible particle geometries that can arise in the self-assembly process. Moreover, it provides a toolkit for a systematic exploitation of SAPNs in bioengineering in the context of vaccine design, predicting the density of B-cell epitopes on the SAPN surface, which is critical for a strong humoral immune response.

24 CFR 3280.605 - Joints and connections.

Code of Federal Regulations, 2010 CFR

2010-04-01

... watertight for the pressures required under testing procedures. (1) Assembling of pipe. All joints and... or welding sockets of each fitting. Pipe threads and slip joints shall not be wrapped with string...

Swivel assembly

DOEpatents

Hall, David R.; Pixton, David S.; Briscoe, Michael; Bradford, Kline; Rawle, Michael; Bartholomew, David B.; McPherson, James

2007-03-20

A swivel assembly for a downhole tool string comprises a first and second coaxial housing cooperatively arranged. The first housing comprises a first transmission element in communication with surface equipment. The second housing comprises a second transmission element in communication with the first transmission element. The second housing further comprises a third transmission element adapted for communication with a network integrated into the downhole tool string. The second housing may be rotational and adapted to transmit a signal between the downhole network and the first housing. Electronic circuitry is in communication with at least one of the transmission elements. The electronic circuitry may be externally mounted to the first or second housing. Further, the electronic circuitry may be internally mounted in the second housing. The electronic circuitry may be disposed in a recess in either first or second housing of the swivel.

Poisson equation for the three-loop ladder diagram in string theory at genus one

NASA Astrophysics Data System (ADS)

Basu, Anirban

2016-11-01

The three-loop ladder diagram is a graph with six links and four cubic vertices that contributes to the D12ℛ4 amplitude at genus one in type II string theory. The vertices represent the insertion points of vertex operators on the toroidal worldsheet and the links represent scalar Green functions connecting them. By using the properties of the Green function and manipulating the various expressions, we obtain a modular invariant Poisson equation satisfied by this diagram, with source terms involving one-, two- and three-loop diagrams. Unlike the source terms in the Poisson equations for diagrams at lower orders in the momentum expansion or the Mercedes diagram, a particular source term involves a five-point function containing a holomorphic and a antiholomorphic worldsheet derivative acting on different Green functions. We also obtain simple equalities between topologically distinct diagrams, and consider some elementary examples.

Network Analysis Tools: from biological networks to clusters and pathways.

PubMed

Brohée, Sylvain; Faust, Karoline; Lima-Mendez, Gipsi; Vanderstocken, Gilles; van Helden, Jacques

2008-01-01

Network Analysis Tools (NeAT) is a suite of computer tools that integrate various algorithms for the analysis of biological networks: comparison between graphs, between clusters, or between graphs and clusters; network randomization; analysis of degree distribution; network-based clustering and path finding. The tools are interconnected to enable a stepwise analysis of the network through a complete analytical workflow. In this protocol, we present a typical case of utilization, where the tasks above are combined to decipher a protein-protein interaction network retrieved from the STRING database. The results returned by NeAT are typically subnetworks, networks enriched with additional information (i.e., clusters or paths) or tables displaying statistics. Typical networks comprising several thousands of nodes and arcs can be analyzed within a few minutes. The complete protocol can be read and executed in approximately 1 h.

Electrostatically Driven Large Aperture Micro-Mirror Actuator Assemblies for High Fill-Factor, Agile Optical Phase Arrays

DTIC Science & Technology

2015-06-18

platform assembly 2, with micro-mirror platform deflection, measured on actuation side ( PFa ) and side opposite actuation (PFo...beam micro-mirror platform assembly 1; micro-mirror platform deflection, measured on actuation side ( PFa ) and side opposite actuation (PFo...side ( PFa ) and side opposite actuation (PFo) ........................................................ 106 xiv Figure 73: Graph of measured 10-beam

Hierarchical Nanostructures Self-Assembled from a Mixture System Containing Rod-Coil Block Copolymers and Rigid Homopolymers

PubMed Central

Li, Yongliang; Jiang, Tao; Lin, Shaoliang; Lin, Jiaping; Cai, Chunhua; Zhu, Xingyu

2015-01-01

Self-assembly behavior of a mixture system containing rod-coil block copolymers and rigid homopolymers was investigated by using Brownian dynamics simulations. The morphologies of formed hierarchical self-assemblies were found to be dependent on the Lennard-Jones (LJ) interaction εRR between rod blocks, lengths of rod and coil blocks in copolymer, and mixture ratio of block copolymers to homopolymers. As the εRR value decreases, the self-assembled structures of mixtures are transformed from an abacus-like structure to a helical structure, to a plain fiber, and finally are broken into unimers. The order parameter of rod blocks was calculated to confirm the structure transition. Through varying the length of rod and coil blocks, the regions of thermodynamic stability of abacus, helix, plain fiber, and unimers were mapped. Moreover, it was discovered that two levels of rod block ordering exist in the helices. The block copolymers are helically wrapped on the homopolymer bundles to form helical string, while the rod blocks are twistingly packed inside the string. In addition, the simulation results are in good agreement with experimental observations. The present work reveals the mechanism behind the formation of helical (experimentally super-helical) structures and may provide useful information for design and preparation of the complex structures. PMID:25965726

Two criteria for the selection of assembly plans - Maximizing the flexibility of sequencing the assembly tasks and minimizing the assembly time through parallel execution of assembly tasks

NASA Technical Reports Server (NTRS)

Homem De Mello, Luiz S.; Sanderson, Arthur C.

1991-01-01

The authors introduce two criteria for the evaluation and selection of assembly plans. The first criterion is to maximize the number of different sequences in which the assembly tasks can be executed. The second criterion is to minimize the total assembly time through simultaneous execution of assembly tasks. An algorithm that performs a heuristic search for the best assembly plan over the AND/OR graph representation of assembly plans is discussed. Admissible heuristics for each of the two criteria introduced are presented. Some implementation issues that affect the computational efficiency are addressed.

Digital Material Assembly by Passive Means and Modular Isotropic Lattice Extruder System

NASA Technical Reports Server (NTRS)

Gershenfeld, Neil (Inventor); Carney, Matthew Eli (Inventor); Jenett, Benjamin (Inventor)

2017-01-01

A set of machines and related systems build structures by the additive assembly of discrete parts. These digital material assemblies constrain the constituent parts to a discrete set of possible positions and orientations. In doing so, the structures exhibit many of the properties inherent in digital communication such as error correction, fault tolerance and allow the assembly of precise structures with comparatively imprecise tools. Assembly of discrete cellular lattices by a Modular Isotropic Lattice Extruder System (MILES) is implemented by pulling strings of lattice elements through a forming die that enforces geometry constraints that lock the elements into a rigid structure that can then be pushed against and extruded out of the die as an assembled, loadbearing structure.

GRIDSS: sensitive and specific genomic rearrangement detection using positional de Bruijn graph assembly

PubMed Central

Do, Hongdo; Molania, Ramyar

2017-01-01

The identification of genomic rearrangements with high sensitivity and specificity using massively parallel sequencing remains a major challenge, particularly in precision medicine and cancer research. Here, we describe a new method for detecting rearrangements, GRIDSS (Genome Rearrangement IDentification Software Suite). GRIDSS is a multithreaded structural variant (SV) caller that performs efficient genome-wide break-end assembly prior to variant calling using a novel positional de Bruijn graph-based assembler. By combining assembly, split read, and read pair evidence using a probabilistic scoring, GRIDSS achieves high sensitivity and specificity on simulated, cell line, and patient tumor data, recently winning SV subchallenge #5 of the ICGC-TCGA DREAM8.5 Somatic Mutation Calling Challenge. On human cell line data, GRIDSS halves the false discovery rate compared to other recent methods while matching or exceeding their sensitivity. GRIDSS identifies nontemplate sequence insertions, microhomologies, and large imperfect homologies, estimates a quality score for each breakpoint, stratifies calls into high or low confidence, and supports multisample analysis. PMID:29097403

Minimal-memory realization of pearl-necklace encoders of general quantum convolutional codes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Houshmand, Monireh; Hosseini-Khayat, Saied

2011-02-15

Quantum convolutional codes, like their classical counterparts, promise to offer higher error correction performance than block codes of equivalent encoding complexity, and are expected to find important applications in reliable quantum communication where a continuous stream of qubits is transmitted. Grassl and Roetteler devised an algorithm to encode a quantum convolutional code with a ''pearl-necklace'' encoder. Despite their algorithm's theoretical significance as a neat way of representing quantum convolutional codes, it is not well suited to practical realization. In fact, there is no straightforward way to implement any given pearl-necklace structure. This paper closes the gap between theoretical representation andmore » practical implementation. In our previous work, we presented an efficient algorithm to find a minimal-memory realization of a pearl-necklace encoder for Calderbank-Shor-Steane (CSS) convolutional codes. This work is an extension of our previous work and presents an algorithm for turning a pearl-necklace encoder for a general (non-CSS) quantum convolutional code into a realizable quantum convolutional encoder. We show that a minimal-memory realization depends on the commutativity relations between the gate strings in the pearl-necklace encoder. We find a realization by means of a weighted graph which details the noncommutative paths through the pearl necklace. The weight of the longest path in this graph is equal to the minimal amount of memory needed to implement the encoder. The algorithm has a polynomial-time complexity in the number of gate strings in the pearl-necklace encoder.« less

Field evaluations of "ShapeAccelArray" in-place MEMS inclinometer strings for subsurface deformation monitoring.

DOT National Transportation Integrated Search

2012-03-01

Continuous monitoring of subsurface ground movements is accomplished with in-place instruments utilizing automated data acquisition methods. These typically include TDR (Time Domain Reflectometry) or assemblies of several servo-accelerometer-based, e...

Finishing bacterial genome assemblies with Mix.

PubMed

Soueidan, Hayssam; Maurier, Florence; Groppi, Alexis; Sirand-Pugnet, Pascal; Tardy, Florence; Citti, Christine; Dupuy, Virginie; Nikolski, Macha

2013-01-01

Among challenges that hamper reaping the benefits of genome assembly are both unfinished assemblies and the ensuing experimental costs. First, numerous software solutions for genome de novo assembly are available, each having its advantages and drawbacks, without clear guidelines as to how to choose among them. Second, these solutions produce draft assemblies that often require a resource intensive finishing phase. In this paper we address these two aspects by developing Mix , a tool that mixes two or more draft assemblies, without relying on a reference genome and having the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices represent extremities of contigs and edges represent existing alignments between these extremities. These alignment edges are used for contig extension. The resulting output assembly corresponds to a set of paths in the extension graph that maximizes the cumulative contig length. We evaluate the performance of Mix on bacterial NGS data from the GAGE-B study and apply it to newly sequenced Mycoplasma genomes. Resulting final assemblies demonstrate a significant improvement in the overall assembly quality. In particular, Mix is consistent by providing better overall quality results even when the choice is guided solely by standard assembly statistics, as is the case for de novo projects. Mix is implemented in Python and is available at https://github.com/cbib/MIX, novel data for our Mycoplasma study is available at http://services.cbib.u-bordeaux2.fr/mix/.

Advanced Rainbow Solar Photovoltaic Arrays

NASA Technical Reports Server (NTRS)

Mardesich, Nick; Shields, Virgil

2003-01-01

Photovoltaic arrays of the rainbow type, equipped with light-concentrator and spectral-beam-splitter optics, have been investigated in a continuing effort to develop lightweight, high-efficiency solar electric power sources. This investigation has contributed to a revival of the concept of the rainbow photovoltaic array, which originated in the 1950s but proved unrealistic at that time because the selection of solar photovoltaic cells was too limited. Advances in the art of photovoltaic cells since that time have rendered the concept more realistic, thereby prompting the present development effort. A rainbow photovoltaic array comprises side-by-side strings of series-connected photovoltaic cells. The cells in each string have the same bandgap, which differs from the bandgaps of the other strings. Hence, each string operates most efficiently in a unique wavelength band determined by its bandgap. To obtain maximum energy-conversion efficiency and to minimize the size and weight of the array for a given sunlight input aperture, the sunlight incident on the aperture is concentrated, then spectrally dispersed onto the photovoltaic array plane, whereon each string of cells is positioned to intercept the light in its wavelength band of most efficient operation. The number of cells in each string is chosen so that the output potentials of all the strings are the same; this makes it possible to connect the strings together in parallel to maximize the output current of the array. According to the original rainbow photovoltaic concept, the concentrated sunlight was to be split into multiple beams by use of an array of dichroic filters designed so that each beam would contain light in one of the desired wavelength bands. The concept has since been modified to provide for dispersion of the spectrum by use of adjacent prisms. A proposal for an advanced version calls for a unitary concentrator/ spectral-beam-splitter optic in the form of a parabolic curved Fresnel-like prism array with panels of photovoltaic cells on two sides (see figure). The surface supporting the solar cells can be adjusted in length or angle to accommodate the incident spectral pattern. An unoptimized prototype assembly containing ten adjacent prisms and three photovoltaic cells with different bandgaps (InGaP2, GaAs, and InGaAs) was constructed to demonstrate feasibility. The actual array will consist of a lightweight thin-film silicon layer of prisms curved into a parabolic shape. In an initial test under illumination of 1 sun at zero airmass, the energy-conversion efficiency of the assembly was found to be 20 percent. Further analysis of the data from this test led to a projected energy conversion efficiency as high as 41 percent for an array of 6 cells or strings (GaP, AlGaAs, InGaP2, GaAs, and two different InGaAs cells or strings).

Embryonic wound healing by apical contraction and ingression in Xenopus laevis.

PubMed

Davidson, Lance A; Ezin, Akouavi M; Keller, Ray

2002-11-01

We have characterized excisional wounds in the animal cap of early embryos of the frog Xenopus laevis and found that these wounds close accompanied by three distinct processes: (1) the assembly of an actin purse-string in the epithelial cells at the wound margin, (2) contraction and ingression of exposed deep cells, and (3) protrusive activity of epithelial cells at the margin. Microsurgical manipulation allowing fine control over the area and depth of the wound combined with videomicroscopy and confocal analysis enabled us to describe the kinematics and challenge the mechanics of the closing wound. Full closure typically occurs only when the deep, mesenchymal cell-layer of the ectoderm is left intact; in contrast, when deep cells are removed along with the superficial, epithelial cell-layer of the ectoderm, wounds do not close. Actin localizes to the superficial epithelial cell-layer at the wound margin immediately after wounding and forms a contiguous "purse-string" in those cells within 15 min. However, manipulation and closure kinematics of shaped wounds and microsurgical cuts made through the purse-string rule out a major force-generating role for the purse-string. Further analysis of the cell behaviors within the wound show that deep, mesenchymal cells contract their apical surfaces and ingress from the exposed surface. High resolution time-lapse sequences of cells at the leading edge of the wound show that these cells undergo protrusive activity only during the final phases of wound closure as the ectoderm reseals. We propose that assembly of the actin purse-string works to organize and maintain the epithelial sheet at the wound margin, that contraction and ingression of deep cells pulls the wound margins together, and that protrusive activity of epithelial cells at the wound margin reseals the ectoderm and re-establishes tissue integrity during wound healing in the Xenopus embryonic ectoderm. Copyright 2002 Wiley-Liss, Inc.

T-IDBA: A de novo Iterative de Bruijn Graph Assembler for Transcriptome

NASA Astrophysics Data System (ADS)

Peng, Yu; Leung, Henry C. M.; Yiu, S. M.; Chin, Francis Y. L.

RNA-seq data produced by next-generation sequencing technology is a useful tool for analyzing transcriptomes. However, existing de novo transcriptome assemblers do not fully utilize the properties of transcriptomes and may result in short contigs because of the splicing nature (shared exons) of the genes. We propose the T-IDBA algorithm to reconstruct expressed isoforms without reference genome. By using pair-end information to solve the problem of long repeats in different genes and branching in the same gene due to alternative splicing, the graph can be decomposed into small components, each corresponds to a gene. The most possible isoforms with sufficient support from the pair-end reads will be found heuristically. In practice, our de novo transcriptome assembler, T-IDBA, outperforms Abyss substantially in terms of sensitivity and precision for both simulated and real data. T-IDBA is available at http://www.cs.hku.hk/~alse/tidba/

System for line drawings interpretation

NASA Astrophysics Data System (ADS)

Boatto, L.; Consorti, Vincenzo; Del Buono, Monica; Eramo, Vincenzo; Esposito, Alessandra; Melcarne, F.; Meucci, Mario; Mosciatti, M.; Tucci, M.; Morelli, Arturo

1992-08-01

This paper describes an automatic system that extracts information from line drawings, in order to feed CAD or GIS systems. The line drawings that we analyze contain interconnected thin lines, dashed lines, text, and symbols. Characters and symbols may overlap with lines. Our approach is based on the properties of the run representation of a binary image that allow giving the image a graph structure. Using this graph structure, several algorithms have been designed to identify, directly in the raster image, straight segments, dashed lines, text, symbols, hatching lines, etc. Straight segments and dashed lines are converted into vectors, with high accuracy and good noise immunity. Characters and symbols are recognized by means of a recognizer, specifically developed for this application, designed to be insensitive to rotation and scaling. Subsequent processing steps include an `intelligent'' search through the graph in order to detect closed polygons, dashed lines, text strings, and other higher-level logical entities, followed by the identification of relationships (adjacency, inclusion, etc.) between them. Relationships are further translated into a formal description of the drawing. The output of the system can be used as input to a Geographic Information System package. The system is currently used by the Italian Land Register Authority to process cadastral maps.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Vyatkina, Kira; Wu, Si; Dekker, Lennard J. M.

De novo sequencing of proteins and peptides is one of the most important problems in mass spectrometry-driven proteomics. A variety of methods have been developed to accomplish this task from a set of bottom-up tandem (MS/MS) mass spectra. However, a more recently emerged top-down technology, now gaining more and more popularity, opens new perspectives for protein analysis and characterization, implying a need in efficient algorithms for processing this kind of MS/MS data. Here we describe a method that allows to retrieve from a set of top-down MS/MS spectra long and accurate sequence fragments of the proteins contained in a sample.more » To this end, we outline a strategy for generating high-quality sequence tags from top-down spectra, and introduce the concept of a T-Bruijn graph by adapting to the case of tags the notion of an A-Bruijn graph widely used in genomics. The output of the proposed approach represents the set of amino acid strings spelled out by optimal paths in the connected components of a T-Bruijn graph. We illustrate its performance on top-down datasets acquired from carbonic anhydrase 2 (CAH2) and the Fab region of alemtuzumab.« less

TUMOR HAPLOTYPE ASSEMBLY ALGORITHMS FOR CANCER GENOMICS

PubMed Central

AGUIAR, DEREK; WONG, WENDY S.W.; ISTRAIL, SORIN

2014-01-01

The growing availability of inexpensive high-throughput sequence data is enabling researchers to sequence tumor populations within a single individual at high coverage. But, cancer genome sequence evolution and mutational phenomena like driver mutations and gene fusions are difficult to investigate without first reconstructing tumor haplotype sequences. Haplotype assembly of single individual tumor populations is an exceedingly difficult task complicated by tumor haplotype heterogeneity, tumor or normal cell sequence contamination, polyploidy, and complex patterns of variation. While computational and experimental haplotype phasing of diploid genomes has seen much progress in recent years, haplotype assembly in cancer genomes remains uncharted territory. In this work, we describe HapCompass-Tumor a computational modeling and algorithmic framework for haplotype assembly of copy number variable cancer genomes containing haplotypes at different frequencies and complex variation. We extend our polyploid haplotype assembly model and present novel algorithms for (1) complex variations, including copy number changes, as varying numbers of disjoint paths in an associated graph, (2) variable haplotype frequencies and contamination, and (3) computation of tumor haplotypes using simple cycles of the compass graph which constrain the space of haplotype assembly solutions. The model and algorithm are implemented in the software package HapCompass-Tumor which is available for download from http://www.brown.edu/Research/Istrail_Lab/. PMID:24297529

Fluid dynamics following flow shut-off in bottle filling

NASA Astrophysics Data System (ADS)

Thete, Sumeet; Appathurai, Santosh; Gao, Haijing; Basaran, Osman

2012-11-01

Bottle filling is ubiquitous in industry. Examples include filling of bottles with shampoos and cleaners, engine oil and pharmaceuticals. In these examples, fluid flows out of a nozzle to fill bottles in an assembly line. Once the required volume of fluid has flowed out of the nozzle, the flow is shut off. However, an evolving fluid thread or string may remain suspended from the nozzle following flow shut-off and persist. This stringing phenomenon can be detrimental to a bottle filling operation because it can adversely affect line speed and filling accuracy by causing uncertainty in fill volume, product loss and undesirable marring of the bottles' exterior surfaces. The dynamics of stringing are studied numerically primarily by using the 1D, slender-jet approximation of the flow equations. A novel feature entails development and use of a new boundary condition downstream of the nozzle exit to expedite the computations. While the emphasis is on stringing of Newtonian fluids and use of 1D approximations, results will also be presented for situations where (a) the fluids are non-Newtonian and (b) the full set of equations are solved without invoking the 1D approximation. Phase diagrams will be presented that identify conditions for which stringing can be problematic.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cochran, C.B.

This patent describes a double nut setting tool and liner hanger assembly. It comprises a tool which is releasably coupled to the liner hanger by a nut means threadedly connected to the liner hanger: upon reaching a desired setting location, hanging the liner hanger in the well to support the weight of the liner and to permit rotation of the liner: manipulating the string of pipe to simultaneously rotate the nut means to a released condition relative to the liner hanger while rotating a lock nut in a clutch housing into a locking position in the clutch housing to engagemore » the clutch housing with the liner; and applying weight to the string of pipe to engage the clutch housing with the liner when the coupling nut is released and the lock nut is in a locking position so that the liner can be rotated by rotation of the string of pipe after the coupling nut is released.« less

Modeling Anisotropic Self-Assembly of Isotropic Objects: from Hairy Nanoparticles to Methylcellulose Fibrils

NASA Astrophysics Data System (ADS)

Ginzburg, Valeriy

Spontaneous symmetry breaking and formation of anisotropic structures from apparently isotropic building blocks is an exciting and not fully understood topic. I will discuss two examples of such self-assembly. The first example is related to the assembly of ``hairy'' nanoparticles in homopolymer matrices. The particles can assemble into long strings (they can also form other morphologies, as well) even though the shape of each particle and the distribution of ligands on the particle surface is spherically symmetric. Using the approach developed by Thompson, Ginzburg, Matsen, and Balazs, we show that presence of other particles can re-distribute the ligands and effectively ``polarize'' the particle-particle interaction, giving rise to the formation of 1d particle strings. In the second example, we consider aqueous solutions of methylcellulose (MC) polymers. It has been shown recently that at high temperature, the polymers form high-aspect ratio ``fibrils'' with diameter ~15 nm and length in the hundreds on nanometers. Using coarse-grained Molecular Dynamics (CG-MD), we propose that the ``fibrils'' are result of one-dimensional self-assembly of single molecule ``rings''. Each MC polymer chain is forced into a ring because of the balance between internal chain rigidity (favoring more expanded configuration) and unfavorable polymer-water interactions (favoring more collapsed conformation). We also develop a theory predicting rheology and phase behavior of aqueous MC, and validate it against experimental data. Both examples show that anisotropic self-assembly can show up in unexpected places, and various theoretical tools are needed to successfully model it. Funded by The Dow Chemical Company through Grant 223278AF. Collaborators: R. L. Sammler (Dow), W. Huang and R. Larson (U. of Michigan).

Haplotype assembly in polyploid genomes and identical by descent shared tracts.

PubMed

Aguiar, Derek; Istrail, Sorin

2013-07-01

Genome-wide haplotype reconstruction from sequence data, or haplotype assembly, is at the center of major challenges in molecular biology and life sciences. For complex eukaryotic organisms like humans, the genome is vast and the population samples are growing so rapidly that algorithms processing high-throughput sequencing data must scale favorably in terms of both accuracy and computational efficiency. Furthermore, current models and methodologies for haplotype assembly (i) do not consider individuals sharing haplotypes jointly, which reduces the size and accuracy of assembled haplotypes, and (ii) are unable to model genomes having more than two sets of homologous chromosomes (polyploidy). Polyploid organisms are increasingly becoming the target of many research groups interested in the genomics of disease, phylogenetics, botany and evolution but there is an absence of theory and methods for polyploid haplotype reconstruction. In this work, we present a number of results, extensions and generalizations of compass graphs and our HapCompass framework. We prove the theoretical complexity of two haplotype assembly optimizations, thereby motivating the use of heuristics. Furthermore, we present graph theory-based algorithms for the problem of haplotype assembly using our previously developed HapCompass framework for (i) novel implementations of haplotype assembly optimizations (minimum error correction), (ii) assembly of a pair of individuals sharing a haplotype tract identical by descent and (iii) assembly of polyploid genomes. We evaluate our methods on 1000 Genomes Project, Pacific Biosciences and simulated sequence data. HapCompass is available for download at http://www.brown.edu/Research/Istrail_Lab/. Supplementary data are available at Bioinformatics online.

Self-assembly of tetravalent Goldberg polyhedra from 144 small components

NASA Astrophysics Data System (ADS)

Fujita, Daishi; Ueda, Yoshihiro; Sato, Sota; Mizuno, Nobuhiro; Kumasaka, Takashi; Fujita, Makoto

2016-12-01

Rational control of the self-assembly of large structures is one of the key challenges in chemistry, and is believed to become increasingly difficult and ultimately impossible as the number of components involved increases. So far, it has not been possible to design a self-assembled discrete molecule made up of more than 100 components. Such molecules—for example, spherical virus capsids—are prevalent in nature, which suggests that the difficulty in designing these very large self-assembled molecules is due to a lack of understanding of the underlying design principles. For example, the targeted assembly of a series of large spherical structures containing up to 30 palladium ions coordinated by up to 60 bent organic ligands was achieved by considering their topologies. Here we report the self-assembly of a spherical structure that also contains 30 palladium ions and 60 bent ligands, but belongs to a shape family that has not previously been observed experimentally. The new structure consists of a combination of 8 triangles and 24 squares, and has the symmetry of a tetravalent Goldberg polyhedron. Platonic and Archimedean solids have previously been prepared through self-assembly, as have trivalent Goldberg polyhedra, which occur naturally in the form of virus capsids and fullerenes. But tetravalent Goldberg polyhedra have not previously been reported at the molecular level, although their topologies have been predicted using graph theory. We use graph theory to predict the self-assembly of even larger tetravalent Goldberg polyhedra, which should be more stable, enabling another member of this polyhedron family to be assembled from 144 components: 48 palladium ions and 96 bent ligands.

Using Bond Graphs for Articulated, Flexible Multi-bodies, Sensors, Actuators, and Controllers with Application to the International Space Station

NASA Technical Reports Server (NTRS)

Montgomery, Raymond C.; Granda, Jose J.

2003-01-01

Conceptually, modeling of flexible, multi-body systems involves a formulation as a set of time-dependent partial differential equations. However, for practical, engineering purposes, this modeling is usually done using the method of Finite Elements, which approximates the set of partial differential equations, thus generalizing the approach to all continuous media. This research investigates the links between the Bond Graph method and the classical methods used to develop system models and advocates the Bond Graph Methodology and current bond graph tools as alternate approaches that will lead to a quick and precise understanding of a flexible multi-body system under automatic control. For long endurance, complex spacecraft, because of articulation and mission evolution the model of the physical system may change frequently. So a method of automatic generation and regeneration of system models that does not lead to implicit equations, as does the Lagrange equation approach, is desirable. The bond graph method has been shown to be amenable to automatic generation of equations with appropriate consideration of causality. Indeed human-interactive software now exists that automatically generates both symbolic and numeric system models and evaluates causality as the user develops the model, e.g. the CAMP-G software package. In this paper the CAMP-G package is used to generate a bond graph model of the International Space Station (ISS) at an early stage in its assembly, Zvezda. The ISS is an ideal example because it is a collection of bodies that are articulated, many of which are highly flexible. Also many reaction jets are used to control translation and attitude, and many electric motors are used to articulate appendages, which consist of photovoltaic arrays and composite assemblies. The Zvezda bond graph model is compared to an existing model, which was generated by the NASA Johnson Space Center during the Verification and Analysis Cycle of Zvezda.

SOPRA: Scaffolding algorithm for paired reads via statistical optimization.

PubMed

Dayarian, Adel; Michael, Todd P; Sengupta, Anirvan M

2010-06-24

High throughput sequencing (HTS) platforms produce gigabases of short read (<100 bp) data per run. While these short reads are adequate for resequencing applications, de novo assembly of moderate size genomes from such reads remains a significant challenge. These limitations could be partially overcome by utilizing mate pair technology, which provides pairs of short reads separated by a known distance along the genome. We have developed SOPRA, a tool designed to exploit the mate pair/paired-end information for assembly of short reads. The main focus of the algorithm is selecting a sufficiently large subset of simultaneously satisfiable mate pair constraints to achieve a balance between the size and the quality of the output scaffolds. Scaffold assembly is presented as an optimization problem for variables associated with vertices and with edges of the contig connectivity graph. Vertices of this graph are individual contigs with edges drawn between contigs connected by mate pairs. Similar graph problems have been invoked in the context of shotgun sequencing and scaffold building for previous generation of sequencing projects. However, given the error-prone nature of HTS data and the fundamental limitations from the shortness of the reads, the ad hoc greedy algorithms used in the earlier studies are likely to lead to poor quality results in the current context. SOPRA circumvents this problem by treating all the constraints on equal footing for solving the optimization problem, the solution itself indicating the problematic constraints (chimeric/repetitive contigs, etc.) to be removed. The process of solving and removing of constraints is iterated till one reaches a core set of consistent constraints. For SOLiD sequencer data, SOPRA uses a dynamic programming approach to robustly translate the color-space assembly to base-space. For assessing the quality of an assembly, we report the no-match/mismatch error rate as well as the rates of various rearrangement errors. Applying SOPRA to real data from bacterial genomes, we were able to assemble contigs into scaffolds of significant length (N50 up to 200 Kb) with very few errors introduced in the process. In general, the methodology presented here will allow better scaffold assemblies of any type of mate pair sequencing data.

Fast-SG: an alignment-free algorithm for hybrid assembly.

PubMed

Di Genova, Alex; Ruz, Gonzalo A; Sagot, Marie-France; Maass, Alejandro

2018-05-01

Long-read sequencing technologies are the ultimate solution for genome repeats, allowing near reference-level reconstructions of large genomes. However, long-read de novo assembly pipelines are computationally intense and require a considerable amount of coverage, thereby hindering their broad application to the assembly of large genomes. Alternatively, hybrid assembly methods that combine short- and long-read sequencing technologies can reduce the time and cost required to produce de novo assemblies of large genomes. Here, we propose a new method, called Fast-SG, that uses a new ultrafast alignment-free algorithm specifically designed for constructing a scaffolding graph using light-weight data structures. Fast-SG can construct the graph from either short or long reads. This allows the reuse of efficient algorithms designed for short-read data and permits the definition of novel modular hybrid assembly pipelines. Using comprehensive standard datasets and benchmarks, we show how Fast-SG outperforms the state-of-the-art short-read aligners when building the scaffoldinggraph and can be used to extract linking information from either raw or error-corrected long reads. We also show how a hybrid assembly approach using Fast-SG with shallow long-read coverage (5X) and moderate computational resources can produce long-range and accurate reconstructions of the genomes of Arabidopsis thaliana (Ler-0) and human (NA12878). Fast-SG opens a door to achieve accurate hybrid long-range reconstructions of large genomes with low effort, high portability, and low cost.

Downhole surge valve for earth boring apparatus

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lee, D.W.

1990-05-29

This patent describes a boring tool assembly having an underground percussion mole boring tool powered by a working fluid, the tool being driven through the earth by a rigid drill string pushed by a drilling frame, and a downhole valve assembly fixed between the downhole end of the drill string and the too, the improved downhole valve assembly. It comprises: a valve spool having an open first end, a closed second end and a peripheral sidewall, an axial bore extending partly through the valve spool from the open first end; a radial passage adjacent the closed second and of themore » valve spool, the radial passage extending radially from the valve spool axial bore through the valve spool peripheral sidewall; an axial groove in the peripheral sidewall of the valve spool; a valve body having a first end, a second end and a peripheral sidewall, an axial bore extending through the valve body, the valve spool extending through the valve body axial bore so that the second end of the valve body is adjacent the closed second end of the valve spool, the valve spool being axially moveable within the valve body axial bore; an axial slot; a free-floating key element; a valve housing; and seal means.« less

Impedance-matched drilling telemetry system

DOEpatents

Normann, Randy A [Edgewood, NM; Mansure, Arthur J [Albuquerque, NM

2008-04-22

A downhole telemetry system that uses inductance or capacitance as a mode through which signal is communicated across joints between assembled lengths of pipe wherein efficiency of signal propagation through a drill string, for example, over multiple successive pipe segments is enhanced through matching impedances associated with the various telemetry system components.

Wound Closure in the Lamellipodia of Single Cells: Mediation by Actin Polymerization in the Absence of an Actomyosin Purse String

PubMed Central

Henson, John H.; Nazarian, Ronniel; Schulberg, Katrina L.; Trabosh, Valerie A.; Kolnik, Sarah E.; Burns, Andrew R.; McPartland, Kenneth J.

2002-01-01

The actomyosin purse string is an evolutionarily conserved contractile structure that is involved in cytokinesis, morphogenesis, and wound healing. Recent studies suggested that an actomyosin purse string is crucial for the closure of wounds in single cells. In the present study, morphological and pharmacological methods were used to investigate the role of this structure in the closure of wounds in the peripheral cytoplasm of sea urchin coelomocytes. These discoidal shaped cells underwent a dramatic form of actin-based centripetal/retrograde flow and occasionally opened and closed spontaneous wounds in their lamellipodia. Fluorescent phalloidin staining indicated that a well defined fringe of actin filaments assembles from the margin of these holes, and drug studies with cytochalasin D and latrunculin A indicated that actin polymerization is required for wound closure. Additional evidence that actin polymerization is involved in wound closure was provided by the localization of components of the Arp2/3 complex to the wound margin. Significantly, myosin II immunolocalization demonstrated that it is not associated with wound margins despite being present in the perinuclear region. Pharmacological evidence for the lack of myosin II involvement in wound closure comes from experiments in which a microneedle was used to produce wounds in cells in which actomyosin contraction was inhibited by treatment with kinase inhibitors. Wounds produced in kinase inhibitor-treated cells closed in a manner similar to that seen with control cells. Taken together, our results suggest that an actomyosin purse string mechanism is not responsible for the closure of lamellar wounds in coelomocytes. We hypothesize that the wounds heal by means of a combination of the force produced by actin polymerization alone and centripetal flow. Interestingly, these cells did assemble an actomyosin structure around the margin of phagosome-like membrane invaginations, indicating that myosin is not simply excluded from the periphery by some general mechanism. The results indicate that the actomyosin purse string is not the only mechanism that can mediate wound closure in single cells. PMID:11907278

Wound closure in the lamellipodia of single cells: mediation by actin polymerization in the absence of an actomyosin purse string.

PubMed

Henson, John H; Nazarian, Ronniel; Schulberg, Katrina L; Trabosh, Valerie A; Kolnik, Sarah E; Burns, Andrew R; McPartland, Kenneth J

2002-03-01

The actomyosin purse string is an evolutionarily conserved contractile structure that is involved in cytokinesis, morphogenesis, and wound healing. Recent studies suggested that an actomyosin purse string is crucial for the closure of wounds in single cells. In the present study, morphological and pharmacological methods were used to investigate the role of this structure in the closure of wounds in the peripheral cytoplasm of sea urchin coelomocytes. These discoidal shaped cells underwent a dramatic form of actin-based centripetal/retrograde flow and occasionally opened and closed spontaneous wounds in their lamellipodia. Fluorescent phalloidin staining indicated that a well defined fringe of actin filaments assembles from the margin of these holes, and drug studies with cytochalasin D and latrunculin A indicated that actin polymerization is required for wound closure. Additional evidence that actin polymerization is involved in wound closure was provided by the localization of components of the Arp2/3 complex to the wound margin. Significantly, myosin II immunolocalization demonstrated that it is not associated with wound margins despite being present in the perinuclear region. Pharmacological evidence for the lack of myosin II involvement in wound closure comes from experiments in which a microneedle was used to produce wounds in cells in which actomyosin contraction was inhibited by treatment with kinase inhibitors. Wounds produced in kinase inhibitor-treated cells closed in a manner similar to that seen with control cells. Taken together, our results suggest that an actomyosin purse string mechanism is not responsible for the closure of lamellar wounds in coelomocytes. We hypothesize that the wounds heal by means of a combination of the force produced by actin polymerization alone and centripetal flow. Interestingly, these cells did assemble an actomyosin structure around the margin of phagosome-like membrane invaginations, indicating that myosin is not simply excluded from the periphery by some general mechanism. The results indicate that the actomyosin purse string is not the only mechanism that can mediate wound closure in single cells.

Boring apparatus capable of boring straight holes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Peterson, C.R.

The invention relates to a rock boring assembly for producing a straight hole for use in a drill string above a pilot boring bit of predetermined diameter smaller than the desired final hole size. The boring assembly comprises a small conical boring bit and a larger conical boring, the conical boring bits mounted on lower and upper ends of an enlongated spacer, respectively, and the major effective cutting diameters of each of the conical boring bits being at least 10% greater than the minor effective cutting diameter of the respective bit. The spacer has a cross-section resistant bending and spacesmore » the conical boring bits apart a distance at least 5 times the major cutting diameter of the small conical boring bit, thereby spacing the pivot points provided by the two conical boring bits to limit bodily angular deflection of the assembly and providing a substantial moment arm to resist lateral forces applied to the assembly by the pilot bit and drill string. The spacing between the conical bits is less than about 20 times the major cutting diameter of the lower conical boring bit to enable the spacer to act as a bend-resistant beam to resist angular deflection of the axis of either of the conical boring bits relative to the other when it receives uneven lateral force due to non-uniformity of cutting conditions about the circumference of the bit. Advantageously the boring bits also are self-advancing and feature skewed rollers. 7 claims.« less

Liquid cooled, linear focus solar cell receiver

DOEpatents

Kirpich, A.S.

1983-12-08

Separate structures for electrical insulation and thermal conduction are established within a liquid cooled, linear focus solar cell receiver for use with parabolic or Fresnel optical concentrators. The receiver includes a V-shaped aluminum extrusion having a pair of outer faces each formed with a channel receiving a string of solar cells in thermal contact with the extrusion. Each cell string is attached to a continuous glass cover secured within the channel with spring clips to isolate the string from the external environment. Repair or replacement of solar cells is effected simply by detaching the spring clips to remove the cover/cell assembly without interrupting circulation of coolant fluid through the receiver. The lower surface of the channel in thermal contact with the cells of the string is anodized to establish a suitable standoff voltage capability between the cells and the extrusion. Primary electrical insulation is provided by a dielectric tape disposed between the coolant tube and extrusion. Adjacent solar cells are soldered to interconnect members designed to accommodate thermal expansion and mismatches. The coolant tube is clamped into the extrusion channel with a releasably attachable clamping strip to facilitate easy removal of the receiver from the coolant circuit.

Liquid cooled, linear focus solar cell receiver

DOEpatents

Kirpich, Aaron S.

1985-01-01

Separate structures for electrical insulation and thermal conduction are established within a liquid cooled, linear focus solar cell receiver for use with parabolic or Fresnel optical concentrators. The receiver includes a V-shaped aluminum extrusion having a pair of outer faces each formed with a channel receiving a string of solar cells in thermal contact with the extrusion. Each cell string is attached to a continuous glass cover secured within the channel with spring clips to isolate the string from the external environment. Repair or replacement of solar cells is effected simply by detaching the spring clips to remove the cover/cell assembly without interrupting circulation of coolant fluid through the receiver. The lower surface of the channel in thermal contact with the cells of the string is anodized to establish a suitable standoff voltage capability between the cells and the extrusion. Primary electrical insulation is provided by a dielectric tape disposed between the coolant tube and extrusion. Adjacent solar cells are soldered to interconnect members designed to accommodate thermal expansion and mismatches. The coolant tube is clamped into the extrusion channel with a releasably attachable clamping strip to facilitate easy removal of the receiver from the coolant circuit.

PRIMAL: Page Rank-Based Indoor Mapping and Localization Using Gene-Sequenced Unlabeled WLAN Received Signal Strength

PubMed Central

Zhou, Mu; Zhang, Qiao; Xu, Kunjie; Tian, Zengshan; Wang, Yanmeng; He, Wei

2015-01-01

Due to the wide deployment of wireless local area networks (WLAN), received signal strength (RSS)-based indoor WLAN localization has attracted considerable attention in both academia and industry. In this paper, we propose a novel page rank-based indoor mapping and localization (PRIMAL) by using the gene-sequenced unlabeled WLAN RSS for simultaneous localization and mapping (SLAM). Specifically, first of all, based on the observation of the motion patterns of the people in the target environment, we use the Allen logic to construct the mobility graph to characterize the connectivity among different areas of interest. Second, the concept of gene sequencing is utilized to assemble the sporadically-collected RSS sequences into a signal graph based on the transition relations among different RSS sequences. Third, we apply the graph drawing approach to exhibit both the mobility graph and signal graph in a more readable manner. Finally, the page rank (PR) algorithm is proposed to construct the mapping from the signal graph into the mobility graph. The experimental results show that the proposed approach achieves satisfactory localization accuracy and meanwhile avoids the intensive time and labor cost involved in the conventional location fingerprinting-based indoor WLAN localization. PMID:26404274

Oil and gas well diversionary spool assembly

DOE Office of Scientific and Technical Information (OSTI.GOV)

Reed, L.T.

1989-02-14

In combination with an oil and gas well that includes a casing head from which a string of tubing extends downwardly in a bore hole to a fluid producing zone, a diversionary spool assembly is described situated in a fixed position relative to the well head to control fluid flow from the well and also serve as a temporary mounting for a Christmas tree array of valves when maintenance work is to be performed on the well, the array of valves including an anchor flange on a lower end thereof.

The design of an intelligent human-computer interface for the test, control and monitor system

NASA Technical Reports Server (NTRS)

Shoaff, William D.

1988-01-01

The graphical intelligence and assistance capabilities of a human-computer interface for the Test, Control, and Monitor System at Kennedy Space Center are explored. The report focuses on how a particular commercial off-the-shelf graphical software package, Data Views, can be used to produce tools that build widgets such as menus, text panels, graphs, icons, windows, and ultimately complete interfaces for monitoring data from an application; controlling an application by providing input data to it; and testing an application by both monitoring and controlling it. A complete set of tools for building interfaces is described in a manual for the TCMS toolkit. Simple tools create primitive widgets such as lines, rectangles and text strings. Intermediate level tools create pictographs from primitive widgets, and connect processes to either text strings or pictographs. Other tools create input objects; Data Views supports output objects directly, thus output objects are not considered. Finally, a set of utilities for executing, monitoring use, editing, and displaying the content of interfaces is included in the toolkit.

RNA Graph Partitioning for the Discovery of RNA Modularity: A Novel Application of Graph Partition Algorithm to Biology

PubMed Central

Elmetwaly, Shereef; Schlick, Tamar

2014-01-01

Graph representations have been widely used to analyze and design various economic, social, military, political, and biological networks. In systems biology, networks of cells and organs are useful for understanding disease and medical treatments and, in structural biology, structures of molecules can be described, including RNA structures. In our RNA-As-Graphs (RAG) framework, we represent RNA structures as tree graphs by translating unpaired regions into vertices and helices into edges. Here we explore the modularity of RNA structures by applying graph partitioning known in graph theory to divide an RNA graph into subgraphs. To our knowledge, this is the first application of graph partitioning to biology, and the results suggest a systematic approach for modular design in general. The graph partitioning algorithms utilize mathematical properties of the Laplacian eigenvector (µ2) corresponding to the second eigenvalues (λ2) associated with the topology matrix defining the graph: λ2 describes the overall topology, and the sum of µ2′s components is zero. The three types of algorithms, termed median, sign, and gap cuts, divide a graph by determining nodes of cut by median, zero, and largest gap of µ2′s components, respectively. We apply these algorithms to 45 graphs corresponding to all solved RNA structures up through 11 vertices (∼220 nucleotides). While we observe that the median cut divides a graph into two similar-sized subgraphs, the sign and gap cuts partition a graph into two topologically-distinct subgraphs. We find that the gap cut produces the best biologically-relevant partitioning for RNA because it divides RNAs at less stable connections while maintaining junctions intact. The iterative gap cuts suggest basic modules and assembly protocols to design large RNA structures. Our graph substructuring thus suggests a systematic approach to explore the modularity of biological networks. In our applications to RNA structures, subgraphs also suggest design strategies for novel RNA motifs. PMID:25188578

Survey of gene splicing algorithms based on reads.

PubMed

Si, Xiuhua; Wang, Qian; Zhang, Lei; Wu, Ruo; Ma, Jiquan

2017-11-02

Gene splicing is the process of assembling a large number of unordered short sequence fragments to the original genome sequence as accurately as possible. Several popular splicing algorithms based on reads are reviewed in this article, including reference genome algorithms and de novo splicing algorithms (Greedy-extension, Overlap-Layout-Consensus graph, De Bruijn graph). We also discuss a new splicing method based on the MapReduce strategy and Hadoop. By comparing these algorithms, some conclusions are drawn and some suggestions on gene splicing research are made.

Logical NAND and NOR Operations Using Algorithmic Self-assembly of DNA Molecules

NASA Astrophysics Data System (ADS)

Wang, Yanfeng; Cui, Guangzhao; Zhang, Xuncai; Zheng, Yan

DNA self-assembly is the most advanced and versatile system that has been experimentally demonstrated for programmable construction of patterned systems on the molecular scale. It has been demonstrated that the simple binary arithmetic and logical operations can be computed by the process of self assembly of DNA tiles. Here we report a one-dimensional algorithmic self-assembly of DNA triple-crossover molecules that can be used to execute five steps of a logical NAND and NOR operations on a string of binary bits. To achieve this, abstract tiles were translated into DNA tiles based on triple-crossover motifs. Serving as input for the computation, long single stranded DNA molecules were used to nucleate growth of tiles into algorithmic crystals. Our method shows that engineered DNA self-assembly can be treated as a bottom-up design techniques, and can be capable of designing DNA computer organization and architecture.

Bond Graph Modeling and Validation of an Energy Regenerative System for Emulsion Pump Tests

PubMed Central

Li, Yilei; Zhu, Zhencai; Chen, Guoan

2014-01-01

The test system for emulsion pump is facing serious challenges due to its huge energy consumption and waste nowadays. To settle this energy issue, a novel energy regenerative system (ERS) for emulsion pump tests is briefly introduced at first. Modeling such an ERS of multienergy domains needs a unified and systematic approach. Bond graph modeling is well suited for this task. The bond graph model of this ERS is developed by first considering the separate components before assembling them together and so is the state-space equation. Both numerical simulation and experiments are carried out to validate the bond graph model of this ERS. Moreover the simulation and experiments results show that this ERS not only satisfies the test requirements, but also could save at least 25% of energy consumption as compared to the original test system, demonstrating that it is a promising method of energy regeneration for emulsion pump tests. PMID:24967428

GfaPy: a flexible and extensible software library for handling sequence graphs in Python.

PubMed

Gonnella, Giorgio; Kurtz, Stefan

2017-10-01

GFA 1 and GFA 2 are recently defined formats for representing sequence graphs, such as assembly, variation or splicing graphs. The formats are adopted by several software tools. Here, we present GfaPy, a software package for creating, parsing and editing GFA graphs using the programming language Python. GfaPy supports GFA 1 and GFA 2, using the same interface and allows for interconversion between both formats. The software package provides a simple interface for custom record types, which is an important new feature of GFA 2 (compared to GFA 1). This enables new applications of the format. GfaPy is available open source at https://github.com/ggonnella/gfapy and installable via pip. gonnella@zbh.uni-hamburg.de. Supplementary data are available at Bioinformatics online. © The Author (2017). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com

Artificial intelligence approach to planning the robotic assembly of large tetrahedral truss structures

NASA Technical Reports Server (NTRS)

Homemdemello, Luiz S.

1992-01-01

An assembly planner for tetrahedral truss structures is presented. To overcome the difficulties due to the large number of parts, the planner exploits the simplicity and uniformity of the shapes of the parts and the regularity of their interconnection. The planning automation is based on the computational formalism known as production system. The global data base consists of a hexagonal grid representation of the truss structure. This representation captures the regularity of tetrahedral truss structures and their multiple hierarchies. It maps into quadratic grids and can be implemented in a computer by using a two-dimensional array data structure. By maintaining the multiple hierarchies explicitly in the model, the choice of a particular hierarchy is only made when needed, thus allowing a more informed decision. Furthermore, testing the preconditions of the production rules is simple because the patterned way in which the struts are interconnected is incorporated into the topology of the hexagonal grid. A directed graph representation of assembly sequences allows the use of both graph search and backtracking control strategies.

Manifold, bus support and coupling arrangement for solid oxide fuel cells

DOEpatents

Parry, Gareth W.

1989-01-01

Individual, tubular solid oxide fuel cells (SOFCs) are assembled into bundles called a module within a housing, with a plurality of modules arranged end-to-end in a linear, stacked configuration called a string. A common set of piping comprised of a suitable high temperture resistant material (1) provides fuel and air to each module housing, (2) serves as electrically conducting buses, and (3) provides structural support for a string of SOFC modules. The piping thus forms a manfold for directing fuel and air to each module in a string and makes electrical contact with the module's anode and cathode to conduct the DC power generated by the SOFC. The piping also provides structureal support for each individual module and maintains each string of modules as a structurally integral unit for ensuring high strength in a large 3-dimensional array of SOFC modules. Ceramic collars are used to connect fuel and air inlet piping to each of the electrodes in an SOFC module and provide (1) electrical insulation for the current carrying bus bars and gas manifolds, (2) damping for the fuel and air inlet piping, and (3) proper spacing between the fuel and air inlet piping to prevent contact between these tubes and possible damage to the SOFC.

Role of string-like collective atomic motion on diffusion and structural relaxation in glass forming Cu-Zr alloys

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhang, Hao; Department of Chemical and Materials Engineering, University of Alberta, Edmonton, Alberta T6G 2V4; Zhong, Cheng

2015-04-28

We investigate Cu-Zr liquid alloys using molecular dynamics simulation and well-accepted embedded atom method potentials over a wide range of chemical composition and temperature as model metallic glass-forming (GF) liquids. As with other types of GF materials, the dynamics of these complex liquids are characterized by “dynamic heterogeneity” in the form of transient polymeric clusters of highly mobile atoms that are composed in turn of atomic clusters exhibiting string-like cooperative motion. In accordance with the string model of relaxation, an extension of the Adam-Gibbs (AG) model, changes in the activation free energy ΔG{sub a} with temperature of both the Cumore » and Zr diffusion coefficients D, and the alpha structural relaxation time τ{sub α} can be described to a good approximation by changes in the average string length, L. In particular, we confirm that the strings are a concrete realization of the abstract “cooperatively rearranging regions” of AG. We also find coexisting clusters of relatively “immobile” atoms that exhibit predominantly icosahedral local packing rather than the low symmetry packing of “mobile” atoms. These two distinct types of dynamic heterogeneity are then associated with different fluid structural states. Glass-forming liquids are thus analogous to polycrystalline materials where the icosahedrally packed regions correspond to crystal grains, and the strings reside in the relatively disordered grain boundary-like regions exterior to these locally well-ordered regions. A dynamic equilibrium between localized (“immobile”) and wandering (“mobile”) particles exists in the liquid so that the dynamic heterogeneity can be considered to be type of self-assembly process. We also characterize changes in the local atomic free volume in the course of string-like atomic motion to better understand the initiation and propagation of these fluid excitations.« less

In Silico Enhancing M. tuberculosis Protein Interaction Networks in STRING To Predict Drug-Resistance Pathways and Pharmacological Risks.

PubMed

Mei, Suyu

2018-05-04

Bacterial protein-protein interaction (PPI) networks are significant to reveal the machinery of signal transduction and drug resistance within bacterial cells. The database STRING has collected a large number of bacterial pathogen PPI networks, but most of the data are of low quality without being experimentally or computationally validated, thus restricting its further biomedical applications. We exploit the experimental data via four solutions to enhance the quality of M. tuberculosis H37Rv (MTB) PPI networks in STRING. Computational results show that the experimental data derived jointly by two-hybrid and copurification approaches are the most reliable to train an L 2 -regularized logistic regression model for MTB PPI network validation. On the basis of the validated MTB PPI networks, we further study the three problems via breadth-first graph search algorithm: (1) discovery of MTB drug-resistance pathways through searching for the paths between known drug-target genes and drug-resistance genes, (2) choosing potential cotarget genes via searching for the critical genes located on multiple pathways, and (3) choosing essential drug-target genes via analysis of network degree distribution. In addition, we further combine the validated MTB PPI networks with human PPI networks to analyze the potential pharmacological risks of known and candidate drug-target genes from the point of view of system pharmacology. The evidence from protein structure alignment demonstrates that the drugs that act on MTB target genes could also adversely act on human signaling pathways.

Combinatorial approaches to gene recognition.

PubMed

Roytberg, M A; Astakhova, T V; Gelfand, M S

1997-01-01

Recognition of genes via exon assembly approaches leads naturally to the use of dynamic programming. We consider the general graph-theoretical formulation of the exon assembly problem and analyze in detail some specific variants: multicriterial optimization in the case of non-linear gene-scoring functions; context-dependent schemes for scoring exons and related procedures for exon filtering; and highly specific recognition of arbitrary gene segments, oligonucleotide probes and polymerase chain reaction (PCR) primers.

Large-scale parallel genome assembler over cloud computing environment.

PubMed

Das, Arghya Kusum; Koppa, Praveen Kumar; Goswami, Sayan; Platania, Richard; Park, Seung-Jong

2017-06-01

The size of high throughput DNA sequencing data has already reached the terabyte scale. To manage this huge volume of data, many downstream sequencing applications started using locality-based computing over different cloud infrastructures to take advantage of elastic (pay as you go) resources at a lower cost. However, the locality-based programming model (e.g. MapReduce) is relatively new. Consequently, developing scalable data-intensive bioinformatics applications using this model and understanding the hardware environment that these applications require for good performance, both require further research. In this paper, we present a de Bruijn graph oriented Parallel Giraph-based Genome Assembler (GiGA), as well as the hardware platform required for its optimal performance. GiGA uses the power of Hadoop (MapReduce) and Giraph (large-scale graph analysis) to achieve high scalability over hundreds of compute nodes by collocating the computation and data. GiGA achieves significantly higher scalability with competitive assembly quality compared to contemporary parallel assemblers (e.g. ABySS and Contrail) over traditional HPC cluster. Moreover, we show that the performance of GiGA is significantly improved by using an SSD-based private cloud infrastructure over traditional HPC cluster. We observe that the performance of GiGA on 256 cores of this SSD-based cloud infrastructure closely matches that of 512 cores of traditional HPC cluster.

Pulling tool for use with reeled tubing and method for operating tools from wellbores

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pleasants, C.W.

1991-08-20

This patent describes a tool for latching to and/or pulling a well operating tool having a fishing neck from a downhole location in pipe in a well bore. It comprises an elongated tubular housing assembly defining a longitudinal bore; means connecting the housing assembly to an end of a string of reeled tubing for passing the housing assembly through the wellbore and into contact with the fishing neck and for introducing fluid into the longitudinal bore; means disposed on the housing assembly for automatically latching to the fishing neck upon the housing assembly engaging the fishing neck; means responsive tomore » a predetermined fluid condition in the bore for releasing the latching means from the fishing neck to permit the tool to be removed from the wellbore; and means responsive to a predetermined mechanical force exerted, via the reeled tubing, on the housing assembly and on the fishing neck for releasing the latching means from the fishing neck.« less

Self-Assembly of Two-Dimensional Patchy Colloidal Dumbbells

NASA Astrophysics Data System (ADS)

Nakamura, Kanji; Sato, Masahide

2018-06-01

We study the self-assembly of two-dimensional patchy colloidal dumbbells, which are composed of attractive and repulsive circles. The shape of a colloidal dumbbell is characterized by the ratio of the diameters of the two circles forming it, q, and the dimensionless distance between the centers of mass of the two circles, l. We carry out Monte Carlo simulations and show that various self-assembled structures, micelles, elongated micelles, straight string, a meshlike structure, and large clusters with voids, are formed by changing the combination of q and l. q represents the steric effect of the repulsive part of colloidal dumbbells. l represents the anisotropy of the particle shape and increasing the periphery of attractive part. From our simulations, we find that the shapes of self-assembled structures are more sensitive to q than to l.

Method and apparatus for injecting particulate media into the ground

DOEpatents

Dwyer, Brian P.; Dwyer, Stephen F.; Vigil, Francine S.; Stewart, Willis E.

2004-12-28

An improved method and apparatus for injecting particulate media into the ground for constructing underground permeable reactive barriers, which are used for environmental remediation of subsurface contaminated soil and water. A media injector sub-assembly attached to a triple wall drill string pipe sprays a mixture of active particulate media suspended in a carrier fluid radially outwards from the sub-assembly, at the same time that a mixing fluid is sprayed radially outwards. The media spray intersects the mixing spray at a relatively close distance from the point of injection, which entrains the particulate media into the mixing spray and ensures a uniform and deep dispersion of the active media in the surrounding soil. The media injector sub-assembly can optionally include channels for supplying compressed air to an attached down-the-hole hammer drive assembly for use during drilling.

Restarting and recentering genetic algorithm variations for DNA fragment assembly: The necessity of a multi-strategy approach.

PubMed

Hughes, James Alexander; Houghten, Sheridan; Ashlock, Daniel

2016-12-01

DNA Fragment assembly - an NP-Hard problem - is one of the major steps in of DNA sequencing. Multiple strategies have been used for this problem, including greedy graph-based algorithms, deBruijn graphs, and the overlap-layout-consensus approach. This study focuses on the overlap-layout-consensus approach. Heuristics and computational intelligence methods are combined to exploit their respective benefits. These algorithm combinations were able to produce high quality results surpassing the best results obtained by a number of competitive algorithms specially designed and tuned for this problem on thirteen of sixteen popular benchmarks. This work also reinforces the necessity of using multiple search strategies as it is clearly observed that algorithm performance is dependent on problem instance; without a deeper look into many searches, top solutions could be missed entirely. Copyright © 2016. Published by Elsevier Ireland Ltd.

Seeing Circuits Assemble

PubMed Central

Lichtman, Jeff W.; Smith, Stephen J.

2009-01-01

Developmental neurobiology has been greatly invigorated by a recent string of breakthroughs in molecular biology and optical physics that permit direct in vivo observation of neural circuit assembly. The imaging done thus far suggests that as brains are built, a significant amount of unbuilding is also occurring. We offer the view that this tumult is the result of the intersecting behaviors of the many single-celled creatures (i.e., neurons, glia, and progenitors) that inhabit brains. New tools will certainly be needed if we wish to monitor the myriad cooperative and competitive interactions at play in the cellular society that builds brains. PMID:18995818

Task planning and control synthesis for robotic manipulation in space applications

NASA Technical Reports Server (NTRS)

Sanderson, A. C.; Peshkin, M. A.; Homem-De-mello, L. S.

1987-01-01

Space-based robotic systems for diagnosis, repair and assembly of systems will require new techniques of planning and manipulation to accomplish these complex tasks. Results of work in assembly task representation, discrete task planning, and control synthesis which provide a design environment for flexible assembly systems in manufacturing applications, and which extend to planning of manipulatiuon operations in unstructured environments are summarized. Assembly planning is carried out using the AND/OR graph representation which encompasses all possible partial orders of operations and may be used to plan assembly sequences. Discrete task planning uses the configuration map which facilitates search over a space of discrete operations parameters in sequential operations in order to achieve required goals in the space of bounded configuration sets.

Integrability of conformal fishnet theory

NASA Astrophysics Data System (ADS)

Gromov, Nikolay; Kazakov, Vladimir; Korchemsky, Gregory; Negro, Stefano; Sizov, Grigory

2018-01-01

We study integrability of fishnet-type Feynman graphs arising in planar four-dimensional bi-scalar chiral theory recently proposed in arXiv:1512.06704 as a special double scaling limit of gamma-deformed N = 4 SYM theory. We show that the transfer matrix "building" the fishnet graphs emerges from the R-matrix of non-compact conformal SU(2 , 2) Heisenberg spin chain with spins belonging to principal series representations of the four-dimensional conformal group. We demonstrate explicitly a relationship between this integrable spin chain and the Quantum Spectral Curve (QSC) of N = 4 SYM. Using QSC and spin chain methods, we construct Baxter equation for Q-functions of the conformal spin chain needed for computation of the anomalous dimensions of operators of the type tr( ϕ 1 J ) where ϕ 1 is one of the two scalars of the theory. For J = 3 we derive from QSC a quantization condition that fixes the relevant solution of Baxter equation. The scaling dimensions of the operators only receive contributions from wheel-like graphs. We develop integrability techniques to compute the divergent part of these graphs and use it to present the weak coupling expansion of dimensions to very high orders. Then we apply our exact equations to calculate the anomalous dimensions with J = 3 to practically unlimited precision at any coupling. These equations also describe an infinite tower of local conformal operators all carrying the same charge J = 3. The method should be applicable for any J and, in principle, to any local operators of bi-scalar theory. We show that at strong coupling the scaling dimensions can be derived from semiclassical quantization of finite gap solutions describing an integrable system of noncompact SU(2 , 2) spins. This bears similarities with the classical strings arising in the strongly coupled limit of N = 4 SYM.

JavaGenes and Condor: Cycle-Scavenging Genetic Algorithms

NASA Technical Reports Server (NTRS)

Globus, Al; Langhirt, Eric; Livny, Miron; Ramamurthy, Ravishankar; Soloman, Marvin; Traugott, Steve

2000-01-01

A genetic algorithm code, JavaGenes, was written in Java and used to evolve pharmaceutical drug molecules and digital circuits. JavaGenes was run under the Condor cycle-scavenging batch system managing 100-170 desktop SGI workstations. Genetic algorithms mimic biological evolution by evolving solutions to problems using crossover and mutation. While most genetic algorithms evolve strings or trees, JavaGenes evolves graphs representing (currently) molecules and circuits. Java was chosen as the implementation language because the genetic algorithm requires random splitting and recombining of graphs, a complex data structure manipulation with ample opportunities for memory leaks, loose pointers, out-of-bound indices, and other hard to find bugs. Java garbage-collection memory management, lack of pointer arithmetic, and array-bounds index checking prevents these bugs from occurring, substantially reducing development time. While a run-time performance penalty must be paid, the only unacceptable performance we encountered was using standard Java serialization to checkpoint and restart the code. This was fixed by a two-day implementation of custom checkpointing. JavaGenes is minimally integrated with Condor; in other words, JavaGenes must do its own checkpointing and I/O redirection. A prototype Java-aware version of Condor was developed using standard Java serialization for checkpointing. For the prototype to be useful, standard Java serialization must be significantly optimized. JavaGenes is approximately 8700 lines of code and a few thousand JavaGenes jobs have been run. Most jobs ran for a few days. Results include proof that genetic algorithms can evolve directed and undirected graphs, development of a novel crossover operator for graphs, a paper in the journal Nanotechnology, and another paper in preparation.

MMKG: An approach to generate metallic materials knowledge graph based on DBpedia and Wikipedia

NASA Astrophysics Data System (ADS)

Zhang, Xiaoming; Liu, Xin; Li, Xin; Pan, Dongyu

2017-02-01

The research and development of metallic materials are playing an important role in today's society, and in the meanwhile lots of metallic materials knowledge is generated and available on the Web (e.g., Wikipedia) for materials experts. However, due to the diversity and complexity of metallic materials knowledge, the knowledge utilization may encounter much inconvenience. The idea of knowledge graph (e.g., DBpedia) provides a good way to organize the knowledge into a comprehensive entity network. Therefore, the motivation of our work is to generate a metallic materials knowledge graph (MMKG) using available knowledge on the Web. In this paper, an approach is proposed to build MMKG based on DBpedia and Wikipedia. First, we use an algorithm based on directly linked sub-graph semantic distance (DLSSD) to preliminarily extract metallic materials entities from DBpedia according to some predefined seed entities; then based on the results of the preliminary extraction, we use an algorithm, which considers both semantic distance and string similarity (SDSS), to achieve the further extraction. Second, due to the absence of materials properties in DBpedia, we use an ontology-based method to extract properties knowledge from the HTML tables of corresponding Wikipedia Web pages for enriching MMKG. Materials ontology is used to locate materials properties tables as well as to identify the structure of the tables. The proposed approach is evaluated by precision, recall, F1 and time performance, and meanwhile the appropriate thresholds for the algorithms in our approach are determined through experiments. The experimental results show that our approach returns expected performance. A tool prototype is also designed to facilitate the process of building the MMKG as well as to demonstrate the effectiveness of our approach.

The Influencing Factor Analysis on the Performance Evaluation of Assembly Line Balancing Problem Level 1 (SALBP-1) Based on ANOVA Method

NASA Astrophysics Data System (ADS)

Chen, Jie; Hu, Jiangnan

2017-06-01

Industry 4.0 and lean production has become the focus of manufacturing. A current issue is to analyse the performance of the assembly line balancing. This study focus on distinguishing the factors influencing the assembly line balancing. The one-way ANOVA method is applied to explore the significant degree of distinguished factors. And regression model is built to find key points. The maximal task time (tmax ), the quantity of tasks (n), and degree of convergence of precedence graph (conv) are critical for the performance of assembly line balancing. The conclusion will do a favor to the lean production in the manufacturing.

Compression of next-generation sequencing reads aided by highly efficient de novo assembly

PubMed Central

Jones, Daniel C.; Ruzzo, Walter L.; Peng, Xinxia

2012-01-01

We present Quip, a lossless compression algorithm for next-generation sequencing data in the FASTQ and SAM/BAM formats. In addition to implementing reference-based compression, we have developed, to our knowledge, the first assembly-based compressor, using a novel de novo assembly algorithm. A probabilistic data structure is used to dramatically reduce the memory required by traditional de Bruijn graph assemblers, allowing millions of reads to be assembled very efficiently. Read sequences are then stored as positions within the assembled contigs. This is combined with statistical compression of read identifiers, quality scores, alignment information and sequences, effectively collapsing very large data sets to <15% of their original size with no loss of information. Availability: Quip is freely available under the 3-clause BSD license from http://cs.washington.edu/homes/dcjones/quip. PMID:22904078

Beyond Aztec Castles: Toric Cascades in the dP 3 Quiver

NASA Astrophysics Data System (ADS)

Lai, Tri; Musiker, Gregg

2017-12-01

Given one of an infinite class of supersymmetric quiver gauge theories, string theorists can associate a corresponding toric variety (which is a Calabi-Yau 3-fold) as well as an associated combinatorial model known as a brane tiling. In combinatorial language, a brane tiling is a bipartite graph on a torus and its perfect matchings are of interest to both combinatorialists and physicists alike. A cluster algebra may also be associated to such quivers and in this paper we study the generators of this algebra, known as cluster variables, for the quiver associated to the cone over the del Pezzo surface d P 3. In particular, mutation sequences involving mutations exclusively at vertices with two in-coming arrows and two out-going arrows are referred to as toric cascades in the string theory literature. Such toric cascades give rise to interesting discrete integrable systems on the level of cluster variable dynamics. We provide an explicit algebraic formula for all cluster variables that are reachable by toric cascades as well as a combinatorial interpretation involving perfect matchings of subgraphs of the d P 3 brane tiling for these formulas in most cases.

Artificial muscle-like function from hierarchical supramolecular assembly of photoresponsive molecular motors

NASA Astrophysics Data System (ADS)

Chen, Jiawen; Leung, Franco King-Chi; Stuart, Marc C. A.; Kajitani, Takashi; Fukushima, Takanori; van der Giessen, Erik; Feringa, Ben L.

2018-02-01

A striking feature of living systems is their ability to produce motility by amplification of collective molecular motion from the nanoscale up to macroscopic dimensions. Some of nature's protein motors, such as myosin in muscle tissue, consist of a hierarchical supramolecular assembly of very large proteins, in which mechanical stress induces a coordinated movement. However, artificial molecular muscles have often relied on covalent polymer-based actuators. Here, we describe the macroscopic contractile muscle-like motion of a supramolecular system (comprising 95% water) formed by the hierarchical self-assembly of a photoresponsive amphiphilic molecular motor. The molecular motor first assembles into nanofibres, which further assemble into aligned bundles that make up centimetre-long strings. Irradiation induces rotary motion of the molecular motors, and propagation and accumulation of this motion lead to contraction of the fibres towards the light source. This system supports large-amplitude motion, fast response, precise control over shape, as well as weight-lifting experiments in water and air.

DNA Assembly with De Bruijn Graphs Using an FPGA Platform.

PubMed

Poirier, Carl; Gosselin, Benoit; Fortier, Paul

2018-01-01

This paper presents an FPGA implementation of a DNA assembly algorithm, called Ray, initially developed to run on parallel CPUs. The OpenCL language is used and the focus is placed on modifying and optimizing the original algorithm to better suit the new parallelization tool and the radically different hardware architecture. The results show that the execution time is roughly one fourth that of the CPU and factoring energy consumption yields a tenfold savings.

Tolerance analyses of a quadrupole magnet for advanced photon source upgrade

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, J., E-mail: Jieliu@aps.anl.gov; Jaski, M., E-mail: jaski@aps.anl.gov; Borland, M., E-mail: borland@aps.anl.gov

2016-07-27

Given physics requirements, the mechanical fabrication and assembly tolerances for storage ring magnets can be calculated using analytical methods [1, 2]. However, this method is not easy for complicated magnet designs [1]. In this paper, a novel method is proposed to determine fabrication and assembly tolerances consistent with physics requirements, through a combination of magnetic and mechanical tolerance analyses. In this study, finite element analysis using OPERA is conducted to estimate the effect of fabrication and assembly errors on the magnetic field of a quadrupole magnet and to determine the allowable tolerances to achieve the specified magnetic performances. Based onmore » the study, allowable fabrication and assembly tolerances for the quadrupole assembly are specified for the mechanical design of the quadrupole magnet. Next, to achieve the required assembly level tolerances, mechanical tolerance stackup analyses using a 3D tolerance analysis package are carried out to determine the part and subassembly level fabrication tolerances. This method can be used to determine the tolerances for design of other individual magnets and of magnet strings.« less

Communication: Towards first principles theory of relaxation in supercooled liquids formulated in terms of cooperative motion.

PubMed

Freed, Karl F

2014-10-14

A general theory of the long time, low temperature dynamics of glass-forming fluids remains elusive despite the almost 20 years since the famous pronouncement by the Nobel Laureate P. W. Anderson, "The deepest and most interesting unsolved problem in solid state theory is probably the theory of the nature of glass and the glass transition" [Science 267, 1615 (1995)]. While recent work indicates that Adam-Gibbs theory (AGT) provides a framework for computing the structural relaxation time of supercooled fluids and for analyzing the properties of the cooperatively rearranging dynamical strings observed in low temperature molecular dynamics simulations, the heuristic nature of AGT has impeded general acceptance due to the lack of a first principles derivation [G. Adam and J. H. Gibbs, J. Chem. Phys. 43, 139 (1965)]. This deficiency is rectified here by a statistical mechanical derivation of AGT that uses transition state theory and the assumption that the transition state is composed of elementary excitations of a string-like form. The strings are assumed to form in equilibrium with the mobile particles in the fluid. Hence, transition state theory requires the strings to be in mutual equilibrium and thus to have the size distribution of a self-assembling system, in accord with the simulations and analyses of Douglas and co-workers. The average relaxation rate is computed as a grand canonical ensemble average over all string sizes, and use of the previously determined relation between configurational entropy and the average cluster size in several model equilibrium self-associating systems produces the AGT expression in a manner enabling further extensions and more fundamental tests of the assumptions.

Communication: Towards first principles theory of relaxation in supercooled liquids formulated in terms of cooperative motion

NASA Astrophysics Data System (ADS)

Freed, Karl F.

2014-10-01

A general theory of the long time, low temperature dynamics of glass-forming fluids remains elusive despite the almost 20 years since the famous pronouncement by the Nobel Laureate P. W. Anderson, "The deepest and most interesting unsolved problem in solid state theory is probably the theory of the nature of glass and the glass transition" [Science 267, 1615 (1995)]. While recent work indicates that Adam-Gibbs theory (AGT) provides a framework for computing the structural relaxation time of supercooled fluids and for analyzing the properties of the cooperatively rearranging dynamical strings observed in low temperature molecular dynamics simulations, the heuristic nature of AGT has impeded general acceptance due to the lack of a first principles derivation [G. Adam and J. H. Gibbs, J. Chem. Phys. 43, 139 (1965)]. This deficiency is rectified here by a statistical mechanical derivation of AGT that uses transition state theory and the assumption that the transition state is composed of elementary excitations of a string-like form. The strings are assumed to form in equilibrium with the mobile particles in the fluid. Hence, transition state theory requires the strings to be in mutual equilibrium and thus to have the size distribution of a self-assembling system, in accord with the simulations and analyses of Douglas and co-workers. The average relaxation rate is computed as a grand canonical ensemble average over all string sizes, and use of the previously determined relation between configurational entropy and the average cluster size in several model equilibrium self-associating systems produces the AGT expression in a manner enabling further extensions and more fundamental tests of the assumptions.

Communication: Towards first principles theory of relaxation in supercooled liquids formulated in terms of cooperative motion

DOE Office of Scientific and Technical Information (OSTI.GOV)

Freed, Karl F., E-mail: freed@uchicago.edu

A general theory of the long time, low temperature dynamics of glass-forming fluids remains elusive despite the almost 20 years since the famous pronouncement by the Nobel Laureate P. W. Anderson, “The deepest and most interesting unsolved problem in solid state theory is probably the theory of the nature of glass and the glass transition” [Science 267, 1615 (1995)]. While recent work indicates that Adam-Gibbs theory (AGT) provides a framework for computing the structural relaxation time of supercooled fluids and for analyzing the properties of the cooperatively rearranging dynamical strings observed in low temperature molecular dynamics simulations, the heuristic naturemore » of AGT has impeded general acceptance due to the lack of a first principles derivation [G. Adam and J. H. Gibbs, J. Chem. Phys. 43, 139 (1965)]. This deficiency is rectified here by a statistical mechanical derivation of AGT that uses transition state theory and the assumption that the transition state is composed of elementary excitations of a string-like form. The strings are assumed to form in equilibrium with the mobile particles in the fluid. Hence, transition state theory requires the strings to be in mutual equilibrium and thus to have the size distribution of a self-assembling system, in accord with the simulations and analyses of Douglas and co-workers. The average relaxation rate is computed as a grand canonical ensemble average over all string sizes, and use of the previously determined relation between configurational entropy and the average cluster size in several model equilibrium self-associating systems produces the AGT expression in a manner enabling further extensions and more fundamental tests of the assumptions.« less

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data.

PubMed

Chin, Chen-Shan; Alexander, David H; Marks, Patrick; Klammer, Aaron A; Drake, James; Heiner, Cheryl; Clum, Alicia; Copeland, Alex; Huddleston, John; Eichler, Evan E; Turner, Stephen W; Korlach, Jonas

2013-06-01

We present a hierarchical genome-assembly process (HGAP) for high-quality de novo microbial genome assemblies using only a single, long-insert shotgun DNA library in conjunction with Single Molecule, Real-Time (SMRT) DNA sequencing. Our method uses the longest reads as seeds to recruit all other reads for construction of highly accurate preassembled reads through a directed acyclic graph-based consensus procedure, which we follow with assembly using off-the-shelf long-read assemblers. In contrast to hybrid approaches, HGAP does not require highly accurate raw reads for error correction. We demonstrate efficient genome assembly for several microorganisms using as few as three SMRT Cell zero-mode waveguide arrays of sequencing and for BACs using just one SMRT Cell. Long repeat regions can be successfully resolved with this workflow. We also describe a consensus algorithm that incorporates SMRT sequencing primary quality values to produce de novo genome sequence exceeding 99.999% accuracy.

Fast scaffolding with small independent mixed integer programs

PubMed Central

Salmela, Leena; Mäkinen, Veli; Välimäki, Niko; Ylinen, Johannes; Ukkonen, Esko

2011-01-01

Motivation: Assembling genomes from short read data has become increasingly popular, but the problem remains computationally challenging especially for larger genomes. We study the scaffolding phase of sequence assembly where preassembled contigs are ordered based on mate pair data. Results: We present MIP Scaffolder that divides the scaffolding problem into smaller subproblems and solves these with mixed integer programming. The scaffolding problem can be represented as a graph and the biconnected components of this graph can be solved independently. We present a technique for restricting the size of these subproblems so that they can be solved accurately with mixed integer programming. We compare MIP Scaffolder to two state of the art methods, SOPRA and SSPACE. MIP Scaffolder is fast and produces better or as good scaffolds as its competitors on large genomes. Availability: The source code of MIP Scaffolder is freely available at http://www.cs.helsinki.fi/u/lmsalmel/mip-scaffolder/. Contact: leena.salmela@cs.helsinki.fi PMID:21998153

System and method for damping vibration in a drill string using a magnetorheological damper

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wassell, Mark Ellsworth; Burgess, Daniel E; Barbely, Jason R

2012-01-03

A system for damping vibration in a drill string can include a magnetorheological fluid valve assembly having a supply of a magnetorheological fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil for inducing a magnetic field thatmore » alters the resistance of the magnetorheological fluid to flow between the first and second chambers, thereby increasing the damping provided by the valve. A remnant magnetic field is induced in one or more components of the magnetorheological fluid valve during operation that can be used to provide the magnetic field for operating the valve so as to eliminate the need to energize the coils during operation except temporarily when changing the amount of damping required, thereby eliminating the need for a turbine alternator power the magnetorheological fluid valve. A demagnetization cycle can be used to reduce the remnant magnetic field when necessary.« less

CRISPR Detection From Short Reads Using Partial Overlap Graphs.

PubMed

Ben-Bassat, Ilan; Chor, Benny

2016-06-01

Clustered regularly interspaced short palindromic repeats (CRISPR) are structured regions in bacterial and archaeal genomes, which are part of an adaptive immune system against phages. CRISPRs are important for many microbial studies and are playing an essential role in current gene editing techniques. As such, they attract substantial research interest. The exponential growth in the amount of bacterial sequence data in recent years enables the exploration of CRISPR loci in more and more species. Most of the automated tools that detect CRISPR loci rely on fully assembled genomes. However, many assemblers do not handle repetitive regions successfully. The first tool to work directly on raw sequence data is Crass, which requires reads that are long enough to contain two copies of the same repeat. We present a method to identify CRISPR repeats from raw sequence data of short reads. The algorithm is based on an observation differentiating CRISPR repeats from other types of repeats, and it involves a series of partial constructions of the overlap graph. This enables us to avoid many of the difficulties that assemblers face, as we merely aim to identify the repeats that belong to CRISPR loci. A preliminary implementation of the algorithm shows good results and detects CRISPR repeats in cases where other existing tools fail to do so.

Morphological Diversity and Polymorphism of Self-Assembling Collagen Peptides Controlled by Length of Hydrophobic Domains

PubMed Central

2015-01-01

Synthetic collagen mimetic peptides are used to probe the role of hydrophobic forces in mediating protein self-assembly. Higher order association is an integral property of natural collagens, which assemble into fibers and meshes that comprise the extracellular matrix of connective tissues. The unique triple-helix fold fully exposes two-thirds of positions in the protein to solvent, providing ample opportunities for engineering interaction sites. Inclusion of just a few hydrophobic groups in a minimal peptide promotes a rich variety of self-assembly behaviors, resulting in hundred-nanometer to micron size nanodiscs and nanofibers. Morphology depends primarily on the length of hydrophobic domains. Peptide discs contain lipophilic domains capable of sequestering small hydrophobic dyes. Combining multiple peptide types result in composite structures of discs and fibers ranging from stars to plates-on-a-string. These systems provide valuable tools to shed insight into the fundamental principles underlying hydrophobicity-driven higher order protein association that will facilitate the design of self-assembling systems in biomaterials and nanomedical applications. PMID:25390880

Using Markov state models to study self-assembly

NASA Astrophysics Data System (ADS)

Perkett, Matthew R.; Hagan, Michael F.

2014-06-01

Markov state models (MSMs) have been demonstrated to be a powerful method for computationally studying intramolecular processes such as protein folding and macromolecular conformational changes. In this article, we present a new approach to construct MSMs that is applicable to modeling a broad class of multi-molecular assembly reactions. Distinct structures formed during assembly are distinguished by their undirected graphs, which are defined by strong subunit interactions. Spatial inhomogeneities of free subunits are accounted for using a recently developed Gaussian-based signature. Simplifications to this state identification are also investigated. The feasibility of this approach is demonstrated on two different coarse-grained models for virus self-assembly. We find good agreement between the dynamics predicted by the MSMs and long, unbiased simulations, and that the MSMs can reduce overall simulation time by orders of magnitude.

International Space Station Centrifuge Rotor Models A Comparison of the Euler-Lagrange and the Bond Graph Modeling Approach

NASA Technical Reports Server (NTRS)

Nguyen, Louis H.; Ramakrishnan, Jayant; Granda, Jose J.

2006-01-01

The assembly and operation of the International Space Station (ISS) require extensive testing and engineering analysis to verify that the Space Station system of systems would work together without any adverse interactions. Since the dynamic behavior of an entire Space Station cannot be tested on earth, math models of the Space Station structures and mechanical systems have to be built and integrated in computer simulations and analysis tools to analyze and predict what will happen in space. The ISS Centrifuge Rotor (CR) is one of many mechanical systems that need to be modeled and analyzed to verify the ISS integrated system performance on-orbit. This study investigates using Bond Graph modeling techniques as quick and simplified ways to generate models of the ISS Centrifuge Rotor. This paper outlines the steps used to generate simple and more complex models of the CR using Bond Graph Computer Aided Modeling Program with Graphical Input (CAMP-G). Comparisons of the Bond Graph CR models with those derived from Euler-Lagrange equations in MATLAB and those developed using multibody dynamic simulation at the National Aeronautics and Space Administration (NASA) Johnson Space Center (JSC) are presented to demonstrate the usefulness of the Bond Graph modeling approach for aeronautics and space applications.

G-Bean: an ontology-graph based web tool for biomedical literature retrieval

PubMed Central

2014-01-01

Background Currently, most people use NCBI's PubMed to search the MEDLINE database, an important bibliographical information source for life science and biomedical information. However, PubMed has some drawbacks that make it difficult to find relevant publications pertaining to users' individual intentions, especially for non-expert users. To ameliorate the disadvantages of PubMed, we developed G-Bean, a graph based biomedical search engine, to search biomedical articles in MEDLINE database more efficiently. Methods G-Bean addresses PubMed's limitations with three innovations: (1) Parallel document index creation: a multithreaded index creation strategy is employed to generate the document index for G-Bean in parallel; (2) Ontology-graph based query expansion: an ontology graph is constructed by merging four major UMLS (Version 2013AA) vocabularies, MeSH, SNOMEDCT, CSP and AOD, to cover all concepts in National Library of Medicine (NLM) database; a Personalized PageRank algorithm is used to compute concept relevance in this ontology graph and the Term Frequency - Inverse Document Frequency (TF-IDF) weighting scheme is used to re-rank the concepts. The top 500 ranked concepts are selected for expanding the initial query to retrieve more accurate and relevant information; (3) Retrieval and re-ranking of documents based on user's search intention: after the user selects any article from the existing search results, G-Bean analyzes user's selections to determine his/her true search intention and then uses more relevant and more specific terms to retrieve additional related articles. The new articles are presented to the user in the order of their relevance to the already selected articles. Results Performance evaluation with 106 OHSUMED benchmark queries shows that G-Bean returns more relevant results than PubMed does when using these queries to search the MEDLINE database. PubMed could not even return any search result for some OHSUMED queries because it failed to form the appropriate Boolean query statement automatically from the natural language query strings. G-Bean is available at http://bioinformatics.clemson.edu/G-Bean/index.php. Conclusions G-Bean addresses PubMed's limitations with ontology-graph based query expansion, automatic document indexing, and user search intention discovery. It shows significant advantages in finding relevant articles from the MEDLINE database to meet the information need of the user. PMID:25474588

G-Bean: an ontology-graph based web tool for biomedical literature retrieval.

PubMed

Wang, James Z; Zhang, Yuanyuan; Dong, Liang; Li, Lin; Srimani, Pradip K; Yu, Philip S

2014-01-01

Currently, most people use NCBI's PubMed to search the MEDLINE database, an important bibliographical information source for life science and biomedical information. However, PubMed has some drawbacks that make it difficult to find relevant publications pertaining to users' individual intentions, especially for non-expert users. To ameliorate the disadvantages of PubMed, we developed G-Bean, a graph based biomedical search engine, to search biomedical articles in MEDLINE database more efficiently. G-Bean addresses PubMed's limitations with three innovations: (1) Parallel document index creation: a multithreaded index creation strategy is employed to generate the document index for G-Bean in parallel; (2) Ontology-graph based query expansion: an ontology graph is constructed by merging four major UMLS (Version 2013AA) vocabularies, MeSH, SNOMEDCT, CSP and AOD, to cover all concepts in National Library of Medicine (NLM) database; a Personalized PageRank algorithm is used to compute concept relevance in this ontology graph and the Term Frequency - Inverse Document Frequency (TF-IDF) weighting scheme is used to re-rank the concepts. The top 500 ranked concepts are selected for expanding the initial query to retrieve more accurate and relevant information; (3) Retrieval and re-ranking of documents based on user's search intention: after the user selects any article from the existing search results, G-Bean analyzes user's selections to determine his/her true search intention and then uses more relevant and more specific terms to retrieve additional related articles. The new articles are presented to the user in the order of their relevance to the already selected articles. Performance evaluation with 106 OHSUMED benchmark queries shows that G-Bean returns more relevant results than PubMed does when using these queries to search the MEDLINE database. PubMed could not even return any search result for some OHSUMED queries because it failed to form the appropriate Boolean query statement automatically from the natural language query strings. G-Bean is available at http://bioinformatics.clemson.edu/G-Bean/index.php. G-Bean addresses PubMed's limitations with ontology-graph based query expansion, automatic document indexing, and user search intention discovery. It shows significant advantages in finding relevant articles from the MEDLINE database to meet the information need of the user.

Manifold, bus support and coupling arrangement for solid oxide fuel cells

DOEpatents

Parry, G.W.

1988-04-21

Individual, tubular solid oxide fuel cells (SOFCs) are assembled into bundles called a module within a housing, with a plurality of modules arranged end-to-end in a linear, stacked configuration called a string. A common set of piping comprised of a suitable high temperature resistant material (1) provides fuel and air to each module housing, (2) serves as electrically conducting buses, and (3) provides structural support for a string of SOFC modules. Ceramic collars are used to connect fuel and air inlet piping to each of the electrodes in an SOFC module and provide (1) electrical insulation for the current carrying bus bars and gas manifolds, (2) damping for the fuel and air inlet piping, and (3) proper spacing between the fuel and air inlet piping to prevent contact between these tubes and possible damage to the SOFC. 11 figs.

Apparatus for fixing latency

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hall, David R; Bartholomew, David B; Moon, Justin

2009-09-08

An apparatus for fixing computational latency within a deterministic region on a network comprises a network interface modem, a high priority module and at least one deterministic peripheral device. The network interface modem is in communication with the network. The high priority module is in communication with the network interface modem. The at least one deterministic peripheral device is connected to the high priority module. The high priority module comprises a packet assembler/disassembler, and hardware for performing at least one operation. Also disclosed is an apparatus for executing at least one instruction on a downhole device within a deterministic region,more » the apparatus comprising a control device, a downhole network, and a downhole device. The control device is near the surface of a downhole tool string. The downhole network is integrated into the tool string. The downhole device is in communication with the downhole network.« less

System and method for damping vibration in a drill string using a magnetorheological damper

DOEpatents

Wassell, Mark Ellsworth; Burgess, Daniel E.; Barbely, Jason R.; Thompson, Fred Lamar

2018-05-22

A system for damping vibration in a drill string can include a magnetorheological fluid valve assembly having a supply of a magnetorheological fluid. A remanent magnetic field is induced in the valve during operation that can be used to provide the magnetic field for operating the valve so as to eliminate the need to energize the coils except temporarily when changing the amount of damping required. The current to be supplied to the coil for inducing a desired magnetic field in the valve is determined based on the limiting hysteresis curve of the valve and the history of the magnetization of the value using a binary search methodology. The history of the magnetization of the valve is expressed as a series of sets of current and it resulting magnetization at which the current experienced a reversal compared to prior values of the current.

Constant size descriptors for accurate machine learning models of molecular properties

NASA Astrophysics Data System (ADS)

Collins, Christopher R.; Gordon, Geoffrey J.; von Lilienfeld, O. Anatole; Yaron, David J.

2018-06-01

Two different classes of molecular representations for use in machine learning of thermodynamic and electronic properties are studied. The representations are evaluated by monitoring the performance of linear and kernel ridge regression models on well-studied data sets of small organic molecules. One class of representations studied here counts the occurrence of bonding patterns in the molecule. These require only the connectivity of atoms in the molecule as may be obtained from a line diagram or a SMILES string. The second class utilizes the three-dimensional structure of the molecule. These include the Coulomb matrix and Bag of Bonds, which list the inter-atomic distances present in the molecule, and Encoded Bonds, which encode such lists into a feature vector whose length is independent of molecular size. Encoded Bonds' features introduced here have the advantage of leading to models that may be trained on smaller molecules and then used successfully on larger molecules. A wide range of feature sets are constructed by selecting, at each rank, either a graph or geometry-based feature. Here, rank refers to the number of atoms involved in the feature, e.g., atom counts are rank 1, while Encoded Bonds are rank 2. For atomization energies in the QM7 data set, the best graph-based feature set gives a mean absolute error of 3.4 kcal/mol. Inclusion of 3D geometry substantially enhances the performance, with Encoded Bonds giving 2.4 kcal/mol, when used alone, and 1.19 kcal/mol, when combined with graph features.

FMLRC: Hybrid long read error correction using an FM-index.

PubMed

Wang, Jeremy R; Holt, James; McMillan, Leonard; Jones, Corbin D

2018-02-09

Long read sequencing is changing the landscape of genomic research, especially de novo assembly. Despite the high error rate inherent to long read technologies, increased read lengths dramatically improve the continuity and accuracy of genome assemblies. However, the cost and throughput of these technologies limits their application to complex genomes. One solution is to decrease the cost and time to assemble novel genomes by leveraging "hybrid" assemblies that use long reads for scaffolding and short reads for accuracy. We describe a novel method leveraging a multi-string Burrows-Wheeler Transform with auxiliary FM-index to correct errors in long read sequences using a set of complementary short reads. We demonstrate that our method efficiently produces significantly more high quality corrected sequence than existing hybrid error-correction methods. We also show that our method produces more contiguous assemblies, in many cases, than existing state-of-the-art hybrid and long-read only de novo assembly methods. Our method accurately corrects long read sequence data using complementary short reads. We demonstrate higher total throughput of corrected long reads and a corresponding increase in contiguity of the resulting de novo assemblies. Improved throughput and computational efficiency than existing methods will help better economically utilize emerging long read sequencing technologies.

Using Markov state models to study self-assembly

PubMed Central

Perkett, Matthew R.; Hagan, Michael F.

2014-01-01

Markov state models (MSMs) have been demonstrated to be a powerful method for computationally studying intramolecular processes such as protein folding and macromolecular conformational changes. In this article, we present a new approach to construct MSMs that is applicable to modeling a broad class of multi-molecular assembly reactions. Distinct structures formed during assembly are distinguished by their undirected graphs, which are defined by strong subunit interactions. Spatial inhomogeneities of free subunits are accounted for using a recently developed Gaussian-based signature. Simplifications to this state identification are also investigated. The feasibility of this approach is demonstrated on two different coarse-grained models for virus self-assembly. We find good agreement between the dynamics predicted by the MSMs and long, unbiased simulations, and that the MSMs can reduce overall simulation time by orders of magnitude. PMID:24907984

Graph Theory and Ion and Molecular Aggregation in Aqueous Solutions.

PubMed

Choi, Jun-Ho; Lee, Hochan; Choi, Hyung Ran; Cho, Minhaeng

2018-04-20

In molecular and cellular biology, dissolved ions and molecules have decisive effects on chemical and biological reactions, conformational stabilities, and functions of small to large biomolecules. Despite major efforts, the current state of understanding of the effects of specific ions, osmolytes, and bioprotecting sugars on the structure and dynamics of water H-bonding networks and proteins is not yet satisfactory. Recently, to gain deeper insight into this subject, we studied various aggregation processes of ions and molecules in high-concentration salt, osmolyte, and sugar solutions with time-resolved vibrational spectroscopy and molecular dynamics simulation methods. It turns out that ions (or solute molecules) have a strong propensity to self-assemble into large and polydisperse aggregates that affect both local and long-range water H-bonding structures. In particular, we have shown that graph-theoretical approaches can be used to elucidate morphological characteristics of large aggregates in various aqueous salt, osmolyte, and sugar solutions. When ion and molecular aggregates in such aqueous solutions are treated as graphs, a variety of graph-theoretical properties, such as graph spectrum, degree distribution, clustering coefficient, minimum path length, and graph entropy, can be directly calculated by considering an ensemble of configurations taken from molecular dynamics trajectories. Here we show percolating behavior exhibited by ion and molecular aggregates upon increase in solute concentration in high solute concentrations and discuss compelling evidence of the isomorphic relation between percolation transitions of ion and molecular aggregates and water H-bonding networks. We anticipate that the combination of graph theory and molecular dynamics simulation methods will be of exceptional use in achieving a deeper understanding of the fundamental physical chemistry of dissolution and in describing the interplay between the self-aggregation of solute molecules and the structure and dynamics of water.

Graph Theory and Ion and Molecular Aggregation in Aqueous Solutions

NASA Astrophysics Data System (ADS)

Choi, Jun-Ho; Lee, Hochan; Choi, Hyung Ran; Cho, Minhaeng

2018-04-01

In molecular and cellular biology, dissolved ions and molecules have decisive effects on chemical and biological reactions, conformational stabilities, and functions of small to large biomolecules. Despite major efforts, the current state of understanding of the effects of specific ions, osmolytes, and bioprotecting sugars on the structure and dynamics of water H-bonding networks and proteins is not yet satisfactory. Recently, to gain deeper insight into this subject, we studied various aggregation processes of ions and molecules in high-concentration salt, osmolyte, and sugar solutions with time-resolved vibrational spectroscopy and molecular dynamics simulation methods. It turns out that ions (or solute molecules) have a strong propensity to self-assemble into large and polydisperse aggregates that affect both local and long-range water H-bonding structures. In particular, we have shown that graph-theoretical approaches can be used to elucidate morphological characteristics of large aggregates in various aqueous salt, osmolyte, and sugar solutions. When ion and molecular aggregates in such aqueous solutions are treated as graphs, a variety of graph-theoretical properties, such as graph spectrum, degree distribution, clustering coefficient, minimum path length, and graph entropy, can be directly calculated by considering an ensemble of configurations taken from molecular dynamics trajectories. Here we show percolating behavior exhibited by ion and molecular aggregates upon increase in solute concentration in high solute concentrations and discuss compelling evidence of the isomorphic relation between percolation transitions of ion and molecular aggregates and water H-bonding networks. We anticipate that the combination of graph theory and molecular dynamics simulation methods will be of exceptional use in achieving a deeper understanding of the fundamental physical chemistry of dissolution and in describing the interplay between the self-aggregation of solute molecules and the structure and dynamics of water.

Large-scale automated histology in the pursuit of connectomes.

PubMed

Kleinfeld, David; Bharioke, Arjun; Blinder, Pablo; Bock, Davi D; Briggman, Kevin L; Chklovskii, Dmitri B; Denk, Winfried; Helmstaedter, Moritz; Kaufhold, John P; Lee, Wei-Chung Allen; Meyer, Hanno S; Micheva, Kristina D; Oberlaender, Marcel; Prohaska, Steffen; Reid, R Clay; Smith, Stephen J; Takemura, Shinya; Tsai, Philbert S; Sakmann, Bert

2011-11-09

How does the brain compute? Answering this question necessitates neuronal connectomes, annotated graphs of all synaptic connections within defined brain areas. Further, understanding the energetics of the brain's computations requires vascular graphs. The assembly of a connectome requires sensitive hardware tools to measure neuronal and neurovascular features in all three dimensions, as well as software and machine learning for data analysis and visualization. We present the state of the art on the reconstruction of circuits and vasculature that link brain anatomy and function. Analysis at the scale of tens of nanometers yields connections between identified neurons, while analysis at the micrometer scale yields probabilistic rules of connection between neurons and exact vascular connectivity.

Large-Scale Automated Histology in the Pursuit of Connectomes

PubMed Central

Bharioke, Arjun; Blinder, Pablo; Bock, Davi D.; Briggman, Kevin L.; Chklovskii, Dmitri B.; Denk, Winfried; Helmstaedter, Moritz; Kaufhold, John P.; Lee, Wei-Chung Allen; Meyer, Hanno S.; Micheva, Kristina D.; Oberlaender, Marcel; Prohaska, Steffen; Reid, R. Clay; Smith, Stephen J.; Takemura, Shinya; Tsai, Philbert S.; Sakmann, Bert

2011-01-01

How does the brain compute? Answering this question necessitates neuronal connectomes, annotated graphs of all synaptic connections within defined brain areas. Further, understanding the energetics of the brain's computations requires vascular graphs. The assembly of a connectome requires sensitive hardware tools to measure neuronal and neurovascular features in all three dimensions, as well as software and machine learning for data analysis and visualization. We present the state of the art on the reconstruction of circuits and vasculature that link brain anatomy and function. Analysis at the scale of tens of nanometers yields connections between identified neurons, while analysis at the micrometer scale yields probabilistic rules of connection between neurons and exact vascular connectivity. PMID:22072665

Investigation of Proposed Process Sequence for the Array Automated Assembly Task, Phase 2. [low cost silicon solar array fabrication

NASA Technical Reports Server (NTRS)

Mardesich, N.; Garcia, A.; Bunyan, S.; Pepe, A.

1979-01-01

The technological readiness of the proposed process sequence was reviewed. Process steps evaluated include: (1) plasma etching to establish a standard surface; (2) forming junctions by diffusion from an N-type polymeric spray-on source; (3) forming a p+ back contact by firing a screen printed aluminum paste; (4) forming screen printed front contacts after cleaning the back aluminum and removing the diffusion oxide; (5) cleaning the junction by a laser scribe operation; (6) forming an antireflection coating by baking a polymeric spray-on film; (7) ultrasonically tin padding the cells; and (8) assembling cell strings into solar circuits using ethylene vinyl acetate as an encapsulant and laminating medium.

PLACNETw: a web-based tool for plasmid reconstruction from bacterial genomes.

PubMed

Vielva, Luis; de Toro, María; Lanza, Val F; de la Cruz, Fernando

2017-12-01

PLACNET is a graph-based tool for reconstruction of plasmids from next generation sequence pair-end datasets. PLACNET graphs contain two types of nodes (assembled contigs and reference genomes) and two types of edges (scaffold links and homology to references). Manual pruning of the graphs is a necessary requirement in PLACNET, but this is difficult for users without solid bioinformatic background. PLACNETw, a webtool based on PLACNET, provides an interactive graphic interface, automates BLAST searches, and extracts the relevant information for decision making. It allows a user with domain expertise to visualize the scaffold graphs and related information of contigs as well as reference sequences, so that the pruning operations can be done interactively from a personal computer without the need for additional tools. After successful pruning, each plasmid becomes a separate connected component subgraph. The resulting data are automatically downloaded by the user. PLACNETw is freely available at https://castillo.dicom.unican.es/upload/. delacruz@unican.es. A tutorial video and several solved examples are available at https://castillo.dicom.unican.es/placnetw_video/ and https://castillo.dicom.unican.es/examples/. © The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com

GFinisher: a new strategy to refine and finish bacterial genome assemblies

NASA Astrophysics Data System (ADS)

Guizelini, Dieval; Raittz, Roberto T.; Cruz, Leonardo M.; Souza, Emanuel M.; Steffens, Maria B. R.; Pedrosa, Fabio O.

2016-10-01

Despite the development in DNA sequencing technology, improving the number and the length of reads, the process of reconstruction of complete genome sequences, the so called genome assembly, is still complex. Only 13% of the prokaryotic genome sequencing projects have been completed. Draft genome sequences deposited in public databases are fragmented in contigs and may lack the full gene complement. The aim of the present work is to identify assembly errors and improve the assembly process of bacterial genomes. The biological patterns observed in genomic sequences and the application of a priori information can allow the identification of misassembled regions, and the reorganization and improvement of the overall de novo genome assembly. GFinisher starts generating a Fuzzy GC skew graphs for each contig in an assembly and follows breaking down the contigs in critical points in order to reassemble and close them using jFGap. This has been successfully applied to dataset from 96 genome assemblies, decreasing the number of contigs by up to 86%. GFinisher can easily optimize assemblies of prokaryotic draft genomes and can be used to improve the assembly programs based on nucleotide sequence patterns in the genome. The software and source code are available at http://gfinisher.sourceforge.net/.

GFinisher: a new strategy to refine and finish bacterial genome assemblies.

PubMed

Guizelini, Dieval; Raittz, Roberto T; Cruz, Leonardo M; Souza, Emanuel M; Steffens, Maria B R; Pedrosa, Fabio O

2016-10-10

Despite the development in DNA sequencing technology, improving the number and the length of reads, the process of reconstruction of complete genome sequences, the so called genome assembly, is still complex. Only 13% of the prokaryotic genome sequencing projects have been completed. Draft genome sequences deposited in public databases are fragmented in contigs and may lack the full gene complement. The aim of the present work is to identify assembly errors and improve the assembly process of bacterial genomes. The biological patterns observed in genomic sequences and the application of a priori information can allow the identification of misassembled regions, and the reorganization and improvement of the overall de novo genome assembly. GFinisher starts generating a Fuzzy GC skew graphs for each contig in an assembly and follows breaking down the contigs in critical points in order to reassemble and close them using jFGap. This has been successfully applied to dataset from 96 genome assemblies, decreasing the number of contigs by up to 86%. GFinisher can easily optimize assemblies of prokaryotic draft genomes and can be used to improve the assembly programs based on nucleotide sequence patterns in the genome. The software and source code are available at http://gfinisher.sourceforge.net/.

Synthesis of Polyferrocenylsilane Block Copolymers and their Crystallization-Driven Self-Assembly in Protic Solvents

NASA Astrophysics Data System (ADS)

Zhou, Hang

Quantum walks are the quantum mechanical analogue of classical random walks. Discrete-time quantum walks have been introduced and studied mostly on the line Z or higher dimensional space Zd but rarely defined on graphs with fractal dimensions because the coin operator depends on the position and the Fourier transform on the fractals is not defined. Inspired by its nature of classical walks, different quantum walks will be defined by choosing different shift and coin operators. When the coin operator is uniform, the results of classical walks will be obtained upon measurement at each step. Moreover, with measurement at each step, our results reveal more information about the classical random walks. In this dissertation, two graphs with fractal dimensions will be considered. The first one is Sierpinski gasket, a degree-4 regular graph with Hausdorff dimension of df = ln 3/ ln 2. The second is the Cantor graph derived like Cantor set, with Hausdorff dimension of df = ln 2/ ln 3. The definitions and amplitude functions of the quantum walks will be introduced. The main part of this dissertation is to derive a recursive formula to compute the amplitude Green function. The exiting probability will be computed and compared with the classical results. When the generation of graphs goes to infinity, the recursion of the walks will be investigated and the convergence rates will be obtained and compared with the classical counterparts.

Rate Change Graph Technology: Absolute Value Point Methodology

NASA Astrophysics Data System (ADS)

Strickland, Ken; Duvernois, Michael

2011-10-01

Absolute Value Point Methodology (AVPM) is a new theoretical tool for science research centered on Rate Change Graph Technology (RCGT). The modeling techniques of AVPM surpass conventional methods by extending the geometrical rules of mathematics. Exact geometrical structures of matter and energy become clearer revealing new ways to compile advanced data. RCGT mechanics is realized from geometrical intersections that are the result of plotting changing value vs. changing geometry. RCGT methods ignore size and value to perform an objective analysis in geometry. Value and size are then re-introduced back into the analytical system for a clear and concise solution. Available AVPM applications reveal that a massive amount of data from the Big Bang to vast super-clusters is untouched by human thought. Once scientists learn to design tools from RCGT Mechanics, new and formidable approaches to experimentation and theory may lead to new discoveries. In the creation of AVPM, it has become apparent there is a particle-world that exists between strings and our familiar universe. These unrealized particles in their own nature exhibit inflation like properties and may be the progenitor of the implements of our universe. Thus space, time, energy, motion, space-time and gravity are born from its existence and decay. This announcement will be the beginning of many new ideas from the study of RCGT mechanics.

Reality-and-Desire in Ciliates

NASA Astrophysics Data System (ADS)

Brijder, Robert; Hoogeboom, Hendrik Jan

The theory of gene assembly in ciliates has a number of similarities with the theory of sorting by reversal. Both theories model processes that are based on splicing, and have a fixed begin and end product. The main difference is the type of splicing operations used to obtain the end product from the begin product. In this overview paper, we show how the concept of breakpoint graph, known from the theory of sorting by reversal, can be used in the theory of gene assembly. Our aim is to present the material in an intuitive and informal manner to allow for an efficient introduction into the subject.

Mosaic Graphs and Comparative Genomics in Phage Communities

PubMed Central

Belcaid, Mahdi; Bergeron, Anne

2010-01-01

Abstract Comparing the genomes of two closely related viruses often produces mosaics where nearly identical sequences alternate with sequences that are unique to each genome. When several closely related genomes are compared, the unique sequences are likely to be shared with third genomes, leading to virus mosaic communities. Here we present comparative analysis of sets of Staphylococcus aureus phages that share large identical sequences with up to three other genomes, and with different partners along their genomes. We introduce mosaic graphs to represent these complex recombination events, and use them to illustrate the breath and depth of sequence sharing: some genomes are almost completely made up of shared sequences, while genomes that share very large identical sequences can adopt alternate functional modules. Mosaic graphs also allow us to identify breakpoints that could eventually be used for the construction of recombination networks. These findings have several implications on phage metagenomics assembly, on the horizontal gene transfer paradigm, and more generally on the understanding of the composition and evolutionary dynamics of virus communities. PMID:20874413

Electron microscopic analysis of rotavirus assembly-replication intermediates

PubMed Central

Boudreaux, Crystal E.; Kelly, Deborah F.; McDonald, Sarah M.

2015-01-01

Rotaviruses (RVs) replicate their segmented, double-stranded RNA genomes in tandem with early virion assembly. In this study, we sought to gain insight into the ultrastructure of RV assembly-replication intermediates (RIs) using transmission electron microscopy (EM). Specifically, we examined a replicase-competent, subcellular fraction that contains all known RV RIs. Three never-before-seen complexes were visualized in this fraction. Using in vitro reconstitution, we showed that ~15-nm doughnut-shaped proteins in strings were nonstructural protein 2 (NSP2) bound to viral RNA transcripts. Moreover, using immunoaffinity-capture EM, we revealed that ~20-nm pebble-shaped complexes contain the viral RNA polymerase (VP1) and RNA capping enzyme (VP3). Finally, using a gel purification method, we demonstrated that ~30–70-nm electron-dense, particle-shaped complexes represent replicase-competent core RIs, containing VP1, VP3, and NSP2 as well as capsid proteins VP2 and VP6. The results of this study raise new questions about the interactions among viral proteins and RNA during the concerted assembly-replicase process. PMID:25635339

Electron microscopic analysis of rotavirus assembly-replication intermediates

DOE Office of Scientific and Technical Information (OSTI.GOV)

Boudreaux, Crystal E.; Kelly, Deborah F.; McDonald, Sarah M., E-mail: mcdonaldsa@vtc.vt.edu

2015-03-15

Rotaviruses (RVs) replicate their segmented, double-stranded RNA genomes in tandem with early virion assembly. In this study, we sought to gain insight into the ultrastructure of RV assembly-replication intermediates (RIs) using transmission electron microscopy (EM). Specifically, we examined a replicase-competent, subcellular fraction that contains all known RV RIs. Three never-before-seen complexes were visualized in this fraction. Using in vitro reconstitution, we showed that ~15-nm doughnut-shaped proteins in strings were nonstructural protein 2 (NSP2) bound to viral RNA transcripts. Moreover, using immunoaffinity-capture EM, we revealed that ~20-nm pebble-shaped complexes contain the viral RNA polymerase (VP1) and RNA capping enzyme (VP3). Finally,more » using a gel purification method, we demonstrated that ~30–70-nm electron-dense, particle-shaped complexes represent replicase-competent core RIs, containing VP1, VP3, and NSP2 as well as capsid proteins VP2 and VP6. The results of this study raise new questions about the interactions among viral proteins and RNA during the concerted assembly–replicase process. - Highlights: • Rotaviruses replicate their genomes in tandem with early virion assembly. • Little is known about rotavirus assembly-replication intermediates. • Assembly-replication intermediates were imaged using electron microscopy.« less

Oriented matroids—combinatorial structures underlying loop quantum gravity

NASA Astrophysics Data System (ADS)

Brunnemann, Johannes; Rideout, David

2010-10-01

We analyze combinatorial structures which play a central role in determining spectral properties of the volume operator (Ashtekar A and Lewandowski J 1998 Adv. Theor. Math. Phys. 1 388) in loop quantum gravity (LQG). These structures encode geometrical information of the embedding of arbitrary valence vertices of a graph in three-dimensional Riemannian space and can be represented by sign strings containing relative orientations of embedded edges. We demonstrate that these signature factors are a special representation of the general mathematical concept of an oriented matroid (Ziegler G M 1998 Electron. J. Comb.; Björner A et al 1999 Oriented Matroids (Cambridge: Cambridge University Press)). Moreover, we show that oriented matroids can also be used to describe the topology (connectedness) of directed graphs. Hence, the mathematical methods developed for oriented matroids can be applied to the difficult combinatorics of embedded graphs underlying the construction of LQG. As a first application we revisit the analysis of Brunnemann and Rideout (2008 Class. Quantum Grav. 25 065001 and 065002), and find that enumeration of all possible sign configurations used there is equivalent to enumerating all realizable oriented matroids of rank 3 (Ziegler G M 1998 Electron. J. Comb.; Björner A et al 1999 Oriented Matroids (Cambridge: Cambridge University Press)), and thus can be greatly simplified. We find that for 7-valent vertices having no coplanar triples of edge tangents, the smallest non-zero eigenvalue of the volume spectrum does not grow as one increases the maximum spin jmax at the vertex, for any orientation of the edge tangents. This indicates that, in contrast to the area operator, considering large jmax does not necessarily imply large volume eigenvalues. In addition we give an outlook to possible starting points for rewriting the combinatorics of LQG in terms of oriented matroids.

Meraculous: De Novo Genome Assembly with Short Paired-End Reads

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chapman, Jarrod A.; Ho, Isaac; Sunkara, Sirisha

2011-08-18

We describe a new algorithm, meraculous, for whole genome assembly of deep paired-end short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived from the 15.4 megabase genome of the haploid yeast Pichia stipitis. More than 95% of the genome is recovered, with no errors; half the assembled sequence is in contigs longer than 101 kilobases and in scaffolds longer than 269 kilobases. Incorporating fosmid ends recovers entire chromosomes. Meraculous relies on an efficient and conservative traversal of the subgraph of the k-mer (deBruijn) graph of oligonucleotides with unique high quality extensions inmore » the dataset, avoiding an explicit error correction step as used in other short-read assemblers. A novel memory-efficient hashing scheme is introduced. The resulting contigs are ordered and oriented using paired reads separated by ~280 bp or ~3.2 kbp, and many gaps between contigs can be closed using paired-end placements. Practical issues with the dataset are described, and prospects for assembling larger genomes are discussed.« less

Computational, Integrative, and Comparative Methods for the Elucidation of Genetic Coexpression Networks

DOE PAGES

Baldwin, Nicole E.; Chesler, Elissa J.; Kirov, Stefan; ...

2005-01-01

Gene expression microarray data can be used for the assembly of genetic coexpression network graphs. Using mRNA samples obtained from recombinant inbred Mus musculus strains, it is possible to integrate allelic variation with molecular and higher-order phenotypes. The depth of quantitative genetic analysis of microarray data can be vastly enhanced utilizing this mouse resource in combination with powerful computational algorithms, platforms, and data repositories. The resulting network graphs transect many levels of biological scale. This approach is illustrated with the extraction of cliques of putatively co-regulated genes and their annotation using gene ontology analysis and cis -regulatory element discovery. Themore » causal basis for co-regulation is detected through the use of quantitative trait locus mapping.« less

Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions.

PubMed

Senol Cali, Damla; Kim, Jeremie S; Ghose, Saugata; Alkan, Can; Mutlu, Onur

2018-04-02

Nanopore sequencing technology has the potential to render other sequencing technologies obsolete with its ability to generate long reads and provide portability. However, high error rates of the technology pose a challenge while generating accurate genome assemblies. The tools used for nanopore sequence analysis are of critical importance, as they should overcome the high error rates of the technology. Our goal in this work is to comprehensively analyze current publicly available tools for nanopore sequence analysis to understand their advantages, disadvantages and performance bottlenecks. It is important to understand where the current tools do not perform well to develop better tools. To this end, we (1) analyze the multiple steps and the associated tools in the genome assembly pipeline using nanopore sequence data, and (2) provide guidelines for determining the appropriate tools for each step. Based on our analyses, we make four key observations: (1) the choice of the tool for basecalling plays a critical role in overcoming the high error rates of nanopore sequencing technology. (2) Read-to-read overlap finding tools, GraphMap and Minimap, perform similarly in terms of accuracy. However, Minimap has a lower memory usage, and it is faster than GraphMap. (3) There is a trade-off between accuracy and performance when deciding on the appropriate tool for the assembly step. The fast but less accurate assembler Miniasm can be used for quick initial assembly, and further polishing can be applied on top of it to increase the accuracy, which leads to faster overall assembly. (4) The state-of-the-art polishing tool, Racon, generates high-quality consensus sequences while providing a significant speedup over another polishing tool, Nanopolish. We analyze various combinations of different tools and expose the trade-offs between accuracy, performance, memory usage and scalability. We conclude that our observations can guide researchers and practitioners in making conscious and effective choices for each step of the genome assembly pipeline using nanopore sequence data. Also, with the help of bottlenecks we have found, developers can improve the current tools or build new ones that are both accurate and fast, to overcome the high error rates of the nanopore sequencing technology.

Linear response formulism of a carbon nano-onion stringed to gold electrodes

NASA Astrophysics Data System (ADS)

Kaur, Milanpreet; Sawhney, Ravinder Singh; Engles, Derick

2017-04-01

Density functional theory is used to investigate the electronic state of a carbon nano-onion conglobated by endohedral-ing the highly curved C20 fullerene within its parent fullerene C60. The Non-Equilibrium Green's Function is later employed to examine the quantum transport when the carbon nano-onion, C20@C60 is stringed to the pair of gold electrodes of (001) plane. The computed results are evaluated and compared with C20 and C60 junctions. The calculated electronic parameters of these molecular junctions are utilized to extrapolate their two electrical parameters: current and conductance. The carbon nano-onion junction assembled from the C20 and C60 molecules displays the combined effect of their molecular junctions when organized separately. Also, the insertion of C20 molecule in the hollow cavity of C60 fullerene leads to the enhancement of its current and conductance in carbon nano-onion junction formed, when compared to the one constructed otherwise.

Enhancing AFLOW Visualization using Jmol

NASA Astrophysics Data System (ADS)

Lanasa, Jacob; New, Elizabeth; Stefek, Patrik; Honaker, Brigette; Hanson, Robert; Aflow Collaboration

The AFLOW library is a database of theoretical solid-state structures and calculated properties created using high-throughput ab initio calculations. Jmol is a Java-based program capable of visualizing and analyzing complex molecular structures and energy landscapes. In collaboration with the AFLOW consortium, our goal is the enhancement of the AFLOWLIB database through the extension of Jmol's capabilities in the area of materials science. Modifications made to Jmol include the ability to read and visualize AFLOW binary alloy data files, the ability to extract from these files information using Jmol scripting macros that can be utilized in the creation of interactive web-based convex hull graphs, the capability to identify and classify local atomic environments by symmetry, and the ability to search one or more related crystal structures for atomic environments using a novel extension of inorganic polyhedron-based SMILES strings

Free-vibration characteristics of a large split-blanket solar array in a 1-g field

NASA Technical Reports Server (NTRS)

Shaker, F. J.

1976-01-01

Two methods for studying the free vibration characteristics of a large split blanket solar array in both a 0-g and a 1-g cantilevered configuration are presented. The 0-g configuration corresponds to an in-orbit configuration of the array; the 1-g configuration is a typical ground test configuration. The first method applies the equations of continuum mechanics to determine the mode shapes and frequencies of the array; the second method uses the Rayleigh-Ritz approach. In the Rayleigh-Ritz method the array displacements are represented by string modes and cantilevered beam modes. The results of this investigation are summarized by a series of graphs illustrating the effects of various array parameters on the mode shapes and frequencies of the system. The results of the two methods are also compared in tabular form.

Lunar drill footplate and casing

NASA Technical Reports Server (NTRS)

Maassen, Erik C.; Hendrix, Thomas H.; Morrison, Eddie W.; Phillips, Rodrick B.; Le, Vu Quang; Works, Bruce A.

1989-01-01

To prevent hole collapse during lunar drilling operations, a casing has been devised of a graphite reinforced polyimide composite which will be able to withstand the lunar environment. Additionally, this casing will be inserted into the ground in segments two meters long which will penetrate the regolith simultaneously with the auger. The vertical action of the mobile platform will provide a downward force to the casing string through a special adaptor, giving the casing the needed impetus to sink the anticipated depth of ten meters. Casing segments will be connected with a simple snap arrangement. Excess casing will be cut off by a cylindrical cutting tool which will also transport the excess casing away from the hole. A footplate will be incorporated to grasp the auger rod string during rod segment additions or removals. The footplate grasping mechanism will consist of a set of vice-like arms, one end of each bearing threaded to a common power screw. The power screw will be threaded such that one end's thread pitch opposes that of the other end. The weight of the auger and rod string will be transmitted through the arms to the power screw and absorbed by a set of three ball bearing assemblies. The power screw will be driven by a one-half horsepower brushless motor actuated by radio control. The footplate will rest on four short legs and be anchored with pins that are an integral part of each leg.

Meteorological Sensor Array (MSA)-Phase I. Volume 2 (Data Management Tool: Proof of Concept)

DTIC Science & Technology

2014-10-01

directory of next hourly file to read *** utcString = CStr (CInt(utcString) + 1) utcString = String(2 - Len(utcString), Ŕ...hourly file to read *** utcString = CStr (CInt(utcString) + 1) utcString = String(2 - Len(utcString), Ŕ") & utcString

Finding the Optimal Nets for Self-Folding Kirigami

NASA Astrophysics Data System (ADS)

Araújo, N. A. M.; da Costa, R. A.; Dorogovtsev, S. N.; Mendes, J. F. F.

2018-05-01

Three-dimensional shells can be synthesized from the spontaneous self-folding of two-dimensional templates of interconnected panels, called nets. However, some nets are more likely to self-fold into the desired shell under random movements. The optimal nets are the ones that maximize the number of vertex connections, i.e., vertices that have only two of its faces cut away from each other in the net. Previous methods for finding such nets are based on random search, and thus, they do not guarantee the optimal solution. Here, we propose a deterministic procedure. We map the connectivity of the shell into a shell graph, where the nodes and links of the graph represent the vertices and edges of the shell, respectively. Identifying the nets that maximize the number of vertex connections corresponds to finding the set of maximum leaf spanning trees of the shell graph. This method allows us not only to design the self-assembly of much larger shell structures but also to apply additional design criteria, as a complete catalog of the maximum leaf spanning trees is obtained.

Automatic Assignment of Methyl-NMR Spectra of Supramolecular Machines Using Graph Theory.

PubMed

Pritišanac, Iva; Degiacomi, Matteo T; Alderson, T Reid; Carneiro, Marta G; Ab, Eiso; Siegal, Gregg; Baldwin, Andrew J

2017-07-19

Methyl groups are powerful probes for the analysis of structure, dynamics and function of supramolecular assemblies, using both solution- and solid-state NMR. Widespread application of the methodology has been limited due to the challenges associated with assigning spectral resonances to specific locations within a biomolecule. Here, we present Methyl Assignment by Graph Matching (MAGMA), for the automatic assignment of methyl resonances. A graph matching protocol examines all possibilities for each resonance in order to determine an exact assignment that includes a complete description of any ambiguity. MAGMA gives 100% accuracy in confident assignments when tested against both synthetic data, and 9 cross-validated examples using both solution- and solid-state NMR data. We show that this remarkable accuracy enables a user to distinguish between alternative protein structures. In a drug discovery application on HSP90, we show the method can rapidly and efficiently distinguish between possible ligand binding modes. By providing an exact and robust solution to methyl resonance assignment, MAGMA can facilitate significantly accelerated studies of supramolecular machines using methyl-based NMR spectroscopy.

Engineering solid-state materials. Strategies for modeling and packing control of molecular assemblies into 3-D networks

NASA Astrophysics Data System (ADS)

Videnova-Adrabinska, V.; Etter, M. C.; Ward, M. D.

1993-04-01

The crystal structure and properties of a number of urea cocrystals are studied with regard to symmetry of the hydrogen-bonded molecular assemblies. The logical consequences of hydrogen bonding interactions are followed step-by-step. The problems of aggregate formation, nucleation, and crystal growth are also elucidated. Endeavor is made to envisage the 2-D and 3-D hydrogen bond network in a manageable way by exploiting graph set short hand. Strategies of how to control the symmetry of molecular packing are still to be elaborated. In our strategy, the programmed self-assembly has been based on the principle of molecular recognition of self- and hetero-complementary functional groups. However, the main focus for pre-organizational control has been put on the two-fold axis estimator of the urea molecule.

Dynamic Graph Analytic Framework (DYGRAF): greater situation awareness through layered multi-modal network analysis

NASA Astrophysics Data System (ADS)

Margitus, Michael R.; Tagliaferri, William A., Jr.; Sudit, Moises; LaMonica, Peter M.

2012-06-01

Understanding the structure and dynamics of networks are of vital importance to winning the global war on terror. To fully comprehend the network environment, analysts must be able to investigate interconnected relationships of many diverse network types simultaneously as they evolve both spatially and temporally. To remove the burden from the analyst of making mental correlations of observations and conclusions from multiple domains, we introduce the Dynamic Graph Analytic Framework (DYGRAF). DYGRAF provides the infrastructure which facilitates a layered multi-modal network analysis (LMMNA) approach that enables analysts to assemble previously disconnected, yet related, networks in a common battle space picture. In doing so, DYGRAF provides the analyst with timely situation awareness, understanding and anticipation of threats, and support for effective decision-making in diverse environments.

The Pack Method for Compressive Tests of Thin Specimens of Materials Used in Thin-Wall Structures

NASA Technical Reports Server (NTRS)

Aitchison, C S; Tuckerman, L B

1939-01-01

The strength of modern lightweight thin-wall structures is generally limited by the strength of the compression members. An adequate design of these members requires a knowledge of the compressive stress-strain graph of the thin-wall material. The "pack" method was developed at the National Bureau of Standards with the support of the National Advisory Committee for Aeronautics to make possible a determination of compressive stress-strain graphs for such material. In the pack test an odd number of specimens are assembled into a relatively stable pack, like a "pack of cards." Additional lateral stability is obtained from lateral supports between the external sheet faces of the pack and outside reactions. The tests seems adequate for many problems in structural research.

GIS tool for California state legislature electoral history

NASA Astrophysics Data System (ADS)

Artham, Swathi

The California State Legislature contains two bodies consisting of the lower house, the California State Assembly, with eighty members, and the upper house, the California State Senate, with forty members. Elections are held for every two years for both Senate and Assembly. The terms of the Senators are staggered so that half the membership is elected every two years, whereas all the Assembly members are elected every two years. The electoral district boundaries vary after every 10-year census. My main objective is to provide a summary of both California State Senate and California State Assembly election results in a single GIS tool, from the years 1970 to 2012. This tool provides information about different trends in the California State Senate and State Assembly elections along the years. This tool was designed to help students, and teachers to interactively learn about the California State Legislature elections. Users can view the election results by selecting a particular year for Senate or Assembly, which results in adding a new layer on the map with a coloring scheme for better understanding of change of parties; red for Republicans, blue for Democrats and green for Independents. Users can click on any district shown on the map using a hotlink tool to see the electoral trends for the districts for the past years. This application provides a powerful Stored Query Language (SQL) query option to enter queries and get election results in the form of tables with various fields. This data can be further used to aid other analysis as per user requirements. This tool also provides various visual statistics using graphs and tables for voter turnout, number of candidates won by each party, number of seats changed from one party to another. It also features a color matrix table that helps users to see trends in California State Senate and Assembly. Every two-year election results are shown in the form of graphs and tables for better understanding by the user. The tool provides two quiz options for users who are willing to test the knowledge they gained using the tool. This tool was developed in JAVA swing and AWT, Map Objects Java Objects (MOJO), Apache Derby, DBF Explorer, HTML5, CSS3 and JavaScript.

Fuel management optimization using genetic algorithms and expert knowledge

DOE Office of Scientific and Technical Information (OSTI.GOV)

DeChaine, M.D.; Feltus, M.A.

1996-09-01

The CIGARO fuel management optimization code based on genetic algorithms is described and tested. The test problem optimized the core lifetime for a pressurized water reactor with a penalty function constraint on the peak normalized power. A bit-string genotype encoded the loading patterns, and genotype bias was reduced with additional bits. Expert knowledge about fuel management was incorporated into the genetic algorithm. Regional crossover exchanged physically adjacent fuel assemblies and improved the optimization slightly. Biasing the initial population toward a known priority table significantly improved the optimization.

An HPV 16 L1-based chimeric human papilloma virus-like particles containing a string of epitopes produced in plants is able to elicit humoral and cytotoxic T-cell activity in mice.

PubMed

Paz De la Rosa, Georgina; Monroy-García, Alberto; Mora-García, María de Lourdes; Peña, Cristina Gehibie Reynaga; Hernández-Montes, Jorge; Weiss-Steider, Benny; Gómez-Lim, Miguel Angel

2009-01-06

Even though two prophylactic vaccines against HPV are currently licensed, infections by the virus continue to be a major health problem mainly in developing countries. The cost of the vaccines limits wide-scale application in poor countries. A promising strategy for producing affordable and efficient vaccines involves the expression of recombinant immunogens in plants. Several HPV genes have been expressed in plants, including L1, which can self-assemble into virus-like particles. A plant-based, dual prophylactic/therapeutic vaccine remains an attractive possibility. We sought to express in tomato plants chimeric HPV 16 VLPs containing L1 fused to a string of epitopes from HPV 16 E6 and E7 proteins. The L1 employed had been modified to eliminate a strong inhibitory region at the 5' end of the molecule to increase expression levels. Several tomato lines were obtained expressing either L1 alone or L1-E6/E7 from 0.05% to 0.1% of total soluble protein. Stable integration of the transgenes was verified by Southern blot. Northern and western blot revealed successful expression of the transgenes at the mRNA and protein level. The chimeric VLPs were able to assemble adequately in tomato cells. Intraperitoneal administration in mice was able to elicit both neutralizing antibodies against the viral particle and cytotoxic T-lymphocytes activity against the epitopes. In this work, we report for the first time the expression in plants of a chimeric particle containing the HPV 16 L1 sequence and a string of T-cell epitopes from HPV 16 E6 and E7 fused to the C-terminus. The particles were able to induce a significant antibody and cytotoxic T-lymphocytes response. Experiments in vivo are in progress to determine whether the chimeric particles are able to induce regression of disease and resolution of viral infection in mice. Chimeric particles of the type described in this work may potentially be the basis for developing prophylactic/therapeutic vaccines. The fact that they are produced in plants, may lower production costs considerably.

Syntactic sequencing in Hebbian cell assemblies.

PubMed

Wennekers, Thomas; Palm, Günther

2009-12-01

Hebbian cell assemblies provide a theoretical framework for the modeling of cognitive processes that grounds them in the underlying physiological neural circuits. Recently we have presented an extension of cell assemblies by operational components which allows to model aspects of language, rules, and complex behaviour. In the present work we study the generation of syntactic sequences using operational cell assemblies timed by unspecific trigger signals. Syntactic patterns are implemented in terms of hetero-associative transition graphs in attractor networks which cause a directed flow of activity through the neural state space. We provide regimes for parameters that enable an unspecific excitatory control signal to switch reliably between attractors in accordance with the implemented syntactic rules. If several target attractors are possible in a given state, noise in the system in conjunction with a winner-takes-all mechanism can randomly choose a target. Disambiguation can also be guided by context signals or specific additional external signals. Given a permanently elevated level of external excitation the model can enter an autonomous mode, where it generates temporal grammatical patterns continuously.

Bambus 2: scaffolding metagenomes.

PubMed

Koren, Sergey; Treangen, Todd J; Pop, Mihai

2011-11-01

Sequencing projects increasingly target samples from non-clonal sources. In particular, metagenomics has enabled scientists to begin to characterize the structure of microbial communities. The software tools developed for assembling and analyzing sequencing data for clonal organisms are, however, unable to adequately process data derived from non-clonal sources. We present a new scaffolder, Bambus 2, to address some of the challenges encountered when analyzing metagenomes. Our approach relies on a combination of a novel method for detecting genomic repeats and algorithms that analyze assembly graphs to identify biologically meaningful genomic variants. We compare our software to current assemblers using simulated and real data. We demonstrate that the repeat detection algorithms have higher sensitivity than current approaches without sacrificing specificity. In metagenomic datasets, the scaffolder avoids false joins between distantly related organisms while obtaining long-range contiguity. Bambus 2 represents a first step toward automated metagenomic assembly. Bambus 2 is open source and available from http://amos.sf.net. mpop@umiacs.umd.edu. Supplementary data are available at Bioinformatics online.

Bambus 2: scaffolding metagenomes

PubMed Central

Koren, Sergey; Treangen, Todd J.; Pop, Mihai

2011-01-01

Motivation: Sequencing projects increasingly target samples from non-clonal sources. In particular, metagenomics has enabled scientists to begin to characterize the structure of microbial communities. The software tools developed for assembling and analyzing sequencing data for clonal organisms are, however, unable to adequately process data derived from non-clonal sources. Results: We present a new scaffolder, Bambus 2, to address some of the challenges encountered when analyzing metagenomes. Our approach relies on a combination of a novel method for detecting genomic repeats and algorithms that analyze assembly graphs to identify biologically meaningful genomic variants. We compare our software to current assemblers using simulated and real data. We demonstrate that the repeat detection algorithms have higher sensitivity than current approaches without sacrificing specificity. In metagenomic datasets, the scaffolder avoids false joins between distantly related organisms while obtaining long-range contiguity. Bambus 2 represents a first step toward automated metagenomic assembly. Availability: Bambus 2 is open source and available from http://amos.sf.net. Contact: mpop@umiacs.umd.edu Supplementary Information: Supplementary data are available at Bioinformatics online. PMID:21926123

Reference-free compression of high throughput sequencing data with a probabilistic de Bruijn graph.

PubMed

Benoit, Gaëtan; Lemaitre, Claire; Lavenier, Dominique; Drezen, Erwan; Dayris, Thibault; Uricaru, Raluca; Rizk, Guillaume

2015-09-14

Data volumes generated by next-generation sequencing (NGS) technologies is now a major concern for both data storage and transmission. This triggered the need for more efficient methods than general purpose compression tools, such as the widely used gzip method. We present a novel reference-free method meant to compress data issued from high throughput sequencing technologies. Our approach, implemented in the software LEON, employs techniques derived from existing assembly principles. The method is based on a reference probabilistic de Bruijn Graph, built de novo from the set of reads and stored in a Bloom filter. Each read is encoded as a path in this graph, by memorizing an anchoring kmer and a list of bifurcations. The same probabilistic de Bruijn Graph is used to perform a lossy transformation of the quality scores, which allows to obtain higher compression rates without losing pertinent information for downstream analyses. LEON was run on various real sequencing datasets (whole genome, exome, RNA-seq or metagenomics). In all cases, LEON showed higher overall compression ratios than state-of-the-art compression software. On a C. elegans whole genome sequencing dataset, LEON divided the original file size by more than 20. LEON is an open source software, distributed under GNU affero GPL License, available for download at http://gatb.inria.fr/software/leon/.

An intercomparison of NEL and DHL water flow facilities using a twin orifice plate flowmeter assembly

NASA Technical Reports Server (NTRS)

Dejong, J.; Spencer, E. A.

1983-01-01

A 205 mm transfer standard orifice plate meter assembly, consisting of two orifice plates in series separated by a length of pipe containing a flow straightener, was calibrated in two water flow facilities. Results show that the agreement in the characteristics of such a differential pressure transfer standard package is within 0.17% over a 10:1 range from flow rates of approximately 8 to 80 l/sec. When the range over which the comparison was made was limited to that for which the calibration graphs gave straight lines, the agreement is 0.1% in 3 of the 4 calibrations (0.17% in the fourth).

Energy Landscapes for the Self-Assembly of Supramolecular Polyhedra

NASA Astrophysics Data System (ADS)

Russell, Emily R.; Menon, Govind

2016-06-01

We develop a mathematical model for the energy landscape of polyhedral supramolecular cages recently synthesized by self-assembly (Sun et al. in Science 328:1144-1147, 2010). Our model includes two essential features of the experiment: (1) geometry of the organic ligands and metallic ions; and (2) combinatorics. The molecular geometry is used to introduce an energy that favors square-planar vertices (modeling {Pd}^{2+} ions) and bent edges with one of two preferred opening angles (modeling boomerang-shaped ligands of two types). The combinatorics of the model involve two-colorings of edges of polyhedra with four-valent vertices. The set of such two-colorings, quotiented by the octahedral symmetry group, has a natural graph structure and is called the combinatorial configuration space. The energy landscape of our model is the energy of each state in the combinatorial configuration space. The challenge in the computation of the energy landscape is a combinatorial explosion in the number of two-colorings of edges. We describe sampling methods based on the symmetries of the configurations and connectivity of the configuration graph. When the two preferred opening angles encompass the geometrically ideal angle, the energy landscape exhibits a very low-energy minimum for the most symmetric configuration at equal mixing of the two angles, even when the average opening angle does not match the ideal angle.

Cooperative particle motion in complex (dusty) plasmas

NASA Astrophysics Data System (ADS)

Zhdanov, Sergey; Morfill, Gregor

2014-05-01

Strongly coupled complex (dusty) plasmas give us a unique opportunity to go beyond the limits of continuous media and study various generic processes occurring in liquids or solids at the kinetic level. A particularly interesting and challenging topic is to study dynamic cooperativity at local and intermediate scales. As an important element of self-organization, cooperative particle motion is present in many physical, astrophysical and biological systems. As a rule, cooperative dynamics, bringing to life 'abnormal' effects like enhanced diffusion, self-dragging, or self-propelling of particles, hold aspects of 'strange' kinetics. The synergy effects are also important. Such kind of cooperative behavior was evidenced for string-like formations of colloidal rods, dynamics of mono- and di-vacancies in 2d colloidal crystals. Externally manipulated 'dust molecules' and self-assembled strings in driven 3d particle clusters were other noticeable examples. There is a certain advantage to experiment with complex plasmas merely because these systems are easy to manipulate in a controllable way. We report on the first direct observation of microparticle cooperative movements occurring under natural conditions in a 2d complex plasma.

Self-Assembly of Emulsion Droplets into Polymer Chains

NASA Astrophysics Data System (ADS)

Bargteil, Dylan; McMullen, Angus; Brujic, Jasna

We experimentally investigate `beads-on-a-string' models of polymers using the spontaneous assembly of emulsion droplets into linear chains. Droplets functionalized with surface-mobile DNA allow for programmable 'monomers' through which we can influence the three-dimensional structure of the assembled 'polymer'. Such model polymers can be used to study conformational changes of polypeptides and the principles governing protein folding. In our system, we find that droplets bind via complementary DNA strands that are recruited into adhesion patches. Recruitment is driven by the DNA hybridization energy, and is limited by the energy cost of surface deformation and the entropy loss of the mobile linkers, yielding adhesion patches of a characteristic size with a given number of linkers. By tuning the initial surface coverage of linkers, we control valency between the droplets to create linear or branched polymer chains. We additionally control the flexibility of the model polymers by varying the salt concentration and study their dynamics between extended and collapsed states. This system opens the possibility of programming stable three-dimensional structures, such as those found within folded proteins.

Self-replicating machines in continuous space with virtual physics.

PubMed

Smith, Arnold; Turney, Peter; Ewaschuk, Robert

2003-01-01

JohnnyVon is an implementation of self-replicating machines in continuous two-dimensional space. Two types of particles drift about in a virtual liquid. The particles are automata with discrete internal states but continuous external relationships. Their internal states are governed by finite state machines, but their external relationships are governed by a simulated physics that includes Brownian motion, viscosity, and springlike attractive and repulsive forces. The particles can be assembled into patterns that can encode arbitrary strings of bits. We demonstrate that, if an arbitrary seed pattern is put in a soup of separate individual particles, the pattern will replicate by assembling the individual particles into copies of itself. We also show that, given sufficient time, a soup of separate individual particles will eventually spontaneously form self-replicating patterns. We discuss the implications of JohnnyVon for research in nanotechnology, theoretical biology, and artificial life.

3D Printed Robotic Hand

NASA Technical Reports Server (NTRS)

Pizarro, Yaritzmar Rosario; Schuler, Jason M.; Lippitt, Thomas C.

2013-01-01

Dexterous robotic hands are changing the way robots and humans interact and use common tools. Unfortunately, the complexity of the joints and actuations drive up the manufacturing cost. Some cutting edge and commercially available rapid prototyping machines now have the ability to print multiple materials and even combine these materials in the same job. A 3D model of a robotic hand was designed using Creo Parametric 2.0. Combining "hard" and "soft" materials, the model was printed on the Object Connex350 3D printer with the purpose of resembling as much as possible the human appearance and mobility of a real hand while needing no assembly. After printing the prototype, strings where installed as actuators to test mobility. Based on printing materials, the manufacturing cost of the hand was $167, significantly lower than other robotic hands without the actuators since they have more complex assembly processes.

String scattering amplitudes and deformed cubic string field theory

NASA Astrophysics Data System (ADS)

Lai, Sheng-Hong; Lee, Jen-Chi; Lee, Taejin; Yang, Yi

2018-01-01

We study string scattering amplitudes by using the deformed cubic string field theory which is equivalent to the string field theory in the proper-time gauge. The four-string scattering amplitudes with three tachyons and an arbitrary string state are calculated. The string field theory yields the string scattering amplitudes evaluated on the world sheet of string scattering whereas the conventional method, based on the first quantized theory brings us the string scattering amplitudes defined on the upper half plane. For the highest spin states, generated by the primary operators, both calculations are in perfect agreement. In this case, the string scattering amplitudes are invariant under the conformal transformation, which maps the string world sheet onto the upper half plane. If the external string states are general massive states, generated by non-primary field operators, we need to take into account carefully the conformal transformation between the world sheet and the upper half plane. We show by an explicit calculation that the string scattering amplitudes calculated by using the deformed cubic string field theory transform into those of the first quantized theory on the upper half plane by the conformal transformation, generated by the Schwarz-Christoffel mapping.

Covariant open bosonic string field theory on multiple D-branes in the proper-time gauge

NASA Astrophysics Data System (ADS)

Lee, Taejin

2017-12-01

We construct a covariant open bosonic string field theory on multiple D-branes, which reduces to a non-Abelian group Yang-Mills gauge theory in the zero-slope limit. Making use of the first quantized open bosonic string in the proper time gauge, we convert the string amplitudes given by the Polyakov path integrals on string world sheets into those of the second quantized theory. The world sheet diagrams generated by the constructed open string field theory are planar in contrast to those of the Witten's cubic string field theory. However, the constructed string field theory is yet equivalent to the Witten's cubic string field theory. Having obtained planar diagrams, we may adopt the light-cone string field theory technique to calculate the multi-string scattering amplitudes with an arbitrary number of external strings. We examine in detail the three-string vertex diagram and the effective four-string vertex diagrams generated perturbatively by the three-string vertex at tree level. In the zero-slope limit, the string scattering amplitudes are identified precisely as those of non-Abelian Yang-Mills gauge theory if the external states are chosen to be massless vector particles.

E(lementary)-strings in six-dimensional heterotic F-theory

NASA Astrophysics Data System (ADS)

Choi, Kang-Sin; Rey, Soo-Jong

2017-09-01

Using E-strings, we can analyze not only six-dimensional superconformal field theories but also probe vacua of non-perturabative heterotic string. We study strings made of D3-branes wrapped on various two-cycles in the global F-theory setup. We claim that E-strings are elementary in the sense that various combinations of E-strings can form M-strings as well as heterotic strings and new kind of strings, called G-strings. Using them, we show that emissions and combinations of heterotic small instantons generate most of known six-dimensional superconformal theories, their affinizations and little string theories. Taking account of global structure of compact internal geometry, we also show that special combinations of E-strings play an important role in constructing six-dimensional theories of D- and E-types. We check global consistency conditions from anomaly cancellation conditions, both from five-branes and strings, and show that they are given in terms of elementary E-string combinations.

Gravitational Scattering Amplitudes and Closed String Field Theory in the Proper-Time Gauge

NASA Astrophysics Data System (ADS)

Lee, Taejin

2018-01-01

We construct a covariant closed string field theory by extending recent works on the covariant open string field theory in the proper-time gauge. Rewriting the string scattering amplitudes generated by the closed string field theory in terms of the Polyakov string path integrals, we identify the Fock space representations of the closed string vertices. We show that the Fock space representations of the closed string field theory may be completely factorized into those of the open string field theory. It implies that the well known Kawai-Lewellen-Tye (KLT) relations of the first quantized string theory may be promoted to the second quantized closed string theory. We explicitly calculate the scattering amplitudes of three gravitons by using the closed string field theory in the proper-time gauge.

Hot string soup: Thermodynamics of strings near the Hagedorn transition

NASA Astrophysics Data System (ADS)

Lowe, David A.; Thorlacius, Lárus

1995-01-01

Above the Hagedorn energy density closed fundamental strings form a long string phase. The dynamics of weakly interacting long strings is described by a simple Boltzmann equation which can be solved explicitly for equilibrium distributions. The averge total number of long strings grows logarithmically with total energy in the microcanonical ensemble. This is consistent with calculations of the free single string density of states provided the thermodynamic limit is carefully defined. If the theory contains open strings the long string phase is suppressed.

Effective de novo assembly of fish genome using haploid larvae.

PubMed

Iwasaki, Yuki; Nishiki, Issei; Nakamura, Yoji; Yasuike, Motoshige; Kai, Wataru; Nomura, Kazuharu; Yoshida, Kazunori; Nomura, Yousuke; Fujiwara, Atushi; Kobayashi, Takanori; Ototake, Mitsuru

2016-02-01

Recent improvements in next-generation sequencing technology have made it possible to do whole genome sequencing, on even non-model eukaryote species with no available reference genomes. However, de novo assembly of diploid genomes is still a big challenge because of allelic variation. The aim of this study was to determine the feasibility of utilizing the genome of haploid fish larvae for de novo assembly of whole-genome sequences. We compared the efficiency of assembly using the haploid genome of yellowtail (Seriola quinqueradiata) with that using the diploid genome obtained from the dam. De novo assembly from the haploid and the diploid sequence reads (100 million reads per each datasets) generated by the Ion Proton sequencer (200 bp) was done under two different assembly algorithms, namely overlap-layout-consensus (OLC) and de Bruijn graph (DBG). This revealed that the assembly of the haploid genome significantly reduced (approximately 22% for OLC, 9% for DBG) the total number of contigs (with longer average and N50 contig lengths) when compared to the diploid genome assembly. The haploid assembly also improved the quality of the scaffolds by reducing the number of regions with unassigned nucleotides (Ns) (total length of Ns; 45,331,916 bp for haploids and 67,724,360 bp for diploids) in OLC-based assemblies. It appears clear that the haploid genome assembly is better because the allelic variation in the diploid genome disrupts the extension of contigs during the assembly process. Our results indicate that utilizing the genome of haploid larvae leads to a significant improvement in the de novo assembly process, thus providing a novel strategy for the construction of reference genomes from non-model diploid organisms such as fish. Copyright © 2015 The Authors. Published by Elsevier B.V. All rights reserved.

Long Valley Deep Hole Geophysical Observatory --- Strain Instrumentation and Installation.

NASA Astrophysics Data System (ADS)

Sacks, S. I.; Linde, A.; Malin, P.; Roeloffs, E. A.; Hill, D. P.; Ellsworth, W. L.

2003-12-01

The Long Valley Exploratory Well, drilled in the middle of the resurgent dome in the Long Valley caldera, was started in 1989 and after rather checkered progress eventually reached a depth of about 9,831 feet. The hole is cased to a depth of 7178 feet with bare rock below that. At 8,500 feet there is an open fracture system with substantial permeability. One of the goals of the instrument installation is to enable monitoring of this deep aquifer. The most satisfactory rock away from obvious large fractures was at about 7,400 feet, and this was the installation depth. The instrumentation package consisted of a bottom hole seismometer at a depth of about 8500 feet, and a coupled instrument string that was cemented to the rock at a depth of 7400 feet. The instrument string, 73 feet long, had an inflatable packer with an extension at the bottom, coupled to a seismometer with a cement exit port above it, a 22 foot long spacing tube connected to a 20 foot long sensing volume strainmeter assembly. The strainmeter unit is essentially an annulus with the cementing pipe passing through it. In addition, two seismometer cables, two water bypass tubes and a packer inflation tube, pass through the strainmeter, which is actually two concentric strainmeters. The outer unit is a dilatometer and the inner unit is a vertical component strainmeter. Before installation, the strainmeters and the 8000 foot long stainless steel coupling tubes were filled with filtered and degassed water. The instrument string and attached bottom hole seismometer were then lowered down the hole attached to drill pipe. Two optical fiber vertical strainmeters (one interferometer and one time-of-flight loop) consisting of three fibers were attached to the drill pipe as it was installed. After the drill pipe reached target depth, it was secured to the well head. The packer, at the bottom of the instrument package, was inflated, thus providing a sealed bottom for the cement. Cement was then pumped down the drill pipe, through the strainmeter assembly and out the tube about 25 feet below the bottom of the strain sensing assembly. About 450 feet of the hole was cemented, the cement going into the casing. The coupling tubes from the strainmeters were connected to a surface mounted sensing head that had hydraulic amplification and electronic transducers. Pressure changes in the lower aquifer cause flow through two 1/4 inch diameter tubes into the annulus outside the mounting and cementing pipe. An opening sleeve in the installed pipe will allow the resulting water level changes to be monitored in a protected environment. All installed instrumentation seems to be functioning satisfactorily.

Layer-by-layer assembly of graphene oxide on thermosensitive liposomes for photo-chemotherapy.

PubMed

Hashemi, Mohadeseh; Omidi, Meisam; Muralidharan, Bharadwaj; Tayebi, Lobat; Herpin, Matthew J; Mohagheghi, Mohammad Ali; Mohammadi, Javad; Smyth, Hugh D C; Milner, Thomas E

2018-01-01

Stimuli responsive polyelectrolyte nanoparticles have been developed for chemo-photothermal destruction of breast cancer cells. This novel system, called layer by layer Lipo-graph (LBL Lipo-graph), is composed of alternate layers of graphene oxide (GO) and graphene oxide conjugated poly (l-lysine) (GO-PLL) deposited on cationic liposomes encapsulating doxorubicin. Various concentrations of GO and GO-PLL were examined and the optimal LBL Lipo-graph was found to have a particle size of 267.9 ± 13 nm, zeta potential of +43.9 ± 6.9 mV and encapsulation efficiency of 86.4 ± 4.7%. The morphology of LBL Lipo-graph was examined by cryogenic-transmission electron microscopy (Cryo-TEM), atomic force microcopy (AFM) and scanning electron microscopy (SEM). The buildup of LBL Lipo-graph was confirmed via ultraviolet-visible (UV-Vis) spectrophotometry, thermogravimetric analysis (TGA) and differential scanning calorimetry (DSC) analysis. Infra-red (IR) response suggests that four layers are sufficient to induce a gel-to-liquid phase transition in response to near infra-red (NIR) laser irradiation. Light-matter interaction of LBL Lipo-graph was studied by calculating the absorption cross section in the frequency domain by utilizing Fourier analysis. Drug release assay indicates that the LBL Lipo-graph releases much faster in an acidic environment than a liposome control. A cytotoxicity assay was conducted to prove the efficacy of LBL Lipo-graph to destroy MD-MB-231 cells in response to NIR laser emission. Also, image stream flow cytometry and two photon microcopy provide supportive data for the potential application of LBL Lipo-graph for photothermal therapy. Study results suggest the novel dual-sensitive nanoparticles allow intracellular doxorubin delivery and respond to either acidic environments or NIR excitation. Stimuli sensitive hybrid nanoparticles have been synthesized using a layer-by-layer technique and demonstrated for dual chemo-photothermal destruction of breast cancer cells. The hybrid nanoparticles are composed of alternating layers of graphene oxide and graphene oxide conjugated poly-l-lysine coating the surface of a thermosensitive cationic liposome containing doxorubicin as a core. Data suggests that the hybrid nanoparticles may offer many advantages for chemo-photothermal therapy. Advantages include a decrease of the initial burst release which may result in the reduction in systemic toxicity, increase in pH responsivity around the tumor environment and improved NIR light absorption. Copyright © 2017 Acta Materialia Inc. Published by Elsevier Ltd. All rights reserved.

Evaluation of the health status of six volunteers from the Mars 500 project using pulse analysis.

PubMed

Shi, Hong-Zhi; Fan, Quan-Chun; Gao, Jian-Yi; Liu, Jun-Lian; Bai, Gui-E; Mi, Tao; Zhao, Shuang; Liu, Yu; Xu, Dong; Guo, Zhi-Feng; Li, Yong-Zhi

2017-08-01

To comprehensively evaluate the health status of 6 volunteers from the Mars 500 Project through analyzing their pulse graphs and determining the changes in cardiovascular function, degree of fatigue and autonomic nervous function. Six volunteers were recruited; all were male aged 26-38 years (average 31.83±4.96 years). Characteristic parameters reflflecting the status of cardiovascular functions were extracted, which included left ventricular contraction, vascular elasticity and peripheral resistance. The degree of fatigue was determined depending on the difference between the calendar age and biological age, which was calculated through the analysis of blood pressure value and characteristic parameters. Based on the values of pulse height variation and pulse time variation on a 30-s pulse graph, autonomic nervous function was evaluated. All parameters examined were marked on an equilateral polygon to form an irregular polygon of the actual fifigure, then health status was evaluated based on the coverage area of the actual fifigure. The results demonstrated: (1) volunteers developed weakened pulse power, increased vascular tension and peripheral resistance, and slight decreased ventricular systolic function; (2) the degree of fatigue was basically mild or moderate; and (3) autonomic nervous function was excited but generally balanced. These volunteers were in the state of sub-health. According to Chinese medicine theories, such symptoms are mainly caused by the weakening of healthy qi, Gan (Liver) failing in free coursing, and disharmony between Gan and Wei (Stomach), which manifests as a weak and string-like pulse.

GAAP: Genome-organization-framework-Assisted Assembly Pipeline for prokaryotic genomes.

PubMed

Yuan, Lina; Yu, Yang; Zhu, Yanmin; Li, Yulai; Li, Changqing; Li, Rujiao; Ma, Qin; Siu, Gilman Kit-Hang; Yu, Jun; Jiang, Taijiao; Xiao, Jingfa; Kang, Yu

2017-01-25

Next-generation sequencing (NGS) technologies have greatly promoted the genomic study of prokaryotes. However, highly fragmented assemblies due to short reads from NGS are still a limiting factor in gaining insights into the genome biology. Reference-assisted tools are promising in genome assembly, but tend to result in false assembly when the assigned reference has extensive rearrangements. Herein, we present GAAP, a genome assembly pipeline for scaffolding based on core-gene-defined Genome Organizational Framework (cGOF) described in our previous study. Instead of assigning references, we use the multiple-reference-derived cGOFs as indexes to assist in order and orientation of the scaffolds and build a skeleton structure, and then use read pairs to extend scaffolds, called local scaffolding, and distinguish between true and chimeric adjacencies in the scaffolds. In our performance tests using both empirical and simulated data of 15 genomes in six species with diverse genome size, complexity, and all three categories of cGOFs, GAAP outcompetes or achieves comparable results when compared to three other reference-assisted programs, AlignGraph, Ragout and MeDuSa. GAAP uses both cGOF and pair-end reads to create assemblies in genomic scale, and performs better than the currently available reference-assisted assembly tools as it recovers more assemblies and makes fewer false locations, especially for species with extensive rearranged genomes. Our method is a promising solution for reconstruction of genome sequence from short reads of NGS.

Cosmic strings and superconducting cosmic strings

NASA Technical Reports Server (NTRS)

Copeland, Edmund

1988-01-01

The possible consequences of forming cosmic strings and superconducting cosmic strings in the early universe are discussed. Lecture 1 describes the group theoretic reasons for and the field theoretic reasons why cosmic strings can form in spontaneously broken gauge theories. Lecture 2 discusses the accretion of matter onto string loops, emphasizing the scenario with a cold dark matter dominated universe. In lecture 3 superconducting cosmic strings are discussed, as is a mechanism which leads to the formation of structure from such strings.

The Coast Artillery Journal. Volume 59, Number 2, August 1923

DTIC Science & Technology

1923-08-01

writers and artists have used it as a device for Joan of Arc. Heraldically the phoenix is always represented as an eagle rising from flames, and in...181) THE BULLETI~ BOARD 185 graphs of two artistic pieces in sterling silver which have just been completed by the Bailey Banks and Biddle Company...the supper hour the gatheriIU! again assembled on the parade ground to "itness a demonstration of cornbin~ gymnastics and calisthenics by the entire

From decay to complete breaking: pulling the strings in SU(2) Yang-Mills theory.

PubMed

Pepe, M; Wiese, U-J

2009-05-15

We study {2Q+1} strings connecting two static charges Q in (2+1)D SU(2) Yang-Mills theory. While the fundamental {2} string between two charges Q=1/2 is unbreakable, the adjoint {3} string connecting two charges Q=1 can break. When a {4} string is stretched beyond a critical length, it decays into a {2} string by gluon pair creation. When a {5} string is stretched, it first decays into a {3} string, which eventually breaks completely. The energy of the screened charges at the ends of a string is well described by a phenomenological constituent gluon model.

Subterranean barriers, methods, and apparatuses for forming, inspecting, selectively heating, and repairing same

DOEpatents

Nickelson, Reva A.; Sloan, Paul A.; Richardson, John G.; Walsh, Stephanie; Kostelnik, Kevin M.

2009-04-07

A subterranean barrier and method for forming same are disclosed, the barrier including a plurality of casing strings wherein at least one casing string of the plurality of casing strings may be affixed to at least another adjacent casing string of the plurality of casing strings through at least one weld, at least one adhesive joint, or both. A method and system for nondestructively inspecting a subterranean barrier is disclosed. For instance, a radiographic signal may be emitted from within a casing string toward an adjacent casing string and the radiographic signal may be detected from within the adjacent casing string. A method of repairing a barrier including removing at least a portion of a casing string and welding a repair element within the casing string is disclosed. A method of selectively heating at least one casing string forming at least a portion of a subterranean barrier is disclosed.

An HPV 16 L1-based chimeric human papilloma virus-like particles containing a string of epitopes produced in plants is able to elicit humoral and cytotoxic T-cell activity in mice

PubMed Central

De la Rosa, Georgina Paz; Monroy-García, Alberto; Mora-García, María de Lourdes; Peña, Cristina Gehibie Reynaga; Hernández-Montes, Jorge; Weiss-Steider, Benny; Lim, Miguel Angel Gómez

2009-01-01

Background Even though two prophylactic vaccines against HPV are currently licensed, infections by the virus continue to be a major health problem mainly in developing countries. The cost of the vaccines limits wide-scale application in poor countries. A promising strategy for producing affordable and efficient vaccines involves the expression of recombinant immunogens in plants. Several HPV genes have been expressed in plants, including L1, which can self-assemble into virus-like particles. A plant-based, dual prophylactic/therapeutic vaccine remains an attractive possibility. Results We sought to express in tomato plants chimeric HPV 16 VLPs containing L1 fused to a string of epitopes from HPV 16 E6 and E7 proteins. The L1 employed had been modified to eliminate a strong inhibitory region at the 5' end of the molecule to increase expression levels. Several tomato lines were obtained expressing either L1 alone or L1-E6/E7 from 0.05% to 0.1% of total soluble protein. Stable integration of the transgenes was verified by Southern blot. Northern and western blot revealed successful expression of the transgenes at the mRNA and protein level. The chimeric VLPs were able to assemble adequately in tomato cells. Intraperitoneal administration in mice was able to elicit both neutralizing antibodies against the viral particle and cytotoxic T-lymphocytes activity against the epitopes. Conclusion In this work, we report for the first time the expression in plants of a chimeric particle containing the HPV 16 L1 sequence and a string of T-cell epitopes from HPV 16 E6 and E7 fused to the C-terminus. The particles were able to induce a significant antibody and cytotoxic T-lymphocytes response. Experiments in vivo are in progress to determine whether the chimeric particles are able to induce regression of disease and resolution of viral infection in mice. Chimeric particles of the type described in this work may potentially be the basis for developing prophylactic/therapeutic vaccines. The fact that they are produced in plants, may lower production costs considerably. PMID:19126233

Informing New String Programmes: Lessons Learned from an Australian Experience

ERIC Educational Resources Information Center

Murphy, Fintan; Rickard, Nikki; Gill, Anneliese; Grimmett, Helen

2011-01-01

Although there are many examples of notable string programmes there has been relatively little comparative analysis of these programmes. This paper examines three benchmark string programmes (The University of Illinois String Project, The Tower Hamlets String Teaching Project and Colourstrings) alongside Music4All, an innovative string programme…

[ital N]-string vertices in string field theory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bordes, J.; Abdurrahman, A.; Anton, F.

1994-03-15

We give the general form of the vertex corresponding to the interaction of an arbitrary number of strings. The technique employed relies on the comma'' representation of string field theory where string fields and interactions are represented as matrices and operations between them such as multiplication and trace. The general formulation presented here shows that the interaction vertex of [ital N] strings, for any arbitrary [ital N], is given as a function of particular combinations of matrices corresponding to the change of representation between the full string and the half string degrees of freedom.

The Birth of String Theory

NASA Astrophysics Data System (ADS)

Cappelli, Andrea; Castellani, Elena; Colomo, Filippo; Di Vecchia, Paolo

2012-04-01

Part I. Overview: 1. Introduction and synopsis; 2. Rise and fall of the hadronic string G. Veneziano; 3. Gravity, unification, and the superstring J. H. Schwarz; 4. Early string theory as a challenging case study for philosophers E. Castellani; Part II. The Prehistory: The Analytic S-Matrix: 5. Introduction to Part II; 6. Particle theory in the sixties: from current algebra to the Veneziano amplitude M. Ademollo; 7. The path to the Veneziano model H. R. Rubinstein; 8. Two-component duality and strings P. G. O. Freund; 9. Note on the prehistory of string theory M. Gell-Mann; Part III. The Dual Resonance Model: 10. Introduction to Part III; 11. From the S-matrix to string theory P. Di Vecchia; 12. Reminiscence on the birth of string theory J. A. Shapiro; 13. Personal recollections D. Amati; 14. Early string theory at Fermilab and Rutgers L. Clavelli; 15. Dual amplitudes in higher dimensions: a personal view C. Lovelace; 16. Personal recollections on dual models R. Musto; 17. Remembering the 'supergroup' collaboration F. Nicodemi; 18. The '3-Reggeon vertex' S. Sciuto; Part IV. The String: 19. Introduction to Part IV; 20. From dual models to relativistic strings P. Goddard; 21. The first string theory: personal recollections L. Susskind; 22. The string picture of the Veneziano model H. B. Nielsen; 23. From the S-matrix to string theory Y. Nambu; 24. The analogue model for string amplitudes D. B. Fairlie; 25. Factorization in dual models and functional integration in string theory S. Mandelstam; 26. The hadronic origins of string theory R. C. Brower; Part V. Beyond the Bosonic String: 27. Introduction to Part V; 28. From dual fermion to superstring D. I. Olive; 29. Dual models with fermions: memoirs of an early string theorist P. Ramond; 30. Personal recollections A. Neveu; 31. Aspects of fermionic dual models E. Corrigan; 32. The dual quark models K. Bardakci and M. B. Halpern; 33. Remembering the dawn of relativistic strings J.-L. Gervais; 34. Early string theory in Cambridge: personal recollections C. Montonen; Part VI. The Superstring: 35. Introduction to Part VI; 36. Supersymmetry in string theory F. Gliozzi; 37. Gravity from strings: personal reminiscences of early developments T. Yoneya; 38. From the Nambu-Goto to the σ-model action L. Brink; 39. Locally supersymmetric action for superstring P. Di Vecchia; 40. Personal recollections E. Cremmer; 41. The scientific contributions of Joël Scherk J. H. Schwarz; Part VII. Preparing the String Renaissance: 42. Introduction to Part VII; 43. From strings to superstrings: a personal perspective M. B. Green; 44. Quarks, strings and beyond A. M. Polyakov; 45. The rise of the superstring theory A. Cappelli and F. Colomo; Appendices; Index.

String resistance detector

NASA Technical Reports Server (NTRS)

Hall, A. Daniel (Inventor); Davies, Francis J. (Inventor)

2007-01-01

Method and system are disclosed for determining individual string resistance in a network of strings when the current through a parallel connected string is unknown and when the voltage across a series connected string is unknown. The method/system of the invention involves connecting one or more frequency-varying impedance components with known electrical characteristics to each string and applying a frequency-varying input signal to the network of strings. The frequency-varying impedance components may be one or more capacitors, inductors, or both, and are selected so that each string is uniquely identifiable in the output signal resulting from the frequency-varying input signal. Numerical methods, such as non-linear regression, may then be used to resolve the resistance associated with each string.

String mediated phase transitions

NASA Technical Reports Server (NTRS)

Copeland, ED; Haws, D.; Rivers, R.; Holbraad, S.

1988-01-01

It is demonstrated from first principles how the existence of string-like structures can cause a system to undergo a phase transition. In particular, the role of topologically stable cosmic string in the restoration of spontaneously broken symmetries is emphasized. How the thermodynamic properties of strings alter when stiffness and nearest neighbor string-string interactions are included is discussed.

Black string in dRGT massive gravity

NASA Astrophysics Data System (ADS)

Tannukij, Lunchakorn; Wongjun, Pitayuth; Ghosh, Suchant G.

2017-12-01

We present a cylindrically symmetric solution, both charged and uncharged, which is known as a black string solution to the nonlinear ghost-free massive gravity found by de Rham, Gabadadze, and Tolley (dRGT). This "dRGT black string" can be thought of as a generalization of the black string solution found by Lemos. Moreover, the dRGT black string solution includes other classes of black string solution such as the monopole-black string ones since the graviton mass contributes to the global monopole term as well as the cosmological-constant term. To investigate the solution, we compute mass, temperature, and entropy of the dRGT black string. We found that the existence of the graviton mass drastically affects the thermodynamics of the black string. Furthermore, the Hawking-Page phase transition is found to be possible for the dRGT black string as well as the charged dRGT black string. The dRGT black string solution is thermodynamically stable for r>r_c with negative thermodynamical potential and positive heat capacity while it is unstable for r

SlideSort: all pairs similarity search for short reads

PubMed Central

Shimizu, Kana; Tsuda, Koji

2011-01-01

Motivation: Recent progress in DNA sequencing technologies calls for fast and accurate algorithms that can evaluate sequence similarity for a huge amount of short reads. Searching similar pairs from a string pool is a fundamental process of de novo genome assembly, genome-wide alignment and other important analyses. Results: In this study, we designed and implemented an exact algorithm SlideSort that finds all similar pairs from a string pool in terms of edit distance. Using an efficient pattern growth algorithm, SlideSort discovers chains of common k-mers to narrow down the search. Compared to existing methods based on single k-mers, our method is more effective in reducing the number of edit distance calculations. In comparison to backtracking methods such as BWA, our method is much faster in finding remote matches, scaling easily to tens of millions of sequences. Our software has an additional function of single link clustering, which is useful in summarizing short reads for further processing. Availability: Executable binary files and C++ libraries are available at http://www.cbrc.jp/~shimizu/slidesort/ for Linux and Windows. Contact: slidesort@m.aist.go.jp; shimizu-kana@aist.go.jp Supplementary information: Supplementary data are available at Bioinformatics online. PMID:21148542

The "Magic" String

ERIC Educational Resources Information Center

Hoover, Todd F.

2010-01-01

The "Magic" String is a discrepant event that includes a canister with what appears to be the end of two strings protruding from opposite sides of it. Due to the way the strings are attached inside the canister, it appears as if the strings can magically switch the way they are connected. When one string end is pulled, the observer's expectation…

Automatic generation and analysis of solar cell IV curves

DOEpatents

Kraft, Steven M.; Jones, Jason C.

2014-06-03

A photovoltaic system includes multiple strings of solar panels and a device presenting a DC load to the strings of solar panels. Output currents of the strings of solar panels may be sensed and provided to a computer that generates current-voltage (IV) curves of the strings of solar panels. Output voltages of the string of solar panels may be sensed at the string or at the device presenting the DC load. The DC load may be varied. Output currents of the strings of solar panels responsive to the variation of the DC load are sensed to generate IV curves of the strings of solar panels. IV curves may be compared and analyzed to evaluate performance of and detect problems with a string of solar panels.

Modeling Acceleration of a System of Two Objects Using the Concept of Limits

NASA Astrophysics Data System (ADS)

Sokolowski, Andrzej

2018-01-01

Traditional school laboratory exercises on a system of moving objects connected by strings involve deriving expressions for the system acceleration, a = (∑F )/m, and sketching a graph of acceleration vs. force. While being in the form of rational functions, these expressions present great opportunities for broadening the scope of the analysis by using a more sophisticated math apparatus—the concept of limits. Using the idea of limits allows for extending both predictions and explanations of this type of motion that are—according to Redish—essential goals of teaching physics. This type of analysis, known in physics as limiting case analysis, allows for generalizing inferences by evaluating or estimating values of algebraic functions based on its extreme inputs. In practice, such transition provides opportunities for deriving valid conclusions for cases when direct laboratory measurements are not possible. While using limits is common for scientists, the idea of applying limits in school practice is not visible, and testing students' ability in this area is also rare.

Detecting Abnormal Vehicular Dynamics at Intersections Based on an Unsupervised Learning Approach and a Stochastic Model

PubMed Central

Jiménez-Hernández, Hugo; González-Barbosa, Jose-Joel; Garcia-Ramírez, Teresa

2010-01-01

This investigation demonstrates an unsupervised approach for modeling traffic flow and detecting abnormal vehicle behaviors at intersections. In the first stage, the approach reveals and records the different states of the system. These states are the result of coding and grouping the historical motion of vehicles as long binary strings. In the second stage, using sequences of the recorded states, a stochastic graph model based on a Markovian approach is built. A behavior is labeled abnormal when current motion pattern cannot be recognized as any state of the system or a particular sequence of states cannot be parsed with the stochastic model. The approach is tested with several sequences of images acquired from a vehicular intersection where the traffic flow and duration used in connection with the traffic lights are continuously changed throughout the day. Finally, the low complexity and the flexibility of the approach make it reliable for use in real time systems. PMID:22163616

Detecting abnormal vehicular dynamics at intersections based on an unsupervised learning approach and a stochastic model.

PubMed

Jiménez-Hernández, Hugo; González-Barbosa, Jose-Joel; Garcia-Ramírez, Teresa

2010-01-01

This investigation demonstrates an unsupervised approach for modeling traffic flow and detecting abnormal vehicle behaviors at intersections. In the first stage, the approach reveals and records the different states of the system. These states are the result of coding and grouping the historical motion of vehicles as long binary strings. In the second stage, using sequences of the recorded states, a stochastic graph model based on a Markovian approach is built. A behavior is labeled abnormal when current motion pattern cannot be recognized as any state of the system or a particular sequence of states cannot be parsed with the stochastic model. The approach is tested with several sequences of images acquired from a vehicular intersection where the traffic flow and duration used in connection with the traffic lights are continuously changed throughout the day. Finally, the low complexity and the flexibility of the approach make it reliable for use in real time systems.

Drug discovery using very large numbers of patents. General strategy with extensive use of match and edit operations

NASA Astrophysics Data System (ADS)

Robson, Barry; Li, Jin; Dettinger, Richard; Peters, Amanda; Boyer, Stephen K.

2011-05-01

A patent data base of 6.7 million compounds generated by a very high performance computer (Blue Gene) requires new techniques for exploitation when extensive use of chemical similarity is involved. Such exploitation includes the taxonomic classification of chemical themes, and data mining to assess mutual information between themes and companies. Importantly, we also launch candidates that evolve by "natural selection" as failure of partial match against the patent data base and their ability to bind to the protein target appropriately, by simulation on Blue Gene. An unusual feature of our method is that algorithms and workflows rely on dynamic interaction between match-and-edit instructions, which in practice are regular expressions. Similarity testing by these uses SMILES strings and, less frequently, graph or connectivity representations. Examining how this performs in high throughput, we note that chemical similarity and novelty are human concepts that largely have meaning by utility in specific contexts. For some purposes, mutual information involving chemical themes might be a better concept.

A graphic method for identification of novel glioma related genes.

PubMed

Gao, Yu-Fei; Shu, Yang; Yang, Lei; He, Yi-Chun; Li, Li-Peng; Huang, GuaHua; Li, Hai-Peng; Jiang, Yang

2014-01-01

Glioma, as the most common and lethal intracranial tumor, is a serious disease that causes many deaths every year. Good comprehension of the mechanism underlying this disease is very helpful to design effective treatments. However, up to now, the knowledge of this disease is still limited. It is an important step to understand the mechanism underlying this disease by uncovering its related genes. In this study, a graphic method was proposed to identify novel glioma related genes based on known glioma related genes. A weighted graph was constructed according to the protein-protein interaction information retrieved from STRING and the well-known shortest path algorithm was employed to discover novel genes. The following analysis suggests that some of them are related to the biological process of glioma, proving that our method was effective in identifying novel glioma related genes. We hope that the proposed method would be applied to study other diseases and provide useful information to medical workers, thereby designing effective treatments of different diseases.

Mathematical model for the dc-ac inverter for the Space Shuttle

NASA Technical Reports Server (NTRS)

Berry, Frederick C.

1987-01-01

The reader is informed of what was done for the mathematical modeling of the dc-ac inverter for the Space Shuttle. The mathematical modeling of the dc-ac inverter is an essential element in the modeling of the electrical power distribution system of the Space Shuttle. The electrical power distribution system which is present on the Space Shuttle is made up to 3 strings each having a fuel cell which provides dc to those systems which require dc, and the inverters which convert the dc to ac for those elements which require ac. The inverters are units which are 2 wire structures for the main dc inputs and 2 wire structures for the ac output. When 3 are connected together a 4 wire wye connection results on the ac side. The method of modeling is performed by using a Least Squares curve fitting method. A computer program is presented for implementation of the model along with graphs and tables to demonstrate the accuracy of the model.

Rapid hybrid de novo assembly of a microbial genome using only short reads: Corynebacterium pseudotuberculosis I19 as a case study.

PubMed

Cerdeira, Louise Teixeira; Carneiro, Adriana Ribeiro; Ramos, Rommel Thiago Jucá; de Almeida, Sintia Silva; D'Afonseca, Vivian; Schneider, Maria Paula Cruz; Baumbach, Jan; Tauch, Andreas; McCulloch, John Anthony; Azevedo, Vasco Ariston Carvalho; Silva, Artur

2011-08-01

Due to the advent of the so-called Next-Generation Sequencing (NGS) technologies the amount of monetary and temporal resources for whole-genome sequencing has been reduced by several orders of magnitude. Sequence reads can be assembled either by anchoring them directly onto an available reference genome (classical reference assembly), or can be concatenated by overlap (de novo assembly). The latter strategy is preferable because it tends to maintain the architecture of the genome sequence the however, depending on the NGS platform used, the shortness of read lengths cause tremendous problems the in the subsequent genome assembly phase, impeding closing of the entire genome sequence. To address the problem, we developed a multi-pronged hybrid de novo strategy combining De Bruijn graph and Overlap-Layout-Consensus methods, which was used to assemble from short reads the entire genome of Corynebacterium pseudotuberculosis strain I19, a bacterium with immense importance in veterinary medicine that causes Caseous Lymphadenitis in ruminants, principally ovines and caprines. Briefly, contigs were assembled de novo from the short reads and were only oriented using a reference genome by anchoring. Remaining gaps were closed using iterative anchoring of short reads by craning to gap flanks. Finally, we compare the genome sequence assembled using our hybrid strategy to a classical reference assembly using the same data as input and show that with the availability of a reference genome, it pays off to use the hybrid de novo strategy, rather than a classical reference assembly, because more genome sequences are preserved using the former. Copyright © 2011 Elsevier B.V. All rights reserved.

Holographic non-Fermi-liquid fixed points.

PubMed

Faulkner, Tom; Iqbal, Nabil; Liu, Hong; McGreevy, John; Vegh, David

2011-04-28

Techniques arising from string theory can be used to study assemblies of strongly interacting fermions. Via this 'holographic duality', various strongly coupled many-body systems are solved using an auxiliary theory of gravity. Simple holographic realizations of finite density exhibit single-particle spectral functions with sharp Fermi surfaces, of a form distinct from those of the Landau theory. The self-energy is given by a correlation function in an infrared (IR) fixed-point theory that is represented by a two-dimensional anti de Sitter space (AdS(2)) region in the dual gravitational description. Here, we describe in detail the gravity calculation of this IR correlation function.

Injector Cavities Fabrication, Vertical Test Performance and Primary Cryomodule Design

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wang, Haipeng; Cheng, Guangfeng; Clemens, William

2015-09-01

After the electromagnetic design and the mechanical design of a β=0.6, 2-cell elliptical SRF cavity, the cavity has been fabricated. Then both 2-cell and 7-cell cavities have been bench tuned to the target values of frequency, coupling external Q and field flatness. After buffer chemistry polishing (BCP) and high pressure rinses (HPR), Vertical 2K cavity test results have been satisfied the specifications and ready for the string assembly. We will report the cavity performance including Lorenz Force Detuning (LFD) and Higher Order Modes (HOM) damping data. Its integration with cavity tuners to the cryomodule design will be reported.

Identification of optimum sequencing depth especially for de novo genome assembly of small genomes using next generation sequencing data.

PubMed

Desai, Aarti; Marwah, Veer Singh; Yadav, Akshay; Jha, Vineet; Dhaygude, Kishor; Bangar, Ujwala; Kulkarni, Vivek; Jere, Abhay

2013-01-01

Next Generation Sequencing (NGS) is a disruptive technology that has found widespread acceptance in the life sciences research community. The high throughput and low cost of sequencing has encouraged researchers to undertake ambitious genomic projects, especially in de novo genome sequencing. Currently, NGS systems generate sequence data as short reads and de novo genome assembly using these short reads is computationally very intensive. Due to lower cost of sequencing and higher throughput, NGS systems now provide the ability to sequence genomes at high depth. However, currently no report is available highlighting the impact of high sequence depth on genome assembly using real data sets and multiple assembly algorithms. Recently, some studies have evaluated the impact of sequence coverage, error rate and average read length on genome assembly using multiple assembly algorithms, however, these evaluations were performed using simulated datasets. One limitation of using simulated datasets is that variables such as error rates, read length and coverage which are known to impact genome assembly are carefully controlled. Hence, this study was undertaken to identify the minimum depth of sequencing required for de novo assembly for different sized genomes using graph based assembly algorithms and real datasets. Illumina reads for E.coli (4.6 MB) S.kudriavzevii (11.18 MB) and C.elegans (100 MB) were assembled using SOAPdenovo, Velvet, ABySS, Meraculous and IDBA-UD. Our analysis shows that 50X is the optimum read depth for assembling these genomes using all assemblers except Meraculous which requires 100X read depth. Moreover, our analysis shows that de novo assembly from 50X read data requires only 6-40 GB RAM depending on the genome size and assembly algorithm used. We believe that this information can be extremely valuable for researchers in designing experiments and multiplexing which will enable optimum utilization of sequencing as well as analysis resources.

Charged string loops in Reissner-Nordström black hole background

NASA Astrophysics Data System (ADS)

Oteev, Tursinbay; Kološ, Martin; Stuchlík, Zdeněk

2018-03-01

We study the motion of current carrying charged string loops in the Reissner-Nordström black hole background combining the gravitational and electromagnetic field. Introducing new electromagnetic interaction between central charge and charged string loop makes the string loop equations of motion to be non-integrable even in the flat spacetime limit, but it can be governed by an effective potential even in the black hole background. We classify different types of the string loop trajectories using effective potential approach, and we compare the innermost stable string loop positions with loci of the charged particle innermost stable orbits. We examine string loop small oscillations around minima of the string loop effective potential, and we plot radial profiles of the string loop oscillation frequencies for both the radial and vertical modes. We construct charged string loop quasi-periodic oscillations model and we compare it with observed data from microquasars GRO 1655-40, XTE 1550-564, and GRS 1915+105. We also study the acceleration of current carrying string loops along the vertical axis and the string loop ejection from RN black hole neighbourhood, taking also into account the electromagnetic interaction.

Dual nozzle aerodynamic and cooling analysis study. [dual throat and dual expander nozzles

NASA Technical Reports Server (NTRS)

Meagher, G. M.

1980-01-01

Geometric, aerodynamic flow field, performance prediction, and heat transfer analyses are considered for two advanced chamber nozzle concepts applicable to Earth-to-orbit engine systems. Topics covered include improvements to the dual throat aerodynamic and performance prediction program; geometric and flow field analyses of the dual expander concept; heat transfer analysis of both concepts, and engineering analysis of data from the NASA/MSFC hot-fire testing of a dual throat thruster model thrust chamber assembly. Preliminary results obtained are presented in graphs.

Effect of Notched Strings on Tennis Racket Spin Performance: Ultrahigh-Speed Video Analysis of Spin Rate, Contact Time, and Post-Impact Ball Velocity

NASA Astrophysics Data System (ADS)

Kawazoe, Yoshihiko; Takeda, Yukihiro; Nakagawa, Masamichi

While some tennis racket strings have more grip than others do, this does not guarantee that they will impart more spin to a tennis ball. Experiments with hand-held rackets are required to determine the longstanding question of how players can discern that different strings behave differently when laboratory tests indicate that they should play the same. In a previous study, we clarified the top-spin mechanism of a tennis racket by using high-speed video analysis on a tennis court for the first time. Furthermore, we improved it by using lubricated notched nylon strings. These experiments revealed that the more the main strings stretch and bend laterally, the more spin is imparted to the ball. This is due to the restoring force being parallel to the string face when the main strings spring back and the ball is released from the strings. Notched strings reduce the spin rate, but this can be effectively counteracted by employing lubricants. Furthermore, we found that imparting more spin reduces shock vibrations on the wrist during impact. The present study revealed that a ball has a 40% lower spin rate when hit with a racket with notched strings than with one with unnotched strings in the case of nylon (it had to be determined whether new strings or lubricated used strings give more spin). The experiments also showed that 30% more spin is imparted to a ball when the string intersections are lubricated by oil than when notched used nylon strings are used. Furthermore, we found that used natural gut notched strings reduced the spin rate by 70% compared to when new natural gut unnotched strings are used. We also investigated different top-spin behaviors obtained when professional and amateur tennis players hit a ball.

Syntactic transfer in artificial grammar learning.

PubMed

Beesley, T; Wills, A J; Le Pelley, M E

2010-02-01

In an artificial grammar learning (AGL) experiment, participants were trained with instances of one grammatical structure before completing a test phase in which they were required to discriminate grammatical from randomly created strings. Importantly, the underlying structure used to generate test strings was different from that used to generate the training strings. Despite the fact that grammatical training strings were more similar to nongrammatical test strings than they were to grammatical test strings, this manipulation resulted in a positive transfer effect, as compared with controls trained with nongrammatical strings. It is suggested that training with grammatical strings leads to an appreciation of set variance that aids the detection of grammatical test strings in AGL tasks. The analysis presented demonstrates that it is useful to conceptualize test performance in AGL as a form of unsupervised category learning.

An Ada/SQL (Structured Query Language) Application Scanner.

DTIC Science & Technology

1988-03-01

Digital ...8217 (" DIGITS "), 46 new STRING’ ("DO"), new STRING’ ("ELSE"), new STRING’ ("ELSIF"), new STRING’ ("END"), new STRING’ ("ENTRY"), new STRING’ ("EXCEPTION...INTEGERPRINT; generic type NUM is digits <>; package FLOATPRINT is package txtprts.ada 18 prcdr PR (FL inFL %YE LINE n LINTYPE UNCLASSIFIED procedure

Mechanics of epithelial closure over non-adherent environments

NASA Astrophysics Data System (ADS)

Vedula, Sri Ram Krishna; Peyret, Grégoire; Cheddadi, Ibrahim; Chen, Tianchi; Brugués, Agustí; Hirata, Hiroaki; Lopez-Menendez, Horacio; Toyama, Yusuke; Neves de Almeida, Luís; Trepat, Xavier; Lim, Chwee Teck; Ladoux, Benoit

2015-01-01

The closure of gaps within epithelia is crucial to maintain its integrity during biological processes such as wound healing and gastrulation. Depending on the distribution of extracellular matrix, gap closure occurs through assembly of multicellular actin-based contractile cables or protrusive activity of border cells into the gap. Here we show that the supracellular actomyosin contractility of cells near the gap edge exerts sufficient tension on the surrounding tissue to promote closure of non-adherent gaps. Using traction force microscopy, we observe that cell-generated forces on the substrate at the gap edge first point away from the centre of the gap and then increase in the radial direction pointing into the gap as closure proceeds. Combining with numerical simulations, we show that the increase in force relies less on localized purse-string contractility and more on large-scale remodelling of the suspended tissue around the gap. Our results provide a framework for understanding the assembly and the mechanics of cellular contractility at the tissue level.

Mechanics of epithelial closure over non-adherent environments

PubMed Central

Vedula, Sri Ram Krishna; Peyret, Grégoire; Cheddadi, Ibrahim; Chen, Tianchi; Brugués, Agustí; Hirata, Hiroaki; Lopez-Menendez, Horacio; Toyama, Yusuke; Neves de Almeida, Luís; Trepat, Xavier; Lim, Chwee Teck; Ladoux, Benoit

2015-01-01

The closure of gaps within epithelia is crucial to maintain its integrity during biological processes such as wound healing and gastrulation. Depending on the distribution of extracellular matrix, gap closure occurs through assembly of multicellular actin-based contractile cables or protrusive activity of border cells into the gap. Here we show that the supracellular actomyosin contractility of cells near the gap edge exerts sufficient tension on the surrounding tissue to promote closure of non-adherent gaps. Using traction force microscopy, we observe that cell-generated forces on the substrate at the gap edge first point away from the centre of the gap and then increase in the radial direction pointing into the gap as closure proceeds. Combining with numerical simulations, we show that the increase in force relies less on localized purse-string contractility and more on large-scale remodelling of the suspended tissue around the gap. Our results provide a framework for understanding the assembly and the mechanics of cellular contractility at the tissue level. PMID:25608921

Pitch glide effect induced by a nonlinear string-barrier interaction

NASA Astrophysics Data System (ADS)

Kartofelev, Dmitri; Stulov, Anatoli; Välimäki, Vesa

2015-10-01

Interactions of a vibrating string with its supports and other spatially distributed barriers play a significant role in the physics of many stringed musical instruments. It is well known that the tone of the string vibrations is determined by the string supports, and that the boundary conditions of the string termination may cause a short-lasting initial fundamental frequency shifting. Generally, this phenomenon is associated with the nonlinear modulation of the stiff string tension. The aim of this paper is to study the initial frequency glide phenomenon that is induced only by the string-barrier interaction, apart from other possible physical causes, and without the interfering effects of dissipation and dispersion. From a numerical simulation perspective, this highly nonlinear problem may present various difficulties, not the least of which is the risk of numerical instability. We propose a numerically stable and a purely kinematic model of the string-barrier interaction, which is based on the travelling wave solution of the ideal string vibration. The model is capable of reproducing the motion of the vibrating string exhibiting the initial fundamental frequency glide, which is caused solely by the complex nonlinear interaction of the string with its termination. The results presented in this paper can expand our knowledge and understanding of the timbre evolution and the physical principles of sound generation of numerous stringed instruments, such as lutes called the tambura, sitar and biwa.

Constraint Reasoning Over Strings

NASA Technical Reports Server (NTRS)

Koga, Dennis (Technical Monitor); Golden, Keith; Pang, Wanlin

2003-01-01

This paper discusses an approach to representing and reasoning about constraints over strings. We discuss how many string domains can often be concisely represented using regular languages, and how constraints over strings, and domain operations on sets of strings, can be carried out using this representation.

The physics of unwound and wound strings on the electric guitar applied to the pitch intervals produced by tremolo/vibrato arm systems.

PubMed

Kemp, Jonathan A

2017-01-01

The physics of wound and unwound strings on the electric guitar are presented here, and the pitch intervals produced by the movements of a Fender Stratocaster tremolo unit are explained. Predicted changes in pitch sensitivity of different strings are given, and experimentally verified, for changes in saddle height, the distance of string free to move behind the nut and ratio of diameters/masses of the core and windings of wound strings. Also, it is shown that changes to the gauge of strings (assuming the string tension is sufficient for linear behaviour and in absence of changes to other construction details) don't alter the pitch intervals produced by a given angle of tremolo arm use assuming the instrument is set up with the same sounding pitches and starting bridge angle. It is demonstrated that it not possible to equalise the relative sensitivity of unwound steel stings on a Fender Stratocaster type tremolo unit through string construction techniques. The ratio of core to winding mass in the string, on the other hand, was found to be a very powerful design parameter for choosing the sensitivity of the string to tremolo arm use and standard pitch bends. For instance, the pitch intervals produced by operation of tremolo arm for wound strings may be made to approximately match that for one of the unwound strings if they share very similar core gauges (assuming the winding masses are chosen to give approximately the same tension at their sounding pitches). Such a design, only available currently by custom order, also delivers the optimum equalisation in sensitivity of strings for standard string bends (due to these also being produced by altering the length of the string to generate changes in tension and therefore pitch).

Entanglement branes in a two-dimensional string theory

DOE PAGES

Donnelly, William; Wong, Gabriel

2017-09-20

What is the meaning of entanglement in a theory of extended objects such as strings? To address this question we consider the spatial entanglement between two intervals in the Gross-Taylor model, the string theory dual to two-dimensional Yang-Mills theory at large N. The string diagrams that contribute to the entanglement entropy describe open strings with endpoints anchored to the entangling surface, as first argued by Susskind. We develop a canonical theory of these open strings, and describe how closed strings are divided into open strings at the level of the Hilbert space. Here, we derive the modular Hamiltonian for themore » Hartle-Hawking state and show that the corresponding reduced density matrix describes a thermal ensemble of open strings ending on an object at the entangling surface that we call an entanglement brane, or E-brane.« less

An optimized routing algorithm for the automated assembly of standard multimode ribbon fibers in a full-mesh optical backplane

NASA Astrophysics Data System (ADS)

Basile, Vito; Guadagno, Gianluca; Ferrario, Maddalena; Fassi, Irene

2018-03-01

In this paper a parametric, modular and scalable algorithm allowing a fully automated assembly of a backplane fiber-optic interconnection circuit is presented. This approach guarantees the optimization of the optical fiber routing inside the backplane with respect to specific criteria (i.e. bending power losses), addressing both transmission performance and overall costs issues. Graph theory has been exploited to simplify the complexity of the NxN full-mesh backplane interconnection topology, firstly, into N independent sub-circuits and then, recursively, into a limited number of loops easier to be generated. Afterwards, the proposed algorithm selects a set of geometrical and architectural parameters whose optimization allows to identify the optimal fiber optic routing for each sub-circuit of the backplane. The topological and numerical information provided by the algorithm are then exploited to control a robot which performs the automated assembly of the backplane sub-circuits. The proposed routing algorithm can be extended to any array architecture and number of connections thanks to its modularity and scalability. Finally, the algorithm has been exploited for the automated assembly of an 8x8 optical backplane realized with standard multimode (MM) 12-fiber ribbons.

String-driven inflation

NASA Technical Reports Server (NTRS)

Turok, Neil

1988-01-01

It is argued that, in fundamental string theories, as one traces the universe back in time a point is reached when the expansion rate is so fast that the rate of string creation due to quantum effects balances the dilution of the string density due to the expansion. One is therefore led into a phase of constant string density and an exponentially expanding universe. Fundamental strings therefore seem to lead naturally to inflation.

p-adic string theories provide lattice Discretization to the ordinary string worldsheet.

PubMed

Ghoshal, Debashis

2006-10-13

A class of models called p-adic strings is useful in understanding the tachyonic instability of string theory. These are found to be empirically related to the ordinary strings in the p-->1 limit. We propose that these models provide discretization for the string worldsheet and argue that the limit is naturally thought of as a continuum limit in the sense of the renormalization group.

Self-organization in a system of binary strings with spatial interactions

NASA Astrophysics Data System (ADS)

Banzhaf, W.; Dittrich, P.; Eller, B.

1999-01-01

We consider an artificial reaction system whose components are binary strings. Upon encounter, two binary strings produce a third string which competes for storage space with the originators. String types or species can only survive when produced in sufficient numbers. Spatial interactions through introduction of a topology and rules for distance-dependent reactions are discussed. We observe various kinds of survival strategies of binary strings.

p-adic String Theories Provide Lattice Discretization to the Ordinary String Worldsheet

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ghoshal, Debashis

2006-10-13

A class of models called p-adic strings is useful in understanding the tachyonic instability of string theory. These are found to be empirically related to the ordinary strings in the p{yields}1 limit. We propose that these models provide discretization for the string worldsheet and argue that the limit is naturally thought of as a continuum limit in the sense of the renormalization group.

Progress report for a research program in theoretical high energy physics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Feldman, D.; Fried, H.M.; Jevicki, A.

This year's research has dealt with: superstrings in the early universe; the invisible axion emissions from SN1987A; quartic interaction in Witten's superstring field theory; W-boson associated multiplicity and the dual parton model; cosmic strings and galaxy formation; cosmic strings and baryogenesis; quark flavor mixing; p -- /bar p/ scattering at TeV energies; random surfaces; ordered exponentials and differential equations; initial value and back-reaction problems in quantum field theory; string field theory and Weyl invariance; the renormalization group and string field theory; the evolution of scalar fields in an inflationary universe, with and without the effects of gravitational perturbations; cosmic stringmore » catalysis of skyrmion decay; inflation and cosmic strings from dynamical symmetry breaking; the physic of flavor mixing; string-inspired cosmology; strings at high-energy densities and complex temperatures; the problem of non-locality in string theory; string statistical mechanics; large-scale structures with cosmic strings and neutrinos; the delta expansion for stochastic quantization; high-energy neutrino flux from ordinary cosmic strings; a physical picture of loop bremsstrahlung; cylindrically-symmetric solutions of four-dimensional sigma models; large-scale structure with hot dark matter and cosmic strings; the unitarization of the odderon; string thermodynamics and conservation laws; the dependence of inflationary-universe models on initial conditions; the delta expansion and local gauge invariance; particle physics and galaxy formation; chaotic inflation with metric and matter perturbations; grand-unified theories, galaxy formation, and large-scale structure; neutrino clustering in cosmic-string-induced wakes; and infrared approximations to nonlinear differential equations. 17 refs.« less

String Formatting Considered Harmful for Novice Programmers

ERIC Educational Resources Information Center

Hughes, Michael C.; Jadud, Matthew C.; Rodrigo, Ma. Mercedes T.

2010-01-01

In Java, "System.out.printf" and "String.format" consume a specialised kind of string commonly known as a format string. In our study of first-year students at the Ateneo de Manila University, we discovered that format strings present a substantial challenge for novice programmers. Focusing on their first laboratory we found…

Charting the landscape of supercritical string theory.

PubMed

Hellerman, Simeon; Swanson, Ian

2007-10-26

Special solutions of string theory in supercritical dimensions can interpolate in time between theories with different numbers of spacetime dimensions and different amounts of world sheet supersymmetry. These solutions connect supercritical string theories to the more familiar string duality web in ten dimensions and provide a precise link between supersymmetric and purely bosonic string theories. Dimension quenching and c duality appear to be natural concepts in string theory, giving rise to large networks of interconnected theories.

String solutions in spherically-symmetric f(R) gravity vacuum

NASA Astrophysics Data System (ADS)

Dil, Emre

Dynamical evolution of the cosmic string in a spherically symmetric f(R) gravity vacuum is studied for a closed and straight string. We first set the background spacetime metric for a constant curvature scalar R = R0, and obtain the Killing fields for it. Using the standard gauge coordinates and constraints for both closed and straight strings, we present the equation of motions and find the solutions of them. We then analyze the dynamics of the string by studying the behavior of the string radius and periastron radius, with respect to both proper time and azimuthal angle, for various values of f(R) functions. Consequently, we conclude that the value of f(R) dramatically affects the closed string collapse time and the straight string angular deviation.

Diffusion of massive particles around an Abelian-Higgs string

NASA Astrophysics Data System (ADS)

Saha, Abhisek; Sanyal, Soma

2018-03-01

We study the diffusion of massive particles in the space time of an Abelian Higgs string. The particles in the early universe plasma execute Brownian motion. This motion of the particles is modeled as a two dimensional random walk in the plane of the Abelian Higgs string. The particles move randomly in the space time of the string according to their geodesic equations. We observe that for certain values of their energy and angular momentum, an overdensity of particles is observed close to the string. We find that the string parameters determine the distribution of the particles. We make an estimate of the density fluctuation generated around the string as a function of the deficit angle. Though the thickness of the string is small, the length is large and the overdensity close to the string may have cosmological consequences in the early universe.

Remarks on entanglement entropy in string theory

NASA Astrophysics Data System (ADS)

Balasubramanian, Vijay; Parrikar, Onkar

2018-03-01

Entanglement entropy for spatial subregions is difficult to define in string theory because of the extended nature of strings. Here we propose a definition for bosonic open strings using the framework of string field theory. The key difference (compared to ordinary quantum field theory) is that the subregion is chosen inside a Cauchy surface in the "space of open string configurations." We first present a simple calculation of this entanglement entropy in free light-cone string field theory, ignoring subtleties related to the factorization of the Hilbert space. We reproduce the answer expected from an effective field theory point of view, namely a sum over the one-loop entanglement entropies corresponding to all the particle-excitations of the string, and further show that the full string theory regulates ultraviolet divergences in the entanglement entropy. We then revisit the question of factorization of the Hilbert space by analyzing the covariant phase-space associated with a subregion in Witten's covariant string field theory. We show that the pure gauge (i.e., BRST exact) modes in the string field become dynamical at the entanglement cut. Thus, a proper definition of the entropy must involve an extended Hilbert space, with new stringy edge modes localized at the entanglement cut.

Topological structure and mechanics of glassy polymer networks.

PubMed

Elder, Robert M; Sirk, Timothy W

2017-11-22

The influence of chain-level network architecture (i.e., topology) on mechanics was explored for unentangled polymer networks using a blend of coarse-grained molecular simulations and graph-theoretic concepts. A simple extension of the Watts-Strogatz model is proposed to control the graph properties of the network such that the corresponding physical properties can be studied with simulations. The architecture of polymer networks assembled with a dynamic curing approach were compared with the extended Watts-Strogatz model, and found to agree surprisingly well. The final cured structures of the dynamically-assembled networks were nearly an intermediate between lattice and random connections due to restrictions imposed by the finite length of the chains. Further, the uni-axial stress response, character of the bond breaking, and non-affine displacements of fully-cured glassy networks were analyzed as a function of the degree of disorder in the network architecture. It is shown that the architecture strongly affects the network stability, flow stress, onset of bond breaking, and ultimate stress while leaving the modulus and yield point nearly unchanged. The results show that internal restrictions imposed by the network architecture alter the chain-level response through changes to the crosslink dynamics in the flow regime and through the degree of coordinated chain failure at the ultimate stress. The properties considered here are shown to be sensitive to even incremental changes to the architecture and, therefore, the overall network architecture, beyond simple defects, is predicted to be a meaningful physical parameter in the mechanics of glassy polymer networks.

Cosmic string catalysis of skyrmion decay

NASA Technical Reports Server (NTRS)

Gregory, Ruth; Davis, Anne-Christine; Brandenberger, Robert

1988-01-01

The Callan-Witten picture is developed for monopole catalyzed skyrmion decay in order to analyze the corresponding cosmic string scenario. It is discovered that cosmic strings (both ordinary and superconducting) can catalyze proton decay, but that this catalysis only occurs on the scale of the core of the string. In order to do this we have to develop a vortex model for the superconducting string. An argument is also given for the difference in the enhancement factors for monopoles and strings.

Hydraulics Graphics Package. Users Manual

DTIC Science & Technology

1985-11-01

ENTER: VARIABLE/SEPARATOR/VALUE OR STRING GLBL, TETON DAM FAILURE ENTER: VARIABLE/SEPARATOR/VALUE OR STRING SLOC ,DISCHARGE HISTOGRAM ENTER: VARIABLE...ENTER: VARIABLE/SEPARATOR/VALUE OR STRING YLBL,FLOW IN 1000 CFS ENTER: VARIABLE/SEPARATORVA LUE OR STRING GLBL, TETON DAM FAILURE ENTER: VARIABLE...SEPARATOR/VALUE OR STRING SECNO, 0 ENTER: VARIABLE/SEPARATOR/VALUE OR STRING GO 1ee0. F go L 0 U I Goo. 200. TETON DAM FAILUPE N\\ rLOIJ Alr 4wi. fiNT. I .I

Impaired letter-string processing in developmental dyslexia: what visual-to-phonology code mapping disorder?

PubMed

Valdois, Sylviane; Lassus-Sangosse, Delphine; Lobier, Muriel

2012-05-01

Poor parallel letter-string processing in developmental dyslexia was taken as evidence of poor visual attention (VA) span, that is, a limitation of visual attentional resources that affects multi-character processing. However, the use of letter stimuli in oral report tasks was challenged on its capacity to highlight a VA span disorder. In particular, report of poor letter/digit-string processing but preserved symbol-string processing was viewed as evidence of poor visual-to-phonology code mapping, in line with the phonological theory of developmental dyslexia. We assessed here the visual-to-phonological-code mapping disorder hypothesis. In Experiment 1, letter-string, digit-string and colour-string processing was assessed to disentangle a phonological versus visual familiarity account of the letter/digit versus symbol dissociation. Against a visual-to-phonological-code mapping disorder but in support of a familiarity account, results showed poor letter/digit-string processing but preserved colour-string processing in dyslexic children. In Experiment 2, two tasks of letter-string report were used, one of which was performed simultaneously to a high-taxing phonological task. Results show that dyslexic children are similarly impaired in letter-string report whether a concurrent phonological task is simultaneously performed or not. Taken together, these results provide strong evidence against a phonological account of poor letter-string processing in developmental dyslexia. Copyright © 2012 John Wiley & Sons, Ltd.

Multiflavor string-net models

NASA Astrophysics Data System (ADS)

Lin, Chien-Hung

2017-05-01

We generalize the string-net construction to multiple flavors of strings, each of which is labeled by the elements of an Abelian group Gi. The same flavor of strings can branch, while different flavors of strings can cross one another and thus they form intersecting string nets. We systematically construct the exactly soluble lattice Hamiltonians and the ground-state wave functions for the intersecting string-net condensed phases. We analyze the braiding statistics of the low-energy quasiparticle excitations and find that our model can realize all the topological phases as the string-net model with group G =∏iGi . In this respect, our construction provides various ways of building lattice models which realize topological order G , corresponding to different partitions of G and thus different flavors of string nets. In fact, our construction concretely demonstrates the Künneth formula by constructing various lattice models with the same topological order. As an example, we construct the G =Z2×Z2×Z2 string-net model which realizes a non-Abelian topological phase by properly intersecting three copies of toric codes.

Photovoltaic power generation system with photovoltaic cells as bypass diodes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lentine, Anthony L.; Nielson, Gregory N.; Tauke-Pedretti, Anna

A photovoltaic power generation system that includes a solar panel is described herein. The solar panel includes a photovoltaic sub-module, which includes a group of microsystem enabled photovoltaic cells. The group includes a first string of photovoltaic cells, a second string of photovoltaic cells, and a differing photovoltaic cell. Photovoltaic cells in the first string are electrically connected in series, and photovoltaic cells in the second string are electrically connected in series. Further, the first string of photovoltaic cells, the second string of photovoltaic cells, and the differing photovoltaic cell are electrically connected in parallel. Moreover, the differing photovoltaic cellmore » is used as a bypass diode for the first string of photovoltaic cells and the second string of photovoltaic cells.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Donnelly, William; Wong, Gabriel

What is the meaning of entanglement in a theory of extended objects such as strings? To address this question we consider the spatial entanglement between two intervals in the Gross-Taylor model, the string theory dual to two-dimensional Yang-Mills theory at large N. The string diagrams that contribute to the entanglement entropy describe open strings with endpoints anchored to the entangling surface, as first argued by Susskind. We develop a canonical theory of these open strings, and describe how closed strings are divided into open strings at the level of the Hilbert space. Here, we derive the modular Hamiltonian for themore » Hartle-Hawking state and show that the corresponding reduced density matrix describes a thermal ensemble of open strings ending on an object at the entangling surface that we call an entanglement brane, or E-brane.« less

Device for balancing parallel strings

DOEpatents

Mashikian, Matthew S.

1985-01-01

A battery plant is described which features magnetic circuit means in association with each of the battery strings in the battery plant for balancing the electrical current flow through the battery strings by equalizing the voltage across each of the battery strings. Each of the magnetic circuit means generally comprises means for sensing the electrical current flow through one of the battery strings, and a saturable reactor having a main winding connected electrically in series with the battery string, a bias winding connected to a source of alternating current and a control winding connected to a variable source of direct current controlled by the sensing means. Each of the battery strings is formed by a plurality of batteries connected electrically in series, and these battery strings are connected electrically in parallel across common bus conductors.

Aspects of some dualities in string theory

NASA Astrophysics Data System (ADS)

Kim, Bom Soo

AdS/CFT correspondence in string theory has changed landscape of the theoretical physics. Through this celebrated duality between gravity theory and field theory, one can investigate analytically strongly coupled gauge theories such as Quantum Chromodynamics (QCD) in terms of weakly coupled string theory such as supergravity theory and vice versa. In the first part of this thesis we used this duality to construct a new type of nonlocal field theory, called Puff Field Theory, in terms of D3 branes in type IIB string theory with a geometric twist. In addition to the strong-weak duality of AdS/CFT, there also exists a weak-weak duality, called Twistor String Theory. Twistor technique is successfully used to calculate the SYM scattering amplitude in an elegant fashion. Yet, the progress in the string theory side was hindered by a non-unitary conformal gravity. We extend the Twistor string theory by introducing mass terms, in the second part of the thesis. A chiral mass term is identified as a vacuum expectation value of a conformal supergravity field and is tied with the breaking of the conformal symmetry of gravity. As a prime candidate for a quantum theory of gravity, string theory revealed many promising successes such as counting the number of microstates in supersymmetric Black Holes thermodynamics and resolution of timelike and null singularities, to name a few. Yet, the fundamental string and M-theroy formulations are not yet available. Various string theories without gravity, such as Non-Commutative Open String (NCOS) and Open Membrane (OM) theories, are very nice playground to investigate the fundamental structure of string and M-theory without the complication of gravity. In the last part of the thesis, simpler Non-Relativistic String Theories are constructed and investigated. One important motivation for those theories is related to the connection between Non-Relativistic String Theories and Non-critical String Theories through the bosonization of betagamma CFT.

The physics of unwound and wound strings on the electric guitar applied to the pitch intervals produced by tremolo/vibrato arm systems

PubMed Central

2017-01-01

The physics of wound and unwound strings on the electric guitar are presented here, and the pitch intervals produced by the movements of a Fender Stratocaster tremolo unit are explained. Predicted changes in pitch sensitivity of different strings are given, and experimentally verified, for changes in saddle height, the distance of string free to move behind the nut and ratio of diameters/masses of the core and windings of wound strings. Also, it is shown that changes to the gauge of strings (assuming the string tension is sufficient for linear behaviour and in absence of changes to other construction details) don’t alter the pitch intervals produced by a given angle of tremolo arm use assuming the instrument is set up with the same sounding pitches and starting bridge angle. It is demonstrated that it not possible to equalise the relative sensitivity of unwound steel stings on a Fender Stratocaster type tremolo unit through string construction techniques. The ratio of core to winding mass in the string, on the other hand, was found to be a very powerful design parameter for choosing the sensitivity of the string to tremolo arm use and standard pitch bends. For instance, the pitch intervals produced by operation of tremolo arm for wound strings may be made to approximately match that for one of the unwound strings if they share very similar core gauges (assuming the winding masses are chosen to give approximately the same tension at their sounding pitches). Such a design, only available currently by custom order, also delivers the optimum equalisation in sensitivity of strings for standard string bends (due to these also being produced by altering the length of the string to generate changes in tension and therefore pitch). PMID:28934268

Formation of Electron Strings in Narrow Band Polar Semiconductors

NASA Astrophysics Data System (ADS)

Kusmartsev, F. V.

2000-01-01

We show that linear electron strings may arise in polar semiconductors. A single string consists of M spinless fermions trapped by an extended polarization well of a cigar shape. Inside the string the particles are free although they interact with each other via Coulomb forces. The strings arise as a result of an electronic phase separation associated with an instability of small adiabatic polarons. We have found the length of the string which depends on dielectric constants of semiconductors. The appearance of these electron strings may have an impact on the effect of stripe formation observed in a variety of high- Tc experiments.

Optimal management of batteries in electric systems

DOEpatents

Atcitty, Stanley; Butler, Paul C.; Corey, Garth P.; Symons, Philip C.

2002-01-01

An electric system including at least a pair of battery strings and an AC source minimizes the use and maximizes the efficiency of the AC source by using the AC source only to charge all battery strings at the same time. Then one or more battery strings is used to power the load while management, such as application of a finish charge, is provided to one battery string. After another charge cycle, the roles of the battery strings are reversed so that each battery string receives regular management.

The waiting time problem in a model hominin population.

PubMed

Sanford, John; Brewer, Wesley; Smith, Franzine; Baumgardner, John

2015-09-17

Functional information is normally communicated using specific, context-dependent strings of symbolic characters. This is true within the human realm (texts and computer programs), and also within the biological realm (nucleic acids and proteins). In biology, strings of nucleotides encode much of the information within living cells. How do such information-bearing nucleotide strings arise and become established? This paper uses comprehensive numerical simulation to understand what types of nucleotide strings can realistically be established via the mutation/selection process, given a reasonable timeframe. The program Mendel's Accountant realistically simulates the mutation/selection process, and was modified so that a starting string of nucleotides could be specified, and a corresponding target string of nucleotides could be specified. We simulated a classic pre-human hominin population of at least 10,000 individuals, with a generation time of 20 years, and with very strong selection (50% selective elimination). Random point mutations were generated within the starting string. Whenever an instance of the target string arose, all individuals carrying the target string were assigned a specified reproductive advantage. When natural selection had successfully amplified an instance of the target string to the point of fixation, the experiment was halted, and the waiting time statistics were tabulated. Using this methodology we tested the effect of mutation rate, string length, fitness benefit, and population size on waiting time to fixation. Biologically realistic numerical simulations revealed that a population of this type required inordinately long waiting times to establish even the shortest nucleotide strings. To establish a string of two nucleotides required on average 84 million years. To establish a string of five nucleotides required on average 2 billion years. We found that waiting times were reduced by higher mutation rates, stronger fitness benefits, and larger population sizes. However, even using the most generous feasible parameters settings, the waiting time required to establish any specific nucleotide string within this type of population was consistently prohibitive. We show that the waiting time problem is a significant constraint on the macroevolution of the classic hominin population. Routine establishment of specific beneficial strings of two or more nucleotides becomes very problematic.

The IMS Software Integration Platform

DTIC Science & Technology

1993-04-12

products to incorporate all data shared by the IMS applications. Some entities (time-series, images, a algorithm -specific parameters) must be managed...dbwhoanii, dbcancel Transaction Management: dbcommit, dbrollback Key Counter Assignment: dbgetcounter String Handling: cstr ~to~pad, pad-to- cstr Error...increment *value; String Maniputation: int cstr topad (array, string, arraylength) char *array, *string; int arrayjlength; int pad tocstr (string

Cosmic superstrings: Observable remnants of brane inflation

NASA Astrophysics Data System (ADS)

Wyman, Mark Charles

Brane inflation provides a natural dynamical model for the physics which underlie the inflationary paradigm. Besides their inflationary predictions, brane models imply another observable consequence: cosmic strings. In this dissertation I outline the background of how cosmic strings arise in brane inflationary models and how the properties of the strings and the models are mutually tied (Chapter 2). I then use cosmological observations to put limits on the properties of any actually-existing cosmic string network (Chapter 3). Next, I study the question of how cosmic superstrings, as the cosmic strings arising from string theory are known, could be distinct from classical gauge- theory cosmic strings. In particular, I propose an analytical model for the cosmological evolution of a network of binding cosmic strings (Chapter 4); I also describe the distinctive gravitational lensing phenomena that are caused by binding strings (Chapter 5). Finally, I lay out the background for the numerical study of a gauge theory model for the dynamics of cosmic superstring binding (Chapter 6).

String theory--the physics of string-bending and other electric guitar techniques.

PubMed

Grimes, David Robert

2014-01-01

Electric guitar playing is ubiquitous in practically all modern music genres. In the hands of an experienced player, electric guitars can sound as expressive and distinct as a human voice. Unlike other more quantised instruments where pitch is a discrete function, guitarists can incorporate micro-tonality and, as a result, vibrato and sting-bending are idiosyncratic hallmarks of a player. Similarly, a wide variety of techniques unique to the electric guitar have emerged. While the mechano-acoustics of stringed instruments and vibrating strings are well studied, there has been comparatively little work dedicated to the underlying physics of unique electric guitar techniques and strings, nor the mechanical factors influencing vibrato, string-bending, fretting force and whammy-bar dynamics. In this work, models for these processes are derived and the implications for guitar and string design discussed. The string-bending model is experimentally validated using a variety of strings and vibrato dynamics are simulated. The implications of these findings on the configuration and design of guitars is also discussed.

PhD Thesis: String theory in the early universe

NASA Astrophysics Data System (ADS)

Gwyn, Rhiannon

2009-11-01

The intersection of string theory with cosmology is unavoidable in the early universe, and its exploration may shine light on both fields. In this thesis, three papers at this intersection are presented and reviewed, with the aim of providing a thorough and pedagogical guide to their results. First, we address the longstanding problem of finding a string theory realisation of the axion. Using warped compactifications in heterotic string theory, we show that the axion decay constant can be lowered to acceptable values by the warp factor. Next, we move to the subject of cosmic strings, whose network evolution could have important consequences for astrophysics and cosmology. In particular, there are quantitative differences between cosmic superstring networks and GUT cosmic string networks. We investigate the properties of cosmic superstring networks in warped backgrounds, giving the tension and properties of three-string junctions in these backgrounds. Finally, we examine the possibility that cosmic strings in heterotic string theory could be responsible for generating the galactic magnetic fields that seeded those observed today.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ciuca, Razvan; Hernández, Oscar F., E-mail: razvan.ciuca@mail.mcgill.ca, E-mail: oscarh@physics.mcgill.ca

There exists various proposals to detect cosmic strings from Cosmic Microwave Background (CMB) or 21 cm temperature maps. Current proposals do not aim to find the location of strings on sky maps, all of these approaches can be thought of as a statistic on a sky map. We propose a Bayesian interpretation of cosmic string detection and within that framework, we derive a connection between estimates of cosmic string locations and cosmic string tension G μ. We use this Bayesian framework to develop a machine learning framework for detecting strings from sky maps and outline how to implement this frameworkmore » with neural networks. The neural network we trained was able to detect and locate cosmic strings on noiseless CMB temperature map down to a string tension of G μ=5 ×10{sup −9} and when analyzing a CMB temperature map that does not contain strings, the neural network gives a 0.95 probability that G μ≤2.3×10{sup −9}.« less

String Theory - The Physics of String-Bending and Other Electric Guitar Techniques

PubMed Central

Grimes, David Robert

2014-01-01

Electric guitar playing is ubiquitous in practically all modern music genres. In the hands of an experienced player, electric guitars can sound as expressive and distinct as a human voice. Unlike other more quantised instruments where pitch is a discrete function, guitarists can incorporate micro-tonality and, as a result, vibrato and sting-bending are idiosyncratic hallmarks of a player. Similarly, a wide variety of techniques unique to the electric guitar have emerged. While the mechano-acoustics of stringed instruments and vibrating strings are well studied, there has been comparatively little work dedicated to the underlying physics of unique electric guitar techniques and strings, nor the mechanical factors influencing vibrato, string-bending, fretting force and whammy-bar dynamics. In this work, models for these processes are derived and the implications for guitar and string design discussed. The string-bending model is experimentally validated using a variety of strings and vibrato dynamics are simulated. The implications of these findings on the configuration and design of guitars is also discussed. PMID:25054880

Minimal string theories and integrable hierarchies

NASA Astrophysics Data System (ADS)

Iyer, Ramakrishnan

Well-defined, non-perturbative formulations of the physics of string theories in specific minimal or superminimal model backgrounds can be obtained by solving matrix models in the double scaling limit. They provide us with the first examples of completely solvable string theories. Despite being relatively simple compared to higher dimensional critical string theories, they furnish non-perturbative descriptions of interesting physical phenomena such as geometrical transitions between D-branes and fluxes, tachyon condensation and holography. The physics of these theories in the minimal model backgrounds is succinctly encoded in a non-linear differential equation known as the string equation, along with an associated hierarchy of integrable partial differential equations (PDEs). The bosonic string in (2,2m-1) conformal minimal model backgrounds and the type 0A string in (2,4 m) superconformal minimal model backgrounds have the Korteweg-de Vries system, while type 0B in (2,4m) backgrounds has the Zakharov-Shabat system. The integrable PDE hierarchy governs flows between backgrounds with different m. In this thesis, we explore this interesting connection between minimal string theories and integrable hierarchies further. We uncover the remarkable role that an infinite hierarchy of non-linear differential equations plays in organizing and connecting certain minimal string theories non-perturbatively. We are able to embed the type 0A and 0B (A,A) minimal string theories into this single framework. The string theories arise as special limits of a rich system of equations underpinned by an integrable system known as the dispersive water wave hierarchy. We find that there are several other string-like limits of the system, and conjecture that some of them are type IIA and IIB (A,D) minimal string backgrounds. We explain how these and several other string-like special points arise and are connected. In some cases, the framework endows the theories with a non-perturbative definition for the first time. Notably, we discover that the Painleve IV equation plays a key role in organizing the string theory physics, joining its siblings, Painleve I and II, whose roles have previously been identified in this minimal string context. We then present evidence that the conjectured type II theories have smooth non-perturbative solutions, connecting two perturbative asymptotic regimes, in a 't Hooft limit. Our technique also demonstrates evidence for new minimal string theories that are not apparent in a perturbative analysis.

Dynamical AdS strings across horizons

DOE PAGES

Ishii, Takaaki; Murata, Keiju

2016-03-01

We examine the nonlinear classical dynamics of a fundamental string in anti-deSitter spacetime. The string is dual to the flux tube between an external quark-antiquark pair in $N = 4$ super Yang-Mills theory. We perturb the string by shaking the endpoints and compute its time evolution numerically. We find that with sufficiently strong perturbations the string continues extending and plunges into the Poincare´ horizon. In the evolution, effective horizons are also dynamically created on the string worldsheet. The quark and antiquark are thus causally disconnected, and the string transitions to two straight strings. The forces acting on the endpoints vanishmore » with a power law whose slope depends on the perturbations. Lastly, the condition for this transition to occur is that energy injection exceeds the static energy between the quark-antiquark pair.« less

Cosmic strings and the microwave sky. I - Anisotropy from moving strings

NASA Technical Reports Server (NTRS)

Stebbins, Albert

1988-01-01

A method is developed for calculating the component of the microwave anisotropy around cosmic string loops due to their rapidly changing gravitational fields. The method is only valid for impact parameters from the string much smaller than the horizon size at the time the photon passes the string. The method makes it possible to calculate the temperature pattern around arbitrary string configurations numerically in terms of one-dimensional integrals. This method is applied to temperature jump across a string, confirming and extending previous work. It is also applied to cusps and kinks on strings, and to determining the temperature pattern far from a strong loop. The temperature pattern around a few loop configurations is explicitly calculated. Comparisons with the work of Brandenberger et al. (1986) indicates that they have overestimated the MBR anisotropy from gravitational radiation emitted from loops.

Mesoscale Simulation and Machine Learning of Asphaltene Aggregation Phase Behavior and Molecular Assembly Landscapes.

PubMed

Wang, Jiang; Gayatri, Mohit A; Ferguson, Andrew L

2017-05-11

Asphaltenes constitute the heaviest fraction of the aromatic group in crude oil. Aggregation and precipitation of asphaltenes during petroleum processing costs the petroleum industry billions of dollars each year due to downtime and production inefficiencies. Asphaltene aggregation proceeds via a hierarchical self-assembly process that is well-described by the Yen-Mullins model. Nevertheless, the microscopic details of the emergent cluster morphologies and their relative stability under different processing conditions remain poorly understood. We perform coarse-grained molecular dynamics simulations of a prototypical asphaltene molecule to establish a phase diagram mapping the self-assembled morphologies as a function of temperature, pressure, and n-heptane:toluene solvent ratio informing how to control asphaltene aggregation by regulating external processing conditions. We then combine our simulations with graph matching and nonlinear manifold learning to determine low-dimensional free energy surfaces governing asphaltene self-assembly. In doing so, we introduce a variant of diffusion maps designed to handle data sets with large local density variations, and report the first application of many-body diffusion maps to molecular self-assembly to recover a pseudo-1D free energy landscape. Increasing pressure only weakly affects the landscape, serving only to destabilize the largest aggregates. Increasing temperature and toluene solvent fraction stabilizes small cluster sizes and loose bonding arrangements. Although the underlying molecular mechanisms differ, the strikingly similar effect of these variables on the free energy landscape suggests that toluene acts upon asphaltene self-assembly as an effective temperature.

The Development of a String Sight-Reading Pitch Skill Hierarchy

ERIC Educational Resources Information Center

Alexander, Michael L.; Henry, Michele L.

2012-01-01

This study was designed to determine a pitch skill hierarchy for string sight-reading, to determine the effects of key on string sight-reading achievement, and to determine the validity of a tonal pattern system as a measurement of melodic sight-reading skill for string players. High school string students (n = 94) obtained a mean score of 27.28…

Applying graph theory to protein structures: an atlas of coiled coils.

PubMed

Heal, Jack W; Bartlett, Gail J; Wood, Christopher W; Thomson, Andrew R; Woolfson, Derek N

2018-05-02

To understand protein structure, folding and function fully and to design proteins de novo reliably, we must learn from natural protein structures that have been characterised experimentally. The number of protein structures available is large and growing exponentially, which makes this task challenging. Indeed, computational resources are becoming increasingly important for classifying and analysing this resource. Here, we use tools from graph theory to define an atlas classification scheme for automatically categorising certain protein substructures. Focusing on the α-helical coiled coils, which are ubiquitous protein-structure and protein-protein interaction motifs, we present a suite of computational resources designed for analysing these assemblies. iSOCKET enables interactive analysis of side-chain packing within proteins to identify coiled coils automatically and with considerable user control. Applying a graph theory-based atlas classification scheme to structures identified by iSOCKET gives the Atlas of Coiled Coils, a fully automated, updated overview of extant coiled coils. The utility of this approach is illustrated with the first formal classification of an emerging subclass of coiled coils called α-helical barrels. Furthermore, in the Atlas, the known coiled-coil universe is presented alongside a partial enumeration of the 'dark matter' of coiled-coil structures; i.e., those coiled-coil architectures that are theoretically possible but have not been observed to date, and thus present defined targets for protein design. iSOCKET is available as part of the open-source GitHub repository associated with this work (https://github.com/woolfson-group/isocket). This repository also contains all the data generated when classifying the protein graphs. The Atlas of Coiled Coils is available at: http://coiledcoils.chm.bris.ac.uk/atlas/app.

Riding the Hype Wave: Evaluating new AI Techniques for their Applicability in Earth Science

NASA Astrophysics Data System (ADS)

Ramachandran, R.; Zhang, J.; Maskey, M.; Lee, T. J.

2016-12-01

Every few years a new technology rides the hype wave generated by the computer science community. Converts to this new technology who surface from both the science community and the informatics community promulgate that it can radically improve or even change the existing scientific process. Recent examples of new technology following in the footsteps of "big data" now include deep learning algorithms and knowledge graphs. Deep learning algorithms mimic the human brain and process information through multiple stages of transformation and representation. These algorithms are able to learn complex functions that map pixels directly to outputs without relying on human-crafted features and solve some of the complex classification problems that exist in science. Similarly, knowledge graphs aggregate information around defined topics that enable users to resolve their query without having to navigate and assemble information manually. Knowledge graphs could potentially be used in scientific research to assist in hypothesis formulation, testing, and review. The challenge for the Earth science research community is to evaluate these new technologies by asking the right questions and considering what-if scenarios. What is this new technology enabling/providing that is innovative and different? Can one justify the adoption costs with respect to the research returns? Since nothing comes for free, utilizing a new technology entails adoption costs that may outweigh the benefits. Furthermore, these technologies may require significant computing infrastructure in order to be utilized effectively. Results from two different projects will be presented along with lessons learned from testing these technologies. The first project primarily evaluates deep learning techniques for different applications of image retrieval within Earth science while the second project builds a prototype knowledge graph constructed for Hurricane science.

Probabilistic Survivability Versus Time Modeling

NASA Technical Reports Server (NTRS)

Joyner, James J., Sr.

2015-01-01

This technical paper documents Kennedy Space Centers Independent Assessment team work completed on three assessments for the Ground Systems Development and Operations (GSDO) Program to assist the Chief Safety and Mission Assurance Officer (CSO) and GSDO management during key programmatic reviews. The assessments provided the GSDO Program with an analysis of how egress time affects the likelihood of astronaut and worker survival during an emergency. For each assessment, the team developed probability distributions for hazard scenarios to address statistical uncertainty, resulting in survivability plots over time. The first assessment developed a mathematical model of probabilistic survivability versus time to reach a safe location using an ideal Emergency Egress System at Launch Complex 39B (LC-39B); the second used the first model to evaluate and compare various egress systems under consideration at LC-39B. The third used a modified LC-39B model to determine if a specific hazard decreased survivability more rapidly than other events during flight hardware processing in Kennedys Vehicle Assembly Building (VAB).Based on the composite survivability versus time graphs from the first two assessments, there was a soft knee in the Figure of Merit graphs at eight minutes (ten minutes after egress ordered). Thus, the graphs illustrated to the decision makers that the final emergency egress design selected should have the capability of transporting the flight crew from the top of LC 39B to a safe location in eight minutes or less. Results for the third assessment were dominated by hazards that were classified as instantaneous in nature (e.g. stacking mishaps) and therefore had no effect on survivability vs time to egress the VAB. VAB emergency scenarios that degraded over time (e.g. fire) produced survivability vs time graphs that were line with aerospace industry norms.

Physical cognition: birds learn the structural efficacy of nest material

PubMed Central

Bailey, Ida E.; Morgan, Kate V.; Bertin, Marion; Meddle, Simone L.; Healy, Susan D.

2014-01-01

It is generally assumed that birds’ choice of structurally suitable materials for nest building is genetically predetermined. Here, we tested that assumption by investigating whether experience affected male zebra finches’ (Taeniopygia guttata) choice of nest material. After a short period of building with relatively flexible string, birds preferred to build with stiffer string while those that had experienced a stiffer string were indifferent to string type. After building a complete nest with either string type, however, all birds increased their preference for stiff string. The stiffer string appeared to be the more effective building material as birds required fewer pieces of stiffer than flexible string to build a roofed nest. For birds that raised chicks successfully, there was no association between the material they used to build their nest and the type they subsequently preferred. Birds’ material preference reflected neither the preference of their father nor of their siblings but juvenile experience of either string type increased their preference for stiffer string. Our results represent two important advances: (i) birds choose nest material based on the structural properties of the material; (ii) nest material preference is not entirely genetically predetermined as both the type and amount of experience influences birds’ choices. PMID:24741011

Physical cognition: birds learn the structural efficacy of nest material.

PubMed

Bailey, Ida E; Morgan, Kate V; Bertin, Marion; Meddle, Simone L; Healy, Susan D

2014-06-07

It is generally assumed that birds' choice of structurally suitable materials for nest building is genetically predetermined. Here, we tested that assumption by investigating whether experience affected male zebra finches' (Taeniopygia guttata) choice of nest material. After a short period of building with relatively flexible string, birds preferred to build with stiffer string while those that had experienced a stiffer string were indifferent to string type. After building a complete nest with either string type, however, all birds increased their preference for stiff string. The stiffer string appeared to be the more effective building material as birds required fewer pieces of stiffer than flexible string to build a roofed nest. For birds that raised chicks successfully, there was no association between the material they used to build their nest and the type they subsequently preferred. Birds' material preference reflected neither the preference of their father nor of their siblings but juvenile experience of either string type increased their preference for stiffer string. Our results represent two important advances: (i) birds choose nest material based on the structural properties of the material; (ii) nest material preference is not entirely genetically predetermined as both the type and amount of experience influences birds' choices.

Text String Detection from Natural Scenes by Structure-based Partition and Grouping

PubMed Central

Yi, Chucai; Tian, YingLi

2012-01-01

Text information in natural scene images serves as important clues for many image-based applications such as scene understanding, content-based image retrieval, assistive navigation, and automatic geocoding. However, locating text from complex background with multiple colors is a challenging task. In this paper, we explore a new framework to detect text strings with arbitrary orientations in complex natural scene images. Our proposed framework of text string detection consists of two steps: 1) Image partition to find text character candidates based on local gradient features and color uniformity of character components. 2) Character candidate grouping to detect text strings based on joint structural features of text characters in each text string such as character size differences, distances between neighboring characters, and character alignment. By assuming that a text string has at least three characters, we propose two algorithms of text string detection: 1) adjacent character grouping method, and 2) text line grouping method. The adjacent character grouping method calculates the sibling groups of each character candidate as string segments and then merges the intersecting sibling groups into text string. The text line grouping method performs Hough transform to fit text line among the centroids of text candidates. Each fitted text line describes the orientation of a potential text string. The detected text string is presented by a rectangle region covering all characters whose centroids are cascaded in its text line. To improve efficiency and accuracy, our algorithms are carried out in multi-scales. The proposed methods outperform the state-of-the-art results on the public Robust Reading Dataset which contains text only in horizontal orientation. Furthermore, the effectiveness of our methods to detect text strings with arbitrary orientations is evaluated on the Oriented Scene Text Dataset collected by ourselves containing text strings in non-horizontal orientations. PMID:21411405

Text string detection from natural scenes by structure-based partition and grouping.

PubMed

Yi, Chucai; Tian, YingLi

2011-09-01

Text information in natural scene images serves as important clues for many image-based applications such as scene understanding, content-based image retrieval, assistive navigation, and automatic geocoding. However, locating text from a complex background with multiple colors is a challenging task. In this paper, we explore a new framework to detect text strings with arbitrary orientations in complex natural scene images. Our proposed framework of text string detection consists of two steps: 1) image partition to find text character candidates based on local gradient features and color uniformity of character components and 2) character candidate grouping to detect text strings based on joint structural features of text characters in each text string such as character size differences, distances between neighboring characters, and character alignment. By assuming that a text string has at least three characters, we propose two algorithms of text string detection: 1) adjacent character grouping method and 2) text line grouping method. The adjacent character grouping method calculates the sibling groups of each character candidate as string segments and then merges the intersecting sibling groups into text string. The text line grouping method performs Hough transform to fit text line among the centroids of text candidates. Each fitted text line describes the orientation of a potential text string. The detected text string is presented by a rectangle region covering all characters whose centroids are cascaded in its text line. To improve efficiency and accuracy, our algorithms are carried out in multi-scales. The proposed methods outperform the state-of-the-art results on the public Robust Reading Dataset, which contains text only in horizontal orientation. Furthermore, the effectiveness of our methods to detect text strings with arbitrary orientations is evaluated on the Oriented Scene Text Dataset collected by ourselves containing text strings in nonhorizontal orientations.

How to simulate global cosmic strings with large string tension

DOE Office of Scientific and Technical Information (OSTI.GOV)

Klaer, Vincent B.; Moore, Guy D., E-mail: vklaer@theorie.ikp.physik.tu-darmstadt.de, E-mail: guy.moore@physik.tu-darmstadt.de

Global string networks may be relevant in axion production in the early Universe, as well as other cosmological scenarios. Such networks contain a large hierarchy of scales between the string core scale and the Hubble scale, ln( f {sub a} / H ) ∼ 70, which influences the network dynamics by giving the strings large tensions T ≅ π f {sub a} {sup 2} ln( f {sub a} / H ). We present a new numerical approach to simulate such global string networks, capturing the tension without an exponentially large lattice.

Closed timelike curves produced by pairs of moving cosmic strings - Exact solutions

NASA Technical Reports Server (NTRS)

Gott, J. Richard, III

1991-01-01

Exact solutions of Einstein's field equations are presented for the general case of two moving straight cosmic strings that do not intersect. The solutions for parallel cosmic strings moving in opposite directions show closed timelike curves (CTCs) that circle the two strings as they pass, allowing observers to visit their own past. Similar results occur for nonparallel strings, and for masses in (2+1)-dimensional spacetime. For finite string loops the possibility that black-hole formation may prevent the formation of CTCs is discussed.

Coulomb string tension, asymptotic string tension, and the gluon chain

DOE PAGES

Greensite, Jeff; Szczepaniak, Adam P.

2015-02-01

We compute, via numerical simulations, the non-perturbative Coulomb potential and position-space ghost propagator in pure SU(3) gauge theory in Coulomb gauge. We find that that the Coulomb potential scales nicely in accordance with asymptotic freedom, that the Coulomb potential is linear in the infrared, and that the Coulomb string tension is about four times larger than the asymptotic string tension. We explain how it is possible that the asymptotic string tension can be lower than the Coulomb string tension by a factor of four.

Simulation of swimming strings immersed in a viscous fluid flow

NASA Astrophysics Data System (ADS)

Huang, Wei-Xi; Sung, Hyung Jin

2006-11-01

In nature, many phenomena involve interactions between flexible bodies and their surrounding viscous fluid, such as a swimming fish or a flapping flag. The intrinsic dynamics is complicate and not well understood. A flexible string can be regarded as a one-dimensional flag model. Many similarities can be found between the flapping string and swimming fish, although different wake speed results in a drag force for the flapping string and a propulsion force for the swimming fish. In the present study, we propose a mathematical formulation for swimming strings immersed in a viscous fluid flow. Fluid motion is governed by the Navier-Stokes equations and a momentum forcing is added in order to bring the fluid to move at the same velocity with the immersed surface. A flexible inextensible string model is described by another set of equations with an additional momentum forcing which is a result of the fluid viscosity and the pressure difference across the string. The momentum forcing is calculated by a feedback loop. Simulations of several numerical examples are carried out, including a hanging string which starts moving under gravity without ambient fluid, a swinging string immersed in a quiescent viscous fluid, a string swimming within a uniform surrounding flow, and flow over two side-by-side strings. The numerical results agree well with the theoretical analysis and previous experimental observations. Further simulation of a swimming fish is under consideration.

Noncommutative Field Theories and (super)string Field Theories

NASA Astrophysics Data System (ADS)

Aref'eva, I. Ya.; Belov, D. M.; Giryavets, A. A.; Koshelev, A. S.; Medvedev, P. B.

2002-11-01

In this lecture notes we explain and discuss some ideas concerning noncommutative geometry in general, as well as noncommutative field theories and string field theories. We consider noncommutative quantum field theories emphasizing an issue of their renormalizability and the UV/IR mixing. Sen's conjectures on open string tachyon condensation and their application to the D-brane physics have led to wide investigations of the covariant string field theory proposed by Witten about 15 years ago. We review main ingredients of cubic (super)string field theories using various formulations: functional, operator, conformal and the half string formalisms. The main technical tools that are used to study conjectured D-brane decay into closed string vacuum through the tachyon condensation are presented. We describe also methods which are used to study the cubic open string field theory around the tachyon vacuum: construction of the sliver state, "comma" and matrix representations of vertices.

Gravitational lensing effects of vacuum strings - Exact solutions

NASA Technical Reports Server (NTRS)

Gott, J. R., III

1985-01-01

Exact interior and exterior solutions to Einstein's field equations are derived for vacuum strings. The exterior solution for a uniform density vacuum string corresponds to a conical space while the interior solution is that of a spherical cap. For Mu equals 0-1/4 the external metric is ds-squared = -dt-squared + dr-squared + (1-4 Mu)-squared r-squared dphi-squared + dz-squared, where Mu is the mass per unit length in the string in Planck masses per Planck length. A maximum mass per unit length for a string is 6.73 x 10 to the 27th g/cm. It is shown that strings cause temperature fluctuations in the cosmic microwave background and produce equal brightness double QSO images separated by up to several minutes of arc. Formulae for lensing probabilities, image splittings, and time delays are derived for strings in a realistic cosmological setting. String searches using ST, the VLA, and the COBE satellite are discussed.

Fitting cosmic microwave background data with cosmic strings and inflation.

PubMed

Bevis, Neil; Hindmarsh, Mark; Kunz, Martin; Urrestilla, Jon

2008-01-18

We perform a multiparameter likelihood analysis to compare measurements of the cosmic microwave background (CMB) power spectra with predictions from models involving cosmic strings. Adding strings to the standard case of a primordial spectrum with power-law tilt ns, we find a 2sigma detection of strings: f10=0.11+/-0.05, where f10 is the fractional contribution made by strings in the temperature power spectrum (at l=10). CMB data give moderate preference to the model ns=1 with cosmic strings over the standard zero-strings model with variable tilt. When additional non-CMB data are incorporated, the two models become on a par. With variable ns and these extra data, we find that f10<0.11, which corresponds to Gmicro<0.7x10(-6) (where micro is the string tension and G is the gravitational constant).

Sequential Monte Carlo for Maximum Weight Subgraphs with Application to Solving Image Jigsaw Puzzles.

PubMed

Adluru, Nagesh; Yang, Xingwei; Latecki, Longin Jan

2015-05-01

We consider a problem of finding maximum weight subgraphs (MWS) that satisfy hard constraints in a weighted graph. The constraints specify the graph nodes that must belong to the solution as well as mutual exclusions of graph nodes, i.e., pairs of nodes that cannot belong to the same solution. Our main contribution is a novel inference approach for solving this problem in a sequential monte carlo (SMC) sampling framework. Usually in an SMC framework there is a natural ordering of the states of the samples. The order typically depends on observations about the states or on the annealing setup used. In many applications (e.g., image jigsaw puzzle problems), all observations (e.g., puzzle pieces) are given at once and it is hard to define a natural ordering. Therefore, we relax the assumption of having ordered observations about states and propose a novel SMC algorithm for obtaining maximum a posteriori estimate of a high-dimensional posterior distribution. This is achieved by exploring different orders of states and selecting the most informative permutations in each step of the sampling. Our experimental results demonstrate that the proposed inference framework significantly outperforms loopy belief propagation in solving the image jigsaw puzzle problem. In particular, our inference quadruples the accuracy of the puzzle assembly compared to that of loopy belief propagation.

Sequential Monte Carlo for Maximum Weight Subgraphs with Application to Solving Image Jigsaw Puzzles

PubMed Central

Adluru, Nagesh; Yang, Xingwei; Latecki, Longin Jan

2015-01-01

We consider a problem of finding maximum weight subgraphs (MWS) that satisfy hard constraints in a weighted graph. The constraints specify the graph nodes that must belong to the solution as well as mutual exclusions of graph nodes, i.e., pairs of nodes that cannot belong to the same solution. Our main contribution is a novel inference approach for solving this problem in a sequential monte carlo (SMC) sampling framework. Usually in an SMC framework there is a natural ordering of the states of the samples. The order typically depends on observations about the states or on the annealing setup used. In many applications (e.g., image jigsaw puzzle problems), all observations (e.g., puzzle pieces) are given at once and it is hard to define a natural ordering. Therefore, we relax the assumption of having ordered observations about states and propose a novel SMC algorithm for obtaining maximum a posteriori estimate of a high-dimensional posterior distribution. This is achieved by exploring different orders of states and selecting the most informative permutations in each step of the sampling. Our experimental results demonstrate that the proposed inference framework significantly outperforms loopy belief propagation in solving the image jigsaw puzzle problem. In particular, our inference quadruples the accuracy of the puzzle assembly compared to that of loopy belief propagation. PMID:26052182

Detecting higher-order interactions among the spiking events in a group of neurons.

PubMed

Martignon, L; Von Hasseln, H; Grün, S; Aertsen, A; Palm, G

1995-06-01

We propose a formal framework for the description of interactions among groups of neurons. This framework is not restricted to the common case of pair interactions, but also incorporates higher-order interactions, which cannot be reduced to lower-order ones. We derive quantitative measures to detect the presence of such interactions in experimental data, by statistical analysis of the frequency distribution of higher-order correlations in multiple neuron spike train data. Our first step is to represent a frequency distribution as a Markov field on the minimal graph it induces. We then show the invariance of this graph with regard to changes of state. Clearly, only linear Markov fields can be adequately represented by graphs. Higher-order interdependencies, which are reflected by the energy expansion of the distribution, require more complex graphical schemes, like constellations or assembly diagrams, which we introduce and discuss. The coefficients of the energy expansion not only point to the interactions among neurons but are also a measure of their strength. We investigate the statistical meaning of detected interactions in an information theoretic sense and propose minimum relative entropy approximations as null hypotheses for significance tests. We demonstrate the various steps of our method in the situation of an empirical frequency distribution on six neurons, extracted from data on simultaneous multineuron recordings from the frontal cortex of a behaving monkey and close with a brief outlook on future work.

NASA Goddard Space Flight Center Robotic Processing System Program Automation Systems, volume 2

NASA Technical Reports Server (NTRS)

Dobbs, M. E.

1991-01-01

Topics related to robot operated materials processing in space (RoMPS) are presented in view graph form. Some of the areas covered include: (1) mission requirements; (2) automation management system; (3) Space Transportation System (STS) Hitchhicker Payload; (4) Spacecraft Command Language (SCL) scripts; (5) SCL software components; (6) RoMPS EasyLab Command & Variable summary for rack stations and annealer module; (7) support electronics assembly; (8) SCL uplink packet definition; (9) SC-4 EasyLab System Memory Map; (10) Servo Axis Control Logic Suppliers; and (11) annealing oven control subsystem.

Selected basin characteristics and water-quality data of the Minnesota River basin

USGS Publications Warehouse

Winterstein, T.A.; Payne, G.A.; Miller, R.A.; Stark, J.R.

1993-01-01

Selected basin characteristics and water-quality dam for the Minnesota River Basin are presented in this report as 71 maps, 22 graphs, and 8 tables. The data were compiled as part of a four-year study to identify non-point sources of pollution and the effect of this pollution on water quality. The maps were prepared from geographic information system data bases. Federal, State, and local agencies, and colleges and universities collected and assembled these data as part of the Minnesota River Assessment Project.

Gluon structure function of a color dipole in the light-cone limit of lattice QCD

NASA Astrophysics Data System (ADS)

Grünewald, D.; Ilgenfritz, E.-M.; Pirner, H. J.

2009-10-01

We calculate the gluon structure function of a color dipole in near-light-cone SU(2) lattice QCD as a function of xB. The quark and antiquark are external nondynamical degrees of freedom which act as sources of the gluon string configuration defining the dipole. We compute the color dipole matrix element of transversal chromo-electric and chromo-magnetic field operators separated along a direction close to the light cone, the Fourier transform of which is the gluon structure function. As vacuum state in the pure glue sector, we use a variational ground state of the near-light-cone Hamiltonian. We derive a recursion relation for the gluon structure function on the lattice similar to the perturbative Dokshitzer-Gribov-Lipatov-Altarelli-Parisi equation. It depends on the number of transversal links assembling the Schwinger string of the dipole. Fixing the mean momentum fraction of the gluons to the “experimental value” in a proton, we compare our gluon structure function for a dipole state with four links with the next-to-leading-order MRST 2002 and the CTEQ AB-0 parametrizations at Q2=1.5GeV2. Within the systematic uncertainty we find rather good agreement. We also discuss the low xB behavior of the gluon structure function in our model calculation.

Recent progress of Spectrolab high-efficiency space solar cells

NASA Astrophysics Data System (ADS)

Law, Daniel C.; Boisvert, J. C.; Rehder, E. M.; Chiu, P. T.; Mesropian, S.; Woo, R. L.; Liu, X. Q.; Hong, W. D.; Fetzer, C. M.; Singer, S. B.; Bhusari, D. M.; Edmondson, K. M.; Zakaria, A.; Jun, B.; Krut, D. D.; King, R. R.; Sharma, S. K.; Karam, N. H.

2013-09-01

Recent progress in III-V multijunction space solar cell has led to Spectrolab's GaInP/GaAs/Ge triple-junction, XTJ, cells with average 1-sun efficiency of 29% (AM0, 28°C) for cell size ranging from 59 to 72-cm2. High-efficiency inverted metamorphic (IMM) multijunction cells are developed as the next space solar cell architecture. Spectrolab's large-area IMM3J and IMM4J cells have achieved 33% and 34% 1-sun, AM0 efficiencies, respectively. The IMM3J and the IMM4J cells have both demonstrated normalized power retention of 0.86 at 5x1014 e-/cm2 fluence and 0.83 and 0.82 at 1x1015 e-/cm2 fluence post 1-MeV electron radiation, respectively. The IMM cells were further assembled into coverglass-interconnect-cell (CIC) strings and affixed to typical rigid aluminum honeycomb panels for thermal cycling characterization. Preliminary temperature cycling data of two coupons populated with IMM cell strings showed no performance degradation. Spectrolab has also developed semiconductor bonded technology (SBT) where highperformance component subcells were grown on GaAs and InP substrates separately then bonded directly to form the final multijunction cells. Large-area SBT 5-junction cells have achieved a 35.1% efficiency under 1-sun, AM0 condition.

Modal analysis of a nonuniform string with end mass and variable tension

NASA Technical Reports Server (NTRS)

Rheinfurth, M. H.; Galaboff, Z. J.

1983-01-01

Modal synthesis techniques for dynamic systems containing strings describe the lateral displacements of these strings by properly chosen shape functions. An iterative algorithm is provided to calculate the natural modes of a nonuniform string and variable tension for some typical boundary conditions including one end mass. Numerical examples are given for a string in a constant and a gravity gradient force field.

Self-energy and self-force in the space-time of a thick cosmic string

NASA Astrophysics Data System (ADS)

Khusnutdinov, N. R.; Bezerra, V. B.

2001-10-01

We calculate the self-energy and self-force for an electrically charged particle at rest in the background of Gott-Hiscock cosmic string space-time. We find the general expression for the self-energy which is expressed in terms of the S matrix of the scattering problem. The self-energy continuously falls down outward from the string's center with the maximum at the origin of the string. The self-force is repulsive for an arbitrary position of the particle. It tends to zero in the string's center and also far from the string and it has a maximum value at the string's surface. The plots of the numerical calculations of the self-energy and self-force are shown.

The implications of the COBE diffuse microwave radiation results for cosmic strings

NASA Technical Reports Server (NTRS)

Bennett, David P.; Stebbins, Albert; Bouchet, Francois R.

1992-01-01

We compare the anisotropies in the cosmic microwave background radiation measured by the COBE experiment to those predicted by cosmic string theories. We use an analytic model for the Delta T/T power spectrum that is based on our previous numerical simulations of strings, under the assumption that cosmic strings are the sole source of the measured anisotropy. This implies a value for the string mass per unit length of 1.5 +/- 0.5 x 10 exp -6 C-squared/G. This is within the range of values required for cosmic strings to successfully seed the formation of large-scale structures in the universe. These results clearly encourage further studies of Delta T/T and large-scale structure in the cosmic string model.

Identification of market trends with string and D2-brane maps

NASA Astrophysics Data System (ADS)

Bartoš, Erik; Pinčák, Richard

2017-08-01

The multidimensional string objects are introduced as a new alternative for an application of string models for time series forecasting in trading on financial markets. The objects are represented by open string with 2-endpoints and D2-brane, which are continuous enhancement of 1-endpoint open string model. We show how new object properties can change the statistics of the predictors, which makes them the candidates for modeling a wide range of time series systems. String angular momentum is proposed as another tool to analyze the stability of currency rates except the historical volatility. To show the reliability of our approach with application of string models for time series forecasting we present the results of real demo simulations for four currency exchange pairs.

Mechanism of Tennis Racket Spin Performance

NASA Astrophysics Data System (ADS)

Kawazoe, Yoshihiko; Okimoto, Kenji; Okimoto, Keiko

Players often say that some strings provide a better grip and more spin than others, but ball spin did not depend on string type, gauge, or tension in pervious laboratory experiments. There was no research work on spin to uncover what is really happening during an actual tennis impact because of the difficulty of performing the appropriate experiments. The present paper clarified the mechanism of top spin and its improvement by lubrication of strings through the use of high-speed video analysis. It also provided a more detailed explanation of spin behavior by comparing a racket with lubricated strings with the famous “spaghetti” strung racket, which was banned in 1978 by the International Tennis Federation because it used plastic spaghetti tubing over the strings to reduce friction, resulting in excessive ball spin. As the main strings stretch and slide sideways more, the ball is given additional spin due to the restoring force parallel to the string face when the main strings spring back and the ball is released from the strings. Herein, we also showed that the additional spin results in a reduction of shock vibrations of the wrist joint during impact.

Two Studies of Pitch in String Instrument Vibrato: Perception and Pitch Matching Responses of University and High School String Players

ERIC Educational Resources Information Center

Geringer, John M.; MacLeod, Rebecca B.; Ellis, Julia C.

2014-01-01

We investigated pitch perception of string vibrato tones among string players in two separate studies. In both studies we used tones of acoustic instruments (violin and cello) as stimuli. In the first, we asked 192 high school and university string players to listen to a series of tonal pairs: one tone of each pair was performed with vibrato and…

Geometric phase for a static two-level atom in cosmic string spacetime

NASA Astrophysics Data System (ADS)

Cai, Huabing; Ren, Zhongzhou

2018-05-01

We investigate the geometric phase of a static two-level atom immersed in a bath of fluctuating vacuum electromagnetic field in the background of a cosmic string. Our results indicate that due to the existence of the string, the geometric phase depends crucially on the position and the polarizability of the atom relative to the string. This can be ascribed to the fact that the presence of the string profoundly modify the distribution of electric field in Minkowski spacetime. So in principle, we can detect the cosmic string by experiments involving geometric phase.

Current balancing for battery strings

DOEpatents

Galloway, James H.

1985-01-01

A battery plant is described which features magnetic circuit means for balancing the electrical current flow through a pluraliircuitbattery strings which are connected electrically in parallel. The magnetic circuit means is associated with the battery strings such that the conductors carrying the electrical current flow through each of the battery strings pass through the magnetic circuit means in directions which cause the electromagnetic fields of at least one predetermined pair of the conductors to oppose each other. In an alternative embodiment, a low voltage converter is associated with each of the battery strings for balancing the electrical current flow through the battery strings.

Constraints on cosmic strings due to black holes formed from collapsed cosmic string loops

NASA Technical Reports Server (NTRS)

Caldwell, R. R.; Gates, Evalyn

1993-01-01

The cosmological features of primordial black holes formed from collapsed cosmic string loops are studied. Observational restrictions on a population of primordial black holes are used to restrict f, the fraction of cosmic string loops which collapse to form black holes, and mu, the cosmic string mass-per-unit length. Using a realistic model of cosmic strings, we find the strongest restriction on the parameters f and mu is due to the energy density in 100MeV photons radiated by the black holes. We also find that inert black hole remnants cannot serve as the dark matter. If earlier, crude estimates of f are reliable, our results severely restrict mu, and therefore limit the viability of the cosmic string large-scale structure scenario.

Stochastic gravitational wave background from light cosmic strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

DePies, Matthew R.; Hogan, Craig J.

2007-06-15

Spectra of the stochastic gravitational wave backgrounds from cosmic strings are calculated and compared with present and future experimental limits. Motivated by theoretical expectations of light cosmic strings in superstring cosmology, improvements in experimental sensitivity, and recent demonstrations of large, stable loop formation from a primordial network, this study explores a new range of string parameters with masses lighter than previously investigated. A standard 'one-scale' model for string loop formation is assumed. Background spectra are calculated numerically for dimensionless string tensions G{mu}/c{sup 2} between 10{sup -7} and 10{sup -18}, and initial loop sizes as a fraction of the Hubble radiusmore » {alpha} from 0.1 to 10{sup -6}. The spectra show a low frequency power-law tail, a broad spectral peak due to loops decaying at the present epoch (including frequencies higher than their fundamental mode, and radiation associated with cusps), and a flat (constant energy density) spectrum at high frequencies due to radiation from loops that decayed during the radiation-dominated era. The string spectrum is distinctive and unlike any other known source. The peak of the spectrum for light strings appears at high frequencies, significantly affecting predicted signals. The spectra of the cosmic string backgrounds are compared with current millisecond pulsar limits and Laser Interferometer Space Antenna (LISA) sensitivity curves. For models with large stable loops ({alpha}=0.1), current pulsar-timing limits exclude G{mu}/c{sup 2}>10{sup -9}, a much tighter limit on string tension than achievable with other techniques, and within the range of current models based on brane inflation. LISA may detect a background from strings as light as G{mu}/c{sup 2}{approx_equal}10{sup -16}, corresponding to field theory strings formed at roughly 10{sup 11} GeV.« less

CMB ISW-lensing bispectrum from cosmic strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yamauchi, Daisuke; Sendouda, Yuuiti; Takahashi, Keitaro, E-mail: yamauchi@resceu.s.u-tokyo.ac.jp, E-mail: sendouda@cc.hirosaki-u.ac.jp, E-mail: keitaro@sci.kumamoto-u.ac.jp

2014-02-01

We study the effect of weak lensing by cosmic (super-)strings on the higher-order statistics of the cosmic microwave background (CMB). A cosmic string segment is expected to cause weak lensing as well as an integrated Sachs-Wolfe (ISW) effect, the so-called Gott-Kaiser-Stebbins (GKS) effect, to the CMB temperature fluctuation, which are thus naturally cross-correlated. We point out that, in the presence of such a correlation, yet another kind of the post-recombination CMB temperature bispectra, the ISW-lensing bispectra, will arise in the form of products of the auto- and cross-power spectra. We first present an analytic method to calculate the autocorrelation ofmore » the temperature fluctuations induced by the strings, and the cross-correlation between the temperature fluctuation and the lensing potential both due to the string network. In our formulation, the evolution of the string network is assumed to be characterized by the simple analytic model, the velocity-dependent one scale model, and the intercommutation probability is properly incorporated in order to characterize the possible superstringy nature. Furthermore, the obtained power spectra are dominated by the Poisson-distributed string segments, whose correlations are assumed to satisfy the simple relations. We then estimate the signal-to-noise ratios of the string-induced ISW-lensing bispectra and discuss the detectability of such CMB signals from the cosmic string network. It is found that in the case of the smaller string tension, Gμ << 10{sup -7}, the ISW-lensing bispectrum induced by a cosmic string network can constrain the string-model parameters even more tightly than the purely GKS-induced bispectrum in the ongoing and future CMB observations on small scales.« less

CMB ISW-lensing bispectrum from cosmic strings

NASA Astrophysics Data System (ADS)

Yamauchi, Daisuke; Sendouda, Yuuiti; Takahashi, Keitaro

2014-02-01

We study the effect of weak lensing by cosmic (super-)strings on the higher-order statistics of the cosmic microwave background (CMB). A cosmic string segment is expected to cause weak lensing as well as an integrated Sachs-Wolfe (ISW) effect, the so-called Gott-Kaiser-Stebbins (GKS) effect, to the CMB temperature fluctuation, which are thus naturally cross-correlated. We point out that, in the presence of such a correlation, yet another kind of the post-recombination CMB temperature bispectra, the ISW-lensing bispectra, will arise in the form of products of the auto- and cross-power spectra. We first present an analytic method to calculate the autocorrelation of the temperature fluctuations induced by the strings, and the cross-correlation between the temperature fluctuation and the lensing potential both due to the string network. In our formulation, the evolution of the string network is assumed to be characterized by the simple analytic model, the velocity-dependent one scale model, and the intercommutation probability is properly incorporated in order to characterize the possible superstringy nature. Furthermore, the obtained power spectra are dominated by the Poisson-distributed string segments, whose correlations are assumed to satisfy the simple relations. We then estimate the signal-to-noise ratios of the string-induced ISW-lensing bispectra and discuss the detectability of such CMB signals from the cosmic string network. It is found that in the case of the smaller string tension, Gμ << 10-7, the ISW-lensing bispectrum induced by a cosmic string network can constrain the string-model parameters even more tightly than the purely GKS-induced bispectrum in the ongoing and future CMB observations on small scales.

Ghost vertices for the bosonic string using the group-theoretic approach to string theory

NASA Astrophysics Data System (ADS)

Freeman, M. D.; West, P.

1988-04-01

The N-string tree-level scattering vertices for the bosonic string are extended to include anticommuting (ghost) oscillators. These vertices behave correctly under the action of the BRST charge Q and reproduce the known results for the scattering of physical states. This work is an application of the group-theoretic approach to string theory. Permanent address: Mathematics Department, King's College, Strand, London WC2R 2LS, UK.

Practice of the Education for the Principle of Otto Cycle by the E-Learning CG-Content

NASA Astrophysics Data System (ADS)

Sato, Tomoaki; Nagaoka, Keizo; Oguchi, Kosei

A CG-animation content which supports the learning of the Otto cycle was developed. This content has a piston assembly and the diagrams of PV, VS, TP and TS. The each diagram has a pointer which moves along the line of the graph and they are synchronized with the movement of the piston. The learners can operate this content directly on the e-learning system. While watching the movements of the piston assembly, the learners can confirm the state of the engine about temperature, pressure, volume, and entropy by the synchronized pointer on the diagrams. This content was used for the class of the machining practice exercise. The learning effect of the content was examined by the score of the short test. As the result of this examination, the CG-animation content was effective in the learning of the Otto cycle.

Combinatorial codon scrambling enables scalable gene synthesis and amplification of repetitive proteins

NASA Astrophysics Data System (ADS)

Tang, Nicholas C.; Chilkoti, Ashutosh

2016-04-01

Most genes are synthesized using seamless assembly methods that rely on the polymerase chain reaction (PCR). However, PCR of genes encoding repetitive proteins either fails or generates nonspecific products. Motivated by the need to efficiently generate new protein polymers through high-throughput gene synthesis, here we report a codon-scrambling algorithm that enables the PCR-based gene synthesis of repetitive proteins by exploiting the codon redundancy of amino acids and finding the least-repetitive synonymous gene sequence. We also show that the codon-scrambling problem is analogous to the well-known travelling salesman problem, and obtain an exact solution to it by using De Bruijn graphs and a modern mixed integer linear programme solver. As experimental proof of the utility of this approach, we use it to optimize the synthetic genes for 19 repetitive proteins, and show that the gene fragments are amenable to PCR-based gene assembly and recombinant expression.

String Things.

ERIC Educational Resources Information Center

Mesa Public Schools, AZ.

Designed for music educators instructing grades 4 through 8 in string instruments, this Mesa (Arizona) public schools guide presents information on the string curriculum, orchestras, and practicing. The goals and objectives for string instruments delineate grade levels and how student skills will be verified. Following 17 curriculum goal tests,…

Embellished String Prints. Cover Story.

ERIC Educational Resources Information Center

Smith, Mary Ruth

1999-01-01

Focuses on a printmaking activity in which students create embellished string prints using the relief process of string glued to chip board. Explains that string prints can easily be embellished with oil pastels. Provides a description of the procedure and a list of materials and methods. (CMK)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Marolf, Donald; Palmer, Belkis Cabrera; Physics Department, Syracuse University, Syracuse, New York 13244

A thermodynamic argument is presented suggesting that near-extremal spinning D1-D5-P black strings become unstable when their angular momentum exceeds J{sub crit}=3Q{sub 1}Q{sub 5}/2{radical}(2). In contrast, the dimensionally reduced black holes are thermodynamically stable. The proposed instability involves a phase in which the spin angular momentum above J{sub crit} is transferred to gyration of the string in space, i.e., to orbital angular momentum of parts of the string about the mean location in space. Thus the string becomes a rotating helical coil. We note that an instability of this form would yield a counter-example to the Gubser-Mitra conjecture, which proposes amore » particular link between dynamic black string instabilities and the thermodynamics of black strings. There may also be other instabilities associated with radiation modes of various fields. Our arguments also apply to the D-brane bound states associated with these black strings in weakly coupled string theory.« less

Superconducting Prototype Cavities for the Spallation Neutron Source (SNS) Project

DOE Office of Scientific and Technical Information (OSTI.GOV)

G. Ciovati; P. Kneisel; K. Davis

2002-06-01

The Spallation Neutron Source project includes a superconducting linac section in the energy range from 186 MeV to 1000 MeV operating at a frequency of 805 MHz at 2.1 K. For this energy range two types of cavities are needed with geometrical Beta-values of Beta=0.61 and Beta=0.81. An aggressive cavity prototyping program is being pursued at JLab, which calls for fabricating and testing of four Beta=0.61 cavities and two Beta=0.81 cavities. Both types consist of six cells made from high purity niobium and feature one HOM coupler of the TESLA type on each beam pipe and a port for amore » high power coaxial input coupler. Three of the four Beta=0.61 cavities will be used for a cryomodule test in early 2002. At this time, four medium beta cavities and one high beta cavity have been completed and tested at JLab. In addition, the three medium beta cavities for the prototype cryomodule have been equipped with the integrated Ti-Helium vessel, successfully retested and will be assembled into a cavity string. Results from the cryo-module test should be available by the time of the conference. The tests on the Beta=0.61 cavity and the Beta=0.81 cavity exceeded the design values for gradient and Q - value: E{sub acc} =10.1 MV/m and Q = 5 x 10{sup 9} at 2.1K for Beta=0.61 and E{sub acc} = 12.3 MV/m and Q=5 x 10{sup 9} at 2.1K for Beta = 0.81. The medium beta cavities reached gradients between E{sub acc} = 15 MV/m and 21 MV/m. This paper will describe the test results obtained with the various cavities, some aspects of the HOM damping at cryogenic temperatures, results from microphonics and Lorentz force detuning tests and the cavity string assembly at the time of this workshop.« less

Semiclassical (qft) and Quantum (string) Rotating Black Holes and Their Evaporation:. New Results

NASA Astrophysics Data System (ADS)

Bouchareb, A.; Ramón Medrano, M.; Sánchez, N. G.

Combination of both quantum field theory (QFT) and string theory in curved backgrounds in a consistent framework, the string analogue model, allows us to provide a full picture of the Kerr-Newman black hole and its evaporation going beyond the current picture. We compute the quantum emission cross-section of strings by a Kerr-Newman black hole (KNbh). It shows the black hole emission at the Hawking temperature Tsem in the early stage of evaporation and the new string emission featuring a Hagedorn transition into a string state of temperature Ts at the last stages. New bounds on J and Q emerge in the quantum string regime (besides the known ones of the classical/semiclassical QFT regime). The last state of evaporation of a semiclassical Kerr-Newman black hole with mass M > mPl, angular momentum J and charge Q is a string state of temperature Ts, string mass Ms, J = 0 and Q = 0, decaying as usual quantum strings do into all kinds of particles. (Naturally, in this framework, there is no loss of information, (there is no paradox at all).) We compute the string entropy Ss(m, j) from the microscopic string density of states of mass m and spin mode j, ρ(m, j). (Besides the Hagedorn transition at Ts) we find for high j (extremal string states j → m2α‧c), a new phase transition at a temperature Tsj = √ {j/hbar }Ts, higher than Ts. By precisely identifying the semiclassical and quantum (string) gravity regimes, we find a new formula for the Kerr black hole entropy Ssem(M, J), as a function of the usual Bekenstein-Hawking entropy S sem(0). For M ≫ mPl and J < GM2/c, S sem(0) is the leading term, but for high angular momentum, (nearly extremal case J = GM2/c), a gravitational phase transition operates and the whole entropy Ssem is drastically different from the Bekenstein-Hawking entropy S sem(0). This new extremal black hole transition occurs at a temperature Tsem J = (J/ℏ)Tsem, higher than the Hawking temperature Tsem.

Light Z' in heterotic string standardlike models

NASA Astrophysics Data System (ADS)

Athanasopoulos, P.; Faraggi, A. E.; Mehta, V. M.

2014-05-01

The discovery of the Higgs boson at the LHC supports the hypothesis that the Standard Model provides an effective parametrization of all subatomic experimental data up to the Planck scale. String theory, which provides a viable perturbative approach to quantum gravity, requires for its consistency the existence of additional gauge symmetries beyond the Standard Model. The construction of heterotic string models with a viable light Z' is, however, highly constrained. We outline the construction of standardlike heterotic string models that allow for an additional Abelian gauge symmetry that may remain unbroken down to low scales. We present a string inspired model, consistent with the string constraints.

Scaling properties of cosmic (super)string networks

NASA Astrophysics Data System (ADS)

Martins, C. J. A. P.

2014-10-01

I use a combination of state-of-the-art numerical simulations and analytic modelling to discuss the scaling properties of cosmic defect networks, including superstrings. Particular attention is given to the role of extra degrees of freedom in the evolution of these networks. Compared to the 'plain vanilla' case of Goto-Nambu strings, three such extensions play important but distinct roles in the network dynamics: the presence of charges/currents on the string worldsheet, the existence of junctions, and the possibility of a hierarchy of string tensions. I also comment on insights gained from studying simpler defect networks, including Goto-Nambu strings themselves, domain walls and semilocal strings.

Evolution of cosmic string networks

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Turok, Neil

1989-01-01

A discussion of the evolution and observable consequences of a network of cosmic strings is given. A simple model for the evolution of the string network is presented, and related to the statistical mechanics of string networks. The model predicts the long string density throughout the history of the universe from a single parameter, which researchers calculate in radiation era simulations. The statistical mechanics arguments indicate a particular thermal form for the spectrum of loops chopped off the network. Detailed numerical simulations of string networks in expanding backgrounds are performed to test the model. Consequences for large scale structure, the microwave and gravity wave backgrounds, nucleosynthesis and gravitational lensing are calculated.

Gödel universes in string theory

NASA Astrophysics Data System (ADS)

Barrow, John D.; Dabrowski, Mariusz P.

1998-11-01

We show that homogeneous Gödel spacetimes need not contain closed timelike curves in low-energy-effective string theories. We find exact solutions for the Gödel metric in string theory for the full O(α') action including both dilaton and axion fields. The results are valid for bosonic, heterotic and super-strings. To first order in the inverse string tension α', these solutions display a simple relation between the angular velocity of the Gödel universe, Ω, and the inverse string tension of the form α'=1/Ω2 in the absence of the axion field. The generalization of this relationship is also found when the axion field is present.

A note on closed-string interactions a la witten

NASA Astrophysics Data System (ADS)

Romans, L. J.

1987-08-01

We consider the problem of formulating a field theory of interacting closed strings analogous to Witten's open-string field theory. Two natural candidates have been suggested for an off-shell three-string interaction vertex: one scheme involves a cyclic geometric overlap in spacetime, while the other is obtained by ``stuttering'' the Fock-space realization of the open-string vertex. We demonstrate that these two approaches are in fact equivalent, utilizing the operator formalism as developed to describe Witten's theory. Implications of this result for the construction of closed-string theories are briefly discussed. Address after August 1, 1987: Department of Physics, University of Southern California, Los Angeles, CA 90089, USA.

Reconstruction of piano hammer force from string velocity.

PubMed

Chaigne, Antoine

2016-11-01

A method is presented for reconstructing piano hammer forces through appropriate filtering of the measured string velocity. The filter design is based on the analysis of the pulses generated by the hammer blow and propagating along the string. In the five lowest octaves, the hammer force is reconstructed by considering two waves only: the incoming wave from the hammer and its first reflection at the front end. For the higher notes, four- or eight-wave schemes must be considered. The theory is validated on simulated string velocities by comparing imposed and reconstructed forces. The simulations are based on a nonlinear damped stiff string model previously developed by Chabassier, Chaigne, and Joly [J. Acoust. Soc. Am. 134(1), 648-665 (2013)]. The influence of absorption, dispersion, and amplitude of the string waves on the quality of the reconstruction is discussed. Finally, the method is applied to real piano strings. The measured string velocity is compared to the simulated velocity excited by the reconstructed force, showing a high degree of accuracy. A number of simulations are compared to simulated strings excited by a force derived from measurements of mass and acceleration of the hammer head. One application to an historic piano is also presented.

Improving Upon String Methods for Transition State Discovery.

PubMed

Chaffey-Millar, Hugh; Nikodem, Astrid; Matveev, Alexei V; Krüger, Sven; Rösch, Notker

2012-02-14

Transition state discovery via application of string methods has been researched on two fronts. The first front involves development of a new string method, named the Searching String method, while the second one aims at estimating transition states from a discretized reaction path. The Searching String method has been benchmarked against a number of previously existing string methods and the Nudged Elastic Band method. The developed methods have led to a reduction in the number of gradient calls required to optimize a transition state, as compared to existing methods. The Searching String method reported here places new beads on a reaction pathway at the midpoint between existing beads, such that the resolution of the path discretization in the region containing the transition state grows exponentially with the number of beads. This approach leads to favorable convergence behavior and generates more accurate estimates of transition states from which convergence to the final transition states occurs more readily. Several techniques for generating improved estimates of transition states from a converged string or nudged elastic band have been developed and benchmarked on 13 chemical test cases. Optimization approaches for string methods, and pitfalls therein, are discussed.

Social Impacts Module (SIM) Transition

DTIC Science & Technology

2012-09-28

User String The authorized user’s name to access the PAVE database. Applies only to Microsoft SQL Server; leave blank, otherwise. passwd String The...otherwise. passwd String The password if an authorized user’s name is required; otherwise, leave blank driver String The class name for the driver to

Fluorescent J-aggregates of core-substituted perylene bisimides: studies on structure-property relationship, nucleation-elongation mechanism, and sergeants-and-soldiers principle.

PubMed

Kaiser, Theo E; Stepanenko, Vladimir; Würthner, Frank

2009-05-20

A series of highly soluble and fluorescent, at core tetraaryloxy-substituted and in imide positions hydrogen atom containing perylene bisimide (PBI) dyes 1a-e with varying peripheral side chains have been synthesized and thoroughly characterized. The self-assembly of these PBIs has been studied in detail by UV/vis, linear dichroism (LD) and circular dichroism (CD) spectroscopy, and scanning probe microscopy (AFM, STM). These studies revealed that the present PBIs self-assemble into extended double string cables, which consist of two hydrogen-bonded supramolecular polymeric chains of densely packed and strongly excitonically coupled PBI chromophores, providing highly fluorescent J-aggregates. The aggregation strength ("melting" temperature) and the fluorescence properties of these J-aggregates are dependent on the number and chain length of the peripheral alkoxy substituents, thus revealing a structure-property relationship. In contrast to previously reported assemblies of PBIs, for which the aggregation process is described by the isodesmic (or equal K) model, a cooperative nucleation-elongation mechanism applies for the aggregation of the present assemblies as revealed by concentration-dependent UV/vis absorption studies with the chiral PBI 1e, providing equilibrium constants for dimerization (= nucleation) of K(2) = 13 +/- 11 L mol(-1) and for elongation of K = 2.3 +/- 0.1 x 10(6) L mol(-1) in methylcyclohexane (MCH). LD spectroscopic measurements have been performed to analyze the orientation of the monomers within the aggregates. The nonlinearity of chiral amplification in PBI aggregates directed by sergeants-and-soldiers principle has been elucidated by coaggregation experiments of different PBI dyes using CD spectroscopy. The dimensions as well as the molecular arrangement of the monomeric units in assemblies have been explored by atomic force microscopy (AFM) and scanning tunneling microscopy (STM).

Novel string field theory with also negative energy constituents/objects gives Veneziano amplitude

NASA Astrophysics Data System (ADS)

Nielsen, H. B.; Ninomiya, M.

2018-02-01

We have proposed a new type of string field theory. The main point of the present article is to cure some technical troubles: missing two out three terms in Veneziano amplitude. Our novel string field theory, describes a theory with many strings in terms of "objects", which are not exactly, but close to Charles Thorn's string bits. The new point is that the objects in terms of which the universe states are constructed, and which have an essentially 26-momentum variable called J μ , can have the energy J 0 be also negative as well as positive. We get a long way in deriving in this model the Veneziano model and obtain all the three terms needed for a four point amplitude. This result strongly indicates that our novel string field theory is indeed string theory.

Axion string dynamics I: 2+1D

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fleury, Leesa M.; Moore, Guy D.

2016-05-03

If the axion exists and if the initial axion field value is uncorrelated at causally disconnected points, then it should be possible to predict the efficiency of cosmological axion production, relating the axionic dark matter density to the axion mass. The main obstacle to making this prediction is correctly treating the axion string cores. We develop a new algorithm for treating the axionic string cores correctly in 2+1 dimensions. When the axionic string cores are given their full physical string tension, axion production is about twice as efficient as in previous simulations. We argue that the string network in 2+1more » dimensions should behave very differently than in 3+1 dimensions, so this result cannot be simply carried over to the physical case. We outline how to extend our method to 3+1D axion string dynamics.« less

A numerical study of the string function using a primitive equation ocean model

NASA Astrophysics Data System (ADS)

Tyler, R. H.; Käse, R.

We use results from a primitive-equation ocean numerical model (SCRUM) to test a theoretical 'string function' formulation put forward by Tyler and Käse in another article in this issue. The string function acts as a stream function for the large-scale potential energy flow under the combined beta and topographic effects. The model results verify that large-scale anomalies propagate along the string function contours with a speed correctly given by the cross-string gradient. For anomalies having a scale similar to the Rossby radius, material rates of change in the layer mass following the string velocity are balanced by material rates of change in relative vorticity following the flow velocity. It is shown that large-amplitude anomalies can be generated when wind stress is resonant with the string function configuration.

Scattering of Cosmic Strings by Black Holes:. Loop Formation

NASA Astrophysics Data System (ADS)

Dubath, Florian; Sakellariadou, Mairi; Viallet, Claude Michel

We study the deformation of a long cosmic string by a nearby rotating black hole. We examine whether the deformation of a cosmic string, induced by the gravitational field of a Kerr black hole, may lead to the formation of a string loop. The segment of the string which enters the ergo-sphere of a rotating black hole gets deformed and, if it is sufficiently twisted, it can self-intersect, chopping off a loop. We find that the formation of a loop, via such a mechanism, is a rare event. It will only arise in a small region of the collision phase space, which depends on the string velocity, the impact parameter and the black hole angular momentum. We conclude that, generically, a long cosmic string is simply scattered, or captured, by a nearby rotating black hole.

Factorization of chiral string amplitudes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Huang, Yu-tin; Siegel, Warren; Yuan, Ellis Ye

We re-examine a closed-string model defined by altering the boundary conditions for one handedness of two-dimensional propagators in otherwise-standard string theory. We evaluate the amplitudes using Kawai-Lewellen-Tye factorization into open-string amplitudes. The only modification to standard string theory is effectively that the spacetime Minkowski metric changes overall sign in one open-string factor. This cancels all but a finite number of states: as found in earlier approaches, with enough supersymmetry (e.g., type II) the tree amplitudes reproduce those of the massless truncation of ordinary string theory. However, we now find for the other cases that additional fields, formerly thought to bemore » auxiliary, describe new spin-2 states at the two adjacent mass levels (tachyonic and tardyonic). The tachyon is always a ghost, but can be avoided in the heterotic case.« less

Factorization of chiral string amplitudes

DOE PAGES

Huang, Yu-tin; Siegel, Warren; Yuan, Ellis Ye

2016-09-16

We re-examine a closed-string model defined by altering the boundary conditions for one handedness of two-dimensional propagators in otherwise-standard string theory. We evaluate the amplitudes using Kawai-Lewellen-Tye factorization into open-string amplitudes. The only modification to standard string theory is effectively that the spacetime Minkowski metric changes overall sign in one open-string factor. This cancels all but a finite number of states: as found in earlier approaches, with enough supersymmetry (e.g., type II) the tree amplitudes reproduce those of the massless truncation of ordinary string theory. However, we now find for the other cases that additional fields, formerly thought to bemore » auxiliary, describe new spin-2 states at the two adjacent mass levels (tachyonic and tardyonic). The tachyon is always a ghost, but can be avoided in the heterotic case.« less

Pauses enhance chunk recognition in song element strings by zebra finches.

PubMed

Spierings, Michelle; de Weger, Anouk; Ten Cate, Carel

2015-07-01

When learning a language, it is crucial to know which syllables of a continuous sound string belong together as words. Human infants achieve this by attending to pauses between words or to the co-occurrence of syllables. It is not only humans that can segment a continuous string. Songbirds learning their song tend to copy 'chunks' from one or more tutors' songs and combine these into their own song. In the tutor songs, these chunks are often separated by pauses and a high co-occurrence of elements, suggesting that these features affect chunking and song learning. We examined experimentally whether the presence of pauses and element co-occurrence affect the ability of adult zebra finches to discriminate strings of song elements. Using a go/no-go design, two groups of birds were trained to discriminate between two strings. In one group (Pause-group), pauses were inserted between co-occurring element triplets in the strings, and in the other group (No-pause group), both strings were continuous. After making a correct discrimination, an individual proceeded to a reversal training using string segments. Segments were element triplets consistent in co-occurrence, triplets that were partly consistent in composition and triplets consisting of elements that did not co-occur in the strings. The Pause-group was faster in discriminating between the two strings. This group also responded differently to consistent triplets in the reversal training, compared to inconsistent triplets. The No-pause group did not differentiate among the triplet types. These results indicate that pauses in strings of song elements aid song discrimination and memorization of co-occurring element groups.

From the currency rate quotations onto strings and brane world scenarios

NASA Astrophysics Data System (ADS)

Horváth, D.; Pincak, R.

2012-11-01

In the paper, we study the projections of the real exchange rate dynamics onto the string-like topology. Our approach is inspired by the contemporary movements in the string theory. The string map of data is defined here by the boundary conditions, characteristic length, real valued and the method of redistribution of information. As a practical matter, this map represents the detrending and data standardization procedure. We introduced maps onto 1-end-point and 2-end-point open strings that satisfy the Dirichlet and Neumann boundary conditions. The questions of the choice of extra-dimensions, symmetries, duality and ways to the partial compactification are discussed. Subsequently, we pass to higher dimensional and more complex objects. The 2D-Brane was suggested which incorporated bid-ask spreads. Polarization by the spread was considered which admitted analyzing arbitrage opportunities on the market where transaction costs are taken into account. The model of the rotating string which naturally yields calculation of angular momentum is suitable for tracking of several currency pairs. The systematic way which allows one suggest more structured maps suitable for a simultaneous study of several currency pairs was analyzed by means of the Gâteaux generalized differential calculus. The effect of the string and brane maps on test data was studied by comparing their mean statistical characteristics. The study revealed notable differences between topologies. We review the dependence on the characteristic string length, mean fluctuations and properties of the intra-string statistics. The study explores the coupling of the string amplitude and volatility. The possible utilizations of the string theory approach in financial markets are slight.

Haptic Distal Spatial Perception Mediated by Strings: Haptic "Looming"

ERIC Educational Resources Information Center

Cabe, Patrick A.

2011-01-01

Five experiments tested a haptic analog of optical looming, demonstrating string-mediated haptic distal spatial perception. Horizontally collinear hooks supported a weighted string held taut by a blindfolded participant's finger midway between the hooks. At the finger, the angle between string segments increased as the finger approached…

Growth rate measurement in free jet experiments

NASA Astrophysics Data System (ADS)

Charpentier, Jean-Baptiste; Renoult, Marie-Charlotte; Crumeyrolle, Olivier; Mutabazi, Innocent

2017-07-01

An experimental method was developed to measure the growth rate of the capillary instability for free liquid jets. The method uses a standard shadow-graph imaging technique to visualize a jet, produced by extruding a liquid through a circular orifice, and a statistical analysis of the entire jet. The analysis relies on the computation of the standard deviation of a set of jet profiles, obtained in the same experimental conditions. The principle and robustness of the method are illustrated with a set of emulated jet profiles. The method is also applied to free falling jet experiments conducted for various Weber numbers and two low-viscosity solutions: a Newtonian and a viscoelastic one. Growth rate measurements are found in good agreement with linear stability theory in the Rayleigh's regime, as expected from previous studies. In addition, the standard deviation curve is used to obtain an indirect measurement of the initial perturbation amplitude and to identify beads on a string structure on the jet. This last result serves to demonstrate the capability of the present technique to explore in the future the dynamics of viscoelastic liquid jets.

Tilted string cosmologies

NASA Astrophysics Data System (ADS)

Clancy, Dominic; Feinstein, Alexander; Lidsey, James E.; Tavakol, Reza

1999-04-01

Global symmetries of the string effective action are employed to generate tilted, homogeneous Bianchi type VIh string cosmologies from a previously known stiff perfect fluid solution to Einstein gravity. The dilaton field is not constant on the surfaces of homogeneity. The future asymptotic state of the models is interpreted as a plane wave and is itself an exact solution to the string equations of motion to all orders in the inverse string tension. An inhomogeneous generalization of the Bianchi type III model is also found.

Propagating stress-pulses and wiggling transition revealed in string dynamics

NASA Astrophysics Data System (ADS)

Yao, Zhenwei

2018-02-01

Understanding string dynamics yields insights into the intricate dynamic behaviors of various filamentary thin structures in nature and industry covering multiple length scales. In this work, we investigate the planar dynamics of a flexible string where one end is free and the other end is subject to transverse and longitudinal motions. Under transverse harmonic motion, we reveal the propagating pulse structure in the stress profile over the string, and analyze its role in bringing the system into a chaotic state. For a string where one end is under longitudinal uniform acceleration, we identify the wiggling transition, derive the analytical wiggling solution from the string equations, and present the phase diagram.

Noncommutative-geometry model for closed bosonic strings

NASA Technical Reports Server (NTRS)

Sen, Siddhartha; Holman, R.

1987-01-01

It is shown how Witten's (1986) noncommutative geometry may be extended to describe the closed bosonic string. For closed strings, an explicit representation is provided of the integral operator needed to construct an action and of an associative product on string fields. The proper choice of the action of the integral operator and the associative product in order to give rise to a reasonable theory is explained, and the consequences of such a choice are discussed. It is shown that the ghost numbers of the operator and associative product can be chosen arbitrarily for both open and closed strings, and that this construct can be used as an action for interacting closed bosonic strings.

Surface operators from M -strings

NASA Astrophysics Data System (ADS)

Mori, Hironori; Sugimoto, Yuji

2017-01-01

It has been found that surface operators have a significant role in Alday-Gaiotto-Tachikawa (AGT) relation. This duality is an outstanding consequence of M -theory, but it is actually encoded into the brane web for which the topological string can work. From this viewpoint, the surface defect in AGT relation is geometrically engineered as a toric brane realization. Also, there is a class of the brane configuration in M -theory called M -strings which can be translated into the language of the topological string. In this work, we propose a new M -string configuration which can realize AGT relation in the presence of the surface defect by utilizing the geometric transition in the refined topological string.

Voltage-Matched, Monolithic, Multi-Band-Gap Devices

DOEpatents

Wanlass, M. W.; Mascarenhas, A.

2006-08-22

Monolithic, tandem, photonic cells include at least a first semiconductor layer and a second semiconductor layer, wherein each semiconductor layer includes an n-type region, a p-type region, and a given band-gap energy. Formed within each semiconductor layer is a string of electrically connected photonic sub-cells. By carefully selecting the numbers of photonic sub-cells in the first and second layer photonic sub-cell string(s), and by carefully selecting the manner in which the sub-cells in a first and second layer photonic sub-cell string(s) are electrically connected, each of the first and second layer sub-cell strings may be made to achieve one or more substantially identical electrical characteristics.

Non-perturbative String Theory from Water Waves

DOE Office of Scientific and Technical Information (OSTI.GOV)

Iyer, Ramakrishnan; Johnson, Clifford V.; /Southern California U.

2012-06-14

We use a combination of a 't Hooft limit and numerical methods to find non-perturbative solutions of exactly solvable string theories, showing that perturbative solutions in different asymptotic regimes are connected by smooth interpolating functions. Our earlier perturbative work showed that a large class of minimal string theories arise as special limits of a Painleve IV hierarchy of string equations that can be derived by a similarity reduction of the dispersive water wave hierarchy of differential equations. The hierarchy of string equations contains new perturbative solutions, some of which were conjectured to be the type IIA and IIB string theoriesmore » coupled to (4, 4k ? 2) superconformal minimal models of type (A, D). Our present paper shows that these new theories have smooth non-perturbative extensions. We also find evidence for putative new string theories that were not apparent in the perturbative analysis.« less

The Neural Substrates for Letter String Readings in The Normal and Reverse Directions: An fMRI Study

NASA Astrophysics Data System (ADS)

Ge, Sheng; Saito, Takashi; Wu, Jing-Long; Ogasawara, Jun-Ichi; Yamauchi, Shuichi; Matsunaga, Naofumi; Iramina, Keiji

In order to investigate the difference in cortical activations between reading letter strings in the normal direction and the reverse direction, an fMRI study was conducted. In this study, the cortical activations elicited by Japanese letter string reading and Chinese letter string reading were investigated. The subjects performed the normal direction reading task (read letter strings from left to right), and the reverse direction reading task (read letter strings from right to left). According to the experimental results, the activated brain regions during the normal and the reverse direction reading tasks were compared. It was found that visuospatial transformation was involved in the reverse direction reading task, while this function was not significant during the normal direction reading task. Furthermore, we found that there was no significant difference in cortical activation between Japanese and Chinese letter string readings.

Constraints on Cosmic Strings from the LIGO-Virgo Gravitational-Wave Detectors

NASA Astrophysics Data System (ADS)

Aasi, J.; Abadie, J.; Abbott, B. P.; Abbott, R.; Abbott, T.; Abernathy, M. R.; Accadia, T.; Acernese, F.; Adams, C.; Adams, T.; Adhikari, R. X.; Affeldt, C.; Agathos, M.; Aggarwal, N.; Aguiar, O. D.; Ajith, P.; Allen, B.; Allocca, A.; Amador Ceron, E.; Amariutei, D.; Anderson, R. A.; Anderson, S. B.; Anderson, W. G.; Arai, K.; Araya, M. C.; Arceneaux, C.; Areeda, J.; Ast, S.; Aston, S. M.; Astone, P.; Aufmuth, P.; Aulbert, C.; Austin, L.; Aylott, B. E.; Babak, S.; Baker, P. T.; Ballardin, G.; Ballmer, S. W.; Barayoga, J. C.; Barker, D.; Barnum, S. H.; Barone, F.; Barr, B.; Barsotti, L.; Barsuglia, M.; Barton, M. A.; Bartos, I.; Bassiri, R.; Basti, A.; Batch, J.; Bauchrowitz, J.; Bauer, Th. S.; Bebronne, M.; Behnke, B.; Bejger, M.; Beker, M. G.; Bell, A. S.; Bell, C.; Belopolski, I.; Bergmann, G.; Berliner, J. M.; Bersanetti, D.; Bertolini, A.; Bessis, D.; Betzwieser, J.; Beyersdorf, P. T.; Bhadbhade, T.; Bilenko, I. A.; Billingsley, G.; Birch, J.; Bitossi, M.; Bizouard, M. A.; Black, E.; Blackburn, J. K.; Blackburn, L.; Blair, D.; Blom, M.; Bock, O.; Bodiya, T. P.; Boer, M.; Bogan, C.; Bond, C.; Bondu, F.; Bonelli, L.; Bonnand, R.; Bork, R.; Born, M.; Boschi, V.; Bose, S.; Bosi, L.; Bowers, J.; Bradaschia, C.; Brady, P. R.; Braginsky, V. B.; Branchesi, M.; Brannen, C. A.; Brau, J. E.; Breyer, J.; Briant, T.; Bridges, D. O.; Brillet, A.; Brinkmann, M.; Brisson, V.; Britzger, M.; Brooks, A. F.; Brown, D. A.; Brown, D. D.; Brückner, F.; Bulik, T.; Bulten, H. J.; Buonanno, A.; Buskulic, D.; Buy, C.; Byer, R. L.; Cadonati, L.; Cagnoli, G.; Calderón Bustillo, J.; Calloni, E.; Camp, J. B.; Campsie, P.; Cannon, K. C.; Canuel, B.; Cao, J.; Capano, C. D.; Carbognani, F.; Carbone, L.; Caride, S.; Castiglia, A.; Caudill, S.; Cavaglià, M.; Cavalier, F.; Cavalieri, R.; Cella, G.; Cepeda, C.; Cesarini, E.; Chakraborty, R.; Chalermsongsak, T.; Chao, S.; Charlton, P.; Chassande-Mottin, E.; Chen, X.; Chen, Y.; Chincarini, A.; Chiummo, A.; Cho, H. S.; Chow, J.; Christensen, N.; Chu, Q.; Chua, S. S. Y.; Chung, S.; Ciani, G.; Clara, F.; Clark, D. E.; Clark, J. A.; Cleva, F.; Coccia, E.; Cohadon, P.-F.; Colla, A.; Colombini, M.; Constancio, M.; Conte, A.; Conte, R.; Cook, D.; Corbitt, T. R.; Cordier, M.; Cornish, N.; Corsi, A.; Costa, C. A.; Coughlin, M. W.; Coulon, J.-P.; Countryman, S.; Couvares, P.; Coward, D. M.; Cowart, M.; Coyne, D. C.; Craig, K.; Creighton, J. D. E.; Creighton, T. D.; Crowder, S. G.; Cumming, A.; Cunningham, L.; Cuoco, E.; Dahl, K.; Canton, T. Dal; Damjanic, M.; Danilishin, S. L.; D'Antonio, S.; Danzmann, K.; Dattilo, V.; Daudert, B.; Daveloza, H.; Davier, M.; Davies, G. S.; Daw, E. J.; Day, R.; Dayanga, T.; De Rosa, R.; Debreczeni, G.; Degallaix, J.; Del Pozzo, W.; Deleeuw, E.; Deléglise, S.; Denker, T.; Dent, T.; Dereli, H.; Dergachev, V.; DeRosa, R.; DeSalvo, R.; Dhurandhar, S.; Di Fiore, L.; Di Lieto, A.; Di Palma, I.; Di Virgilio, A.; Díaz, M.; Dietz, A.; Dmitry, K.; Donovan, F.; Dooley, K. L.; Doravari, S.; Drago, M.; Drever, R. W. P.; Driggers, J. C.; Du, Z.; Dumas, J.-C.; Dwyer, S.; Eberle, T.; Edwards, M.; Effler, A.; Ehrens, P.; Eichholz, J.; Eikenberry, S. S.; Endrőczi, G.; Essick, R.; Etzel, T.; Evans, K.; Evans, M.; Evans, T.; Factourovich, M.; Fafone, V.; Fairhurst, S.; Fang, Q.; Farinon, S.; Farr, B.; Farr, W.; Favata, M.; Fazi, D.; Fehrmann, H.; Feldbaum, D.; Ferrante, I.; Ferrini, F.; Fidecaro, F.; Finn, L. S.; Fiori, I.; Fisher, R.; Flaminio, R.; Foley, E.; Foley, S.; Forsi, E.; Fotopoulos, N.; Fournier, J.-D.; Franco, S.; Frasca, S.; Frasconi, F.; Frede, M.; Frei, M.; Frei, Z.; Freise, A.; Frey, R.; Fricke, T. T.; Fritschel, P.; Frolov, V. V.; Fujimoto, M.-K.; Fulda, P.; Fyffe, M.; Gair, J.; Gammaitoni, L.; Garcia, J.; Garufi, F.; Gehrels, N.; Gemme, G.; Genin, E.; Gennai, A.; Gergely, L.; Ghosh, S.; Giaime, J. A.; Giampanis, S.; Giardina, K. D.; Giazotto, A.; Gil-Casanova, S.; Gill, C.; Gleason, J.; Goetz, E.; Goetz, R.; Gondan, L.; González, G.; Gordon, N.; Gorodetsky, M. L.; Gossan, S.; Goßler, S.; Gouaty, R.; Graef, C.; Graff, P. B.; Granata, M.; Grant, A.; Gras, S.; Gray, C.; Greenhalgh, R. J. S.; Gretarsson, A. M.; Griffo, C.; Groot, P.; Grote, H.; Grover, K.; Grunewald, S.; Guidi, G. M.; Guido, C.; Gushwa, K. E.; Gustafson, E. K.; Gustafson, R.; Hall, B.; Hall, E.; Hammer, D.; Hammond, G.; Hanke, M.; Hanks, J.; Hanna, C.; Hanson, J.; Harms, J.; Harry, G. M.; Harry, I. W.; Harstad, E. D.; Hartman, M. T.; Haughian, K.; Hayama, K.; Heefner, J.; Heidmann, A.; Heintze, M.; Heitmann, H.; Hello, P.; Hemming, G.; Hendry, M.; Heng, I. S.; Heptonstall, A. W.; Heurs, M.; Hild, S.; Hoak, D.; Hodge, K. A.; Holt, K.; Holtrop, M.; Hong, T.; Hooper, S.; Horrom, T.; Hosken, D. J.; Hough, J.; Howell, E. J.; Hu, Y.; Hua, Z.; Huang, V.; Huerta, E. A.; Hughey, B.; Husa, S.; Huttner, S. H.; Huynh, M.; Huynh-Dinh, T.; Iafrate, J.; Ingram, D. R.; Inta, R.; Isogai, T.; Ivanov, A.; Iyer, B. R.; Izumi, K.; Jacobson, M.; James, E.; Jang, H.; Jang, Y. J.; Jaranowski, P.; Jiménez-Forteza, F.; Johnson, W. W.; Jones, D.; Jones, D. I.; Jones, R.; Jonker, R. J. G.; Ju, L.; Haris, K.; Kalmus, P.; Kalogera, V.; Kandhasamy, S.; Kang, G.; Kanner, J. B.; Kasprzack, M.; Kasturi, R.; Katsavounidis, E.; Katzman, W.; Kaufer, H.; Kaufman, K.; Kawabe, K.; Kawamura, S.; Kawazoe, F.; Kéfélian, F.; Keitel, D.; Kelley, D. B.; Kells, W.; Keppel, D. G.; Khalaidovski, A.; Khalili, F. Y.; Khazanov, E. A.; Kim, B. K.; Kim, C.; Kim, K.; Kim, N.; Kim, W.; Kim, Y.-M.; King, E. J.; King, P. J.; Kinzel, D. L.; Kissel, J. S.; Klimenko, S.; Kline, J.; Koehlenbeck, S.; Kokeyama, K.; Kondrashov, V.; Koranda, S.; Korth, W. Z.; Kowalska, I.; Kozak, D.; Kremin, A.; Kringel, V.; Królak, A.; Kucharczyk, C.; Kudla, S.; Kuehn, G.; Kumar, A.; Kumar, P.; Kumar, R.; Kurdyumov, R.; Kwee, P.; Landry, M.; Lantz, B.; Larson, S.; Lasky, P. D.; Lawrie, C.; Lazzarini, A.; Le Roux, A.; Leaci, P.; Lebigot, E. O.; Lee, C.-H.; Lee, H. K.; Lee, H. M.; Lee, J.; Lee, J.; Leonardi, M.; Leong, J. R.; Leroy, N.; Letendre, N.; Levine, B.; Lewis, J. B.; Lhuillier, V.; Li, T. G. F.; Lin, A. C.; Littenberg, T. B.; Litvine, V.; Liu, F.; Liu, H.; Liu, Y.; Liu, Z.; Lloyd, D.; Lockerbie, N. A.; Lockett, V.; Lodhia, D.; Loew, K.; Logue, J.; Lombardi, A. L.; Lorenzini, M.; Loriette, V.; Lormand, M.; Losurdo, G.; Lough, J.; Luan, J.; Lubinski, M. J.; Lück, H.; Lundgren, A. P.; Macarthur, J.; Macdonald, E.; Machenschalk, B.; MacInnis, M.; Macleod, D. M.; Magana-Sandoval, F.; Mageswaran, M.; Mailand, K.; Majorana, E.; Maksimovic, I.; Malvezzi, V.; Man, N.; Manca, G. M.; Mandel, I.; Mandic, V.; Mangano, V.; Mantovani, M.; Marchesoni, F.; Marion, F.; Márka, S.; Márka, Z.; Markosyan, A.; Maros, E.; Marque, J.; Martelli, F.; Martin, I. W.; Martin, R. M.; Martinelli, L.; Martynov, D.; Marx, J. N.; Mason, K.; Masserot, A.; Massinger, T. J.; Matichard, F.; Matone, L.; Matzner, R. A.; Mavalvala, N.; May, G.; Mazumder, N.; Mazzolo, G.; McCarthy, R.; McClelland, D. E.; McGuire, S. C.; McIntyre, G.; McIver, J.; Meacher, D.; Meadors, G. D.; Mehmet, M.; Meidam, J.; Meier, T.; Melatos, A.; Mendell, G.; Mercer, R. A.; Meshkov, S.; Messenger, C.; Meyer, M. S.; Miao, H.; Michel, C.; Mikhailov, E. E.; Milano, L.; Miller, J.; Minenkov, Y.; Mingarelli, C. M. F.; Mitra, S.; Mitrofanov, V. P.; Mitselmakher, G.; Mittleman, R.; Moe, B.; Mohan, M.; Mohapatra, S. R. P.; Mokler, F.; Moraru, D.; Moreno, G.; Morgado, N.; Mori, T.; Morriss, S. R.; Mossavi, K.; Mours, B.; Mow-Lowry, C. M.; Mueller, C. L.; Mueller, G.; Mukherjee, S.; Mullavey, A.; Munch, J.; Murphy, D.; Murray, P. G.; Mytidis, A.; Nagy, M. F.; Nanda Kumar, D.; Nardecchia, I.; Nash, T.; Naticchioni, L.; Nayak, R.; Necula, V.; Nelemans, G.; Neri, I.; Neri, M.; Newton, G.; Nguyen, T.; Nishida, E.; Nishizawa, A.; Nitz, A.; Nocera, F.; Nolting, D.; Normandin, M. E.; Nuttall, L. K.; Ochsner, E.; O'Dell, J.; Oelker, E.; Ogin, G. H.; Oh, J. J.; Oh, S. H.; Ohme, F.; Oppermann, P.; O'Reilly, B.; Ortega Larcher, W.; O'Shaughnessy, R.; Osthelder, C.; Ott, C. D.; Ottaway, D. J.; Ottens, R. S.; Ou, J.; Overmier, H.; Owen, B. J.; Padilla, C.; Pai, A.; Palomba, C.; Pan, Y.; Pankow, C.; Paoletti, F.; Paoletti, R.; Papa, M. A.; Paris, H.; Pasqualetti, A.; Passaquieti, R.; Passuello, D.; Pedraza, M.; Peiris, P.; Penn, S.; Perreca, A.; Phelps, M.; Pichot, M.; Pickenpack, M.; Piergiovanni, F.; Pierro, V.; Pinard, L.; Pindor, B.; Pinto, I. M.; Pitkin, M.; Poeld, J.; Poggiani, R.; Poole, V.; Poux, C.; Predoi, V.; Prestegard, T.; Price, L. R.; Prijatelj, M.; Principe, M.; Privitera, S.; Prix, R.; Prodi, G. A.; Prokhorov, L.; Puncken, O.; Punturo, M.; Puppo, P.; Quetschke, V.; Quintero, E.; Quitzow-James, R.; Raab, F. J.; Rabeling, D. S.; Rácz, I.; Radkins, H.; Raffai, P.; Raja, S.; Rajalakshmi, G.; Rakhmanov, M.; Ramet, C.; Rapagnani, P.; Raymond, V.; Re, V.; Reed, C. M.; Reed, T.; Regimbau, T.; Reid, S.; Reitze, D. H.; Ricci, F.; Riesen, R.; Riles, K.; Robertson, N. A.; Robinet, F.; Rocchi, A.; Roddy, S.; Rodriguez, C.; Rodruck, M.; Roever, C.; Rolland, L.; Rollins, J. G.; Romano, R.; Romanov, G.; Romie, J. H.; Rosińska, D.; Rowan, S.; Rüdiger, A.; Ruggi, P.; Ryan, K.; Salemi, F.; Sammut, L.; Sandberg, V.; Sanders, J.; Sannibale, V.; Santiago-Prieto, I.; Saracco, E.; Sassolas, B.; Sathyaprakash, B. S.; Saulson, P. R.; Savage, R.; Schilling, R.; Schnabel, R.; Schofield, R. M. S.; Schreiber, E.; Schuette, D.; Schulz, B.; Schutz, B. F.; Schwinberg, P.; Scott, J.; Scott, S. M.; Seifert, F.; Sellers, D.; Sengupta, A. 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I.; Travasso, F.; Traylor, G.; Tse, M.; Ugolini, D.; Unnikrishnan, C. S.; Vahlbruch, H.; Vajente, G.; Vallisneri, M.; van den Brand, J. F. J.; Van Den Broeck, C.; van der Putten, S.; van der Sluys, M. V.; van Heijningen, J.; van Veggel, A. A.; Vass, S.; Vasúth, M.; Vaulin, R.; Vecchio, A.; Vedovato, G.; Veitch, J.; Veitch, P. J.; Venkateswara, K.; Verkindt, D.; Verma, S.; Vetrano, F.; Viceré, A.; Vincent-Finley, R.; Vinet, J.-Y.; Vitale, S.; Vlcek, B.; Vo, T.; Vocca, H.; Vorvick, C.; Vousden, W. D.; Vrinceanu, D.; Vyachanin, S. P.; Wade, A.; Wade, L.; Wade, M.; Waldman, S. J.; Walker, M.; Wallace, L.; Wan, Y.; Wang, J.; Wang, M.; Wang, X.; Wanner, A.; Ward, R. L.; Was, M.; Weaver, B.; Wei, L.-W.; Weinert, M.; Weinstein, A. J.; Weiss, R.; Welborn, T.; Wen, L.; Wessels, P.; West, M.; Westphal, T.; Wette, K.; Whelan, J. T.; Whitcomb, S. E.; White, D. J.; Whiting, B. F.; Wibowo, S.; Wiesner, K.; Wilkinson, C.; Williams, L.; Williams, R.; Williams, T.; Willis, J. L.; Willke, B.; Wimmer, M.; Winkelmann, L.; Winkler, W.; Wipf, C. C.; Wittel, H.; Woan, G.; Worden, J.; Yablon, J.; Yakushin, I.; Yamamoto, H.; Yancey, C. C.; Yang, H.; Yeaton-Massey, D.; Yoshida, S.; Yum, H.; Yvert, M.; ZadroŻny, A.; Zanolin, M.; Zendri, J.-P.; Zhang, F.; Zhang, L.; Zhao, C.; Zhu, H.; Zhu, X. J.; Zotov, N.; Zucker, M. E.; Zweizig, J.; LIGO Scientific Collaboration; Virgo Collaboration

2014-04-01

Cosmic strings can give rise to a large variety of interesting astrophysical phenomena. Among them, powerful bursts of gravitational waves (GWs) produced by cusps are a promising observational signature. In this Letter we present a search for GWs from cosmic string cusps in data collected by the LIGO and Virgo gravitational wave detectors between 2005 and 2010, with over 625 days of live time. We find no evidence of GW signals from cosmic strings. From this result, we derive new constraints on cosmic string parameters, which complement and improve existing limits from previous searches for a stochastic background of GWs from cosmic microwave background measurements and pulsar timing data. In particular, if the size of loops is given by the gravitational backreaction scale, we place upper limits on the string tension Gμ below 10-8 in some regions of the cosmic string parameter space.

Constraints on Cosmic Strings from the LIGO-Virgo Gravitational-Wave Detectors

NASA Technical Reports Server (NTRS)

Aasi, J.; Abadie, J.; Abbott, B.P.; Abbott, R.; Abbott, T.; Abernathy, M.R.; Accadia, T.; Adams, C.; Adams, T.; Adhikari, R.X.;

Constraints on cosmic strings from the LIGO-Virgo gravitational-wave detectors.

PubMed

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Nuttall, L K; Ochsner, E; O'Dell, J; Oelker, E; Ogin, G H; Oh, J J; Oh, S H; Ohme, F; Oppermann, P; O'Reilly, B; Ortega Larcher, W; O'Shaughnessy, R; Osthelder, C; Ott, C D; Ottaway, D J; Ottens, R S; Ou, J; Overmier, H; Owen, B J; Padilla, C; Pai, A; Palomba, C; Pan, Y; Pankow, C; Paoletti, F; Paoletti, R; Papa, M A; Paris, H; Pasqualetti, A; Passaquieti, R; Passuello, D; Pedraza, M; Peiris, P; Penn, S; Perreca, A; Phelps, M; Pichot, M; Pickenpack, M; Piergiovanni, F; Pierro, V; Pinard, L; Pindor, B; Pinto, I M; Pitkin, M; Poeld, J; Poggiani, R; Poole, V; Poux, C; Predoi, V; Prestegard, T; Price, L R; Prijatelj, M; Principe, M; Privitera, S; Prix, R; Prodi, G A; Prokhorov, L; Puncken, O; Punturo, M; Puppo, P; Quetschke, V; Quintero, E; Quitzow-James, R; Raab, F J; Rabeling, D S; Rácz, I; Radkins, H; Raffai, P; Raja, S; Rajalakshmi, G; Rakhmanov, M; Ramet, C; Rapagnani, P; Raymond, V; Re, V; Reed, C M; Reed, T; Regimbau, T; Reid, S; Reitze, D H; Ricci, F; Riesen, R; Riles, K; Robertson, N A; Robinet, F; Rocchi, A; Roddy, S; Rodriguez, C; Rodruck, M; Roever, C; Rolland, L; Rollins, J G; Romano, R; Romanov, G; Romie, J H; Rosińska, D; Rowan, S; Rüdiger, A; Ruggi, P; Ryan, K; Salemi, F; Sammut, L; Sandberg, V; Sanders, J; Sannibale, V; Santiago-Prieto, I; Saracco, E; Sassolas, B; Sathyaprakash, B S; Saulson, P R; Savage, R; Schilling, R; Schnabel, R; Schofield, R M S; Schreiber, E; Schuette, D; Schulz, B; Schutz, B F; Schwinberg, P; Scott, J; Scott, S M; Seifert, F; Sellers, D; Sengupta, A S; Sentenac, D; Sergeev, A; Shaddock, D; Shah, S; Shahriar, M S; Shaltev, M; Shapiro, B; Shawhan, P; Shoemaker, D H; Sidery, T L; Siellez, K; Siemens, X; Sigg, D; Simakov, D; Singer, A; Singer, L; Sintes, A M; Skelton, G R; Slagmolen, B J J; Slutsky, J; Smith, J R; Smith, M R; Smith, R J E; Smith-Lefebvre, N D; Soden, K; Son, E J; Sorazu, B; Souradeep, T; Sperandio, L; Staley, A; Steinert, E; Steinlechner, J; Steinlechner, S; Steplewski, S; Stevens, D; Stochino, A; Stone, R; Strain, K A; Straniero, N; Strigin, S; Stroeer, A S; Sturani, R; Stuver, A L; Summerscales, T Z; Susmithan, S; Sutton, P J; Swinkels, B; Szeifert, G; Tacca, M; Talukder, D; Tang, L; Tanner, D B; Tarabrin, S P; Taylor, R; ter Braack, A P M; Thirugnanasambandam, M P; Thomas, M; Thomas, P; Thorne, K A; Thorne, K S; Thrane, E; Tiwari, V; Tokmakov, K V; Tomlinson, C; Toncelli, A; Tonelli, M; Torre, O; Torres, C V; Torrie, C I; Travasso, F; Traylor, G; Tse, M; Ugolini, D; Unnikrishnan, C S; Vahlbruch, H; Vajente, G; Vallisneri, M; van den Brand, J F J; Van Den Broeck, C; van der Putten, S; van der Sluys, M V; van Heijningen, J; van Veggel, A A; Vass, S; Vasúth, M; Vaulin, R; Vecchio, A; Vedovato, G; Veitch, J; Veitch, P J; Venkateswara, K; Verkindt, D; Verma, S; Vetrano, F; Viceré, A; Vincent-Finley, R; Vinet, J-Y; Vitale, S; Vlcek, B; Vo, T; Vocca, H; Vorvick, C; Vousden, W D; Vrinceanu, D; Vyachanin, S P; Wade, A; Wade, L; Wade, M; Waldman, S J; Walker, M; Wallace, L; Wan, Y; Wang, J; Wang, M; Wang, X; Wanner, A; Ward, R L; Was, M; Weaver, B; Wei, L-W; Weinert, M; Weinstein, A J; Weiss, R; Welborn, T; Wen, L; Wessels, P; West, M; Westphal, T; Wette, K; Whelan, J T; Whitcomb, S E; White, D J; Whiting, B F; Wibowo, S; Wiesner, K; Wilkinson, C; Williams, L; Williams, R; Williams, T; Willis, J L; Willke, B; Wimmer, M; Winkelmann, L; Winkler, W; Wipf, C C; Wittel, H; Woan, G; Worden, J; Yablon, J; Yakushin, I; Yamamoto, H; Yancey, C C; Yang, H; Yeaton-Massey, D; Yoshida, S; Yum, H; Yvert, M; Zadrożny, A; Zanolin, M; Zendri, J-P; Zhang, F; Zhang, L; Zhao, C; Zhu, H; Zhu, X J; Zotov, N; Zucker, M E; Zweizig, J

2014-04-04

Cosmic strings can give rise to a large variety of interesting astrophysical phenomena. Among them, powerful bursts of gravitational waves (GWs) produced by cusps are a promising observational signature. In this Letter we present a search for GWs from cosmic string cusps in data collected by the LIGO and Virgo gravitational wave detectors between 2005 and 2010, with over 625 days of live time. We find no evidence of GW signals from cosmic strings. From this result, we derive new constraints on cosmic string parameters, which complement and improve existing limits from previous searches for a stochastic background of GWs from cosmic microwave background measurements and pulsar timing data. In particular, if the size of loops is given by the gravitational backreaction scale, we place upper limits on the string tension Gμ below 10(-8) in some regions of the cosmic string parameter space.

Dualities in String Cosmology

NASA Astrophysics Data System (ADS)

Meissner, K. A.

We describe in this chapter a set of duality symmetries present in the string-inspired theory of gravity coupled to the dilaton. These dualities are the cornerstones of String Cosmology, which provides alternatives to the usual inflation scenario. The crucial role of Prof. Gabriele Veneziano in the discovery and the development of string dualities is described and emphasized.

Effects of overlapping strings in pp collisions

DOE PAGES

Bierlich, Christian; Gustafson, Gösta; Lönnblad, Leif; ...

2015-03-26

In models for hadron collisions based on string hadronization, the strings are usually treated as independent, allowing no interaction between the confined colour fields. In studies of nucleus collisions it has been suggested that strings close in space can fuse to form "colour ropes." Such ropes are expected to give more strange particles and baryons, which also has been suggested as a signal for plasma formation. Overlapping strings can also be expected in pp collisions, where usually no phase transition is expected. In particular at the high LHC energies the expected density of strings is quite high. To investigate possiblemore » effects of rope formation, we present a model in which strings are allowed to combine into higher multiplets, giving rise to increased production of baryons and strangeness, or recombine into singlet structures and vanish. Also a crude model for strings recombining into junction structures is considered, again giving rise to increased baryon production. The models are implemented in the DIPSY MC event generator, using PYTHIA8 for hadronization, and comparison to pp minimum bias data, reveals improvement in the description of identified particle spectra.« less

Hydraulic drill string breakdown and bleed off unit

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zeringue, F.J. Jr.

1987-02-17

An apparatus is described for use within an oil well rig for decoupling a tubing string into pipe segments comprising, in combination: rotary tong means for applying an unthreading torque to a first, upper pipe segment within the tubing string; torque resisting means for securing a second, lower pipe segment within the tubing string against the unthreading torque; containing means, intermediate the rotary tong means and the torque resisting means, enclosing a threaded joint of the tubing string, adapted for containing pressurized gases, liquids, and particulates, released from the threaded joint upon the decoupling; fluid communicating means for allowing fluidmore » communication between the containing means and a receiving point adapted for receiving the pressurized gases, liquids, and particulates; means for moving the rotary tong means, the torque resisting means and the containing means between a closed, engaging position with the tubing string and an open position; and means for horizontally moving the rotary tong means, the torque resisting means and the containing means between a position adjacent the tubing string and a position away from the tubing string.« less

Perceiving the affordance of string tension for power strokes in badminton: expertise allows effective use of all string tensions.

PubMed

Zhu, Qin

2013-01-01

Affordances mean opportunities for action. These affordances are important for sports performance and relevant to the abilities developed by skilled athletes. In racquet sports such as badminton, different players prefer widely different string tension because it is believed to provide opportunities for effective strokes. The current study examined whether badminton players can perceive the affordance of string tension for power strokes and whether the perception of affordance itself changed as a function of skill level. The results showed that string tension constrained the striking performance of both novice and recreational players, but not of expert players. When perceptual capability was assessed, perceptual mode did not affect perception of the optimal string tension. Skilled players successfully perceived the affordance of string tension, but only experts were concerned about saving energy. Our findings demonstrated that perception of the affordance of string tension in badminton was determined by action abilities. Furthermore, experts could adjust the action to maintain a superior level of performance based on the perception of affordance.

The three-dimensional simulation analysis of dynamic response on perforated strings

NASA Astrophysics Data System (ADS)

Li, M. F.; Liu, H. F.; Dou, Y. H.; Cao, L. H.; Liu, Y. X.

2018-06-01

It analyzes the dynamic response and stresses of perforating tubular string to detonating impact load in oil-gas well in ANSYS, obtains the response of vibration displacement, velocity and acceleration of perforating tubularstring caused by detonating impact load, finds the influence of the length and wall thickness of perforating tubular string to working stresses. The result shows that:when the detonating impact load exerts the perforating tubular string with compressive and tensile axial force alternatively;the vibration displacement, velocity and acceleration of perfora-ting tubular string change periodically at same cycle;the closer to the perforating gun, the larger the amplitude of vi-bration velocity and acceleration;the closer to the packer the smaller the vibration displacement, the larger the work-ing equivalent stress of perforating tubular string;the longer or the thicker the perforating tubular string, the smaller the working equivalent stress and the higher the strength safety. Therefore, it uses the damping tube between packer and perforating gun as well as thick walled tubing to increase the strength safety of perforating tubular string.

Worldsheet factorization for twistor-strings

NASA Astrophysics Data System (ADS)

Adamo, Tim

2014-04-01

We study the multiparticle factorization properties of two worldsheet theories which — at tree-level — describe the scattering of massless particles in four dimensions: the Berkovits-Witten twistor-string for = 4 super-Yang-Mills coupled to = 4 conformal supergravity, and the Skinner twistor-string for = 8 supergravity. By considering these string-like theories, we can study factorization at the level of the worldsheet before any Wick contractions or integrals have been performed; this is much simpler than considering the factorization properties of the amplitudes themselves. In Skinner's twistor-string this entails the addition of worldsheet gravity as well as a formalism that represents all external states in a manifestly symmetric way, which we develop explicitly at genus zero. We confirm that the scattering amplitudes of Skinner's theory, as well as the gauge theory amplitudes for the planar sector of the Berkovits-Witten theory, factorize appropriately at genus zero. In the non-planar sector, we find behavior indicative of conformal gravity in the Berkovits-Witten twistor-string. We contrast factorization in twistor-strings with the story in ordinary string theory, and also make some remarks on higher genus factorization and disconnected prescriptions.

The role of visual spatial attention in adult developmental dyslexia.

PubMed

Collis, Nathan L; Kohnen, Saskia; Kinoshita, Sachiko

2013-01-01

The present study investigated the nature of visual spatial attention deficits in adults with developmental dyslexia, using a partial report task with five-letter, digit, and symbol strings. Participants responded by a manual key press to one of nine alternatives, which included other characters in the string, allowing an assessment of position errors as well as intrusion errors. The results showed that the dyslexic adults performed significantly worse than age-matched controls with letter and digit strings but not with symbol strings. Both groups produced W-shaped serial position functions with letter and digit strings. The dyslexics' deficits with letter string stimuli were limited to position errors, specifically at the string-interior positions 2 and 4. These errors correlated with letter transposition reading errors (e.g., reading slat as "salt"), but not with the Rapid Automatized Naming (RAN) task. Overall, these results suggest that the dyslexic adults have a visual spatial attention deficit; however, the deficit does not reflect a reduced span in visual-spatial attention, but a deficit in processing a string of letters in parallel, probably due to difficulty in the coding of letter position.

Self-similar motion of a Nambu-Goto string

NASA Astrophysics Data System (ADS)

Igata, Takahisa; Houri, Tsuyoshi; Harada, Tomohiro

2016-09-01

We study the self-similar motion of a string in a self-similar spacetime by introducing the concept of a self-similar string, which is defined as the world sheet to which a homothetic vector field is tangent. It is shown that in Nambu-Goto theory, the equations of motion for a self-similar string reduce to those for a particle. Moreover, under certain conditions such as the hypersurface orthogonality of the homothetic vector field, the equations of motion for a self-similar string simplify to the geodesic equations on a (pseudo)Riemannian space. As a concrete example, we investigate a self-similar Nambu-Goto string in a spatially flat Friedmann-Lemaître-Robertson-Walker expanding universe with self-similarity and obtain solutions of open and closed strings, which have various nontrivial configurations depending on the rate of the cosmic expansion. For instance, we obtain a circular solution that evolves linearly in the cosmic time while keeping its configuration by the balance between the effects of the cosmic expansion and string tension. We also show the instability for linear radial perturbation of the circular solutions.

Wavelet-Bayesian inference of cosmic strings embedded in the cosmic microwave background

NASA Astrophysics Data System (ADS)

McEwen, J. D.; Feeney, S. M.; Peiris, H. V.; Wiaux, Y.; Ringeval, C.; Bouchet, F. R.

2017-12-01

Cosmic strings are a well-motivated extension to the standard cosmological model and could induce a subdominant component in the anisotropies of the cosmic microwave background (CMB), in addition to the standard inflationary component. The detection of strings, while observationally challenging, would provide a direct probe of physics at very high-energy scales. We develop a framework for cosmic string inference from observations of the CMB made over the celestial sphere, performing a Bayesian analysis in wavelet space where the string-induced CMB component has distinct statistical properties to the standard inflationary component. Our wavelet-Bayesian framework provides a principled approach to compute the posterior distribution of the string tension Gμ and the Bayesian evidence ratio comparing the string model to the standard inflationary model. Furthermore, we present a technique to recover an estimate of any string-induced CMB map embedded in observational data. Using Planck-like simulations, we demonstrate the application of our framework and evaluate its performance. The method is sensitive to Gμ ∼ 5 × 10-7 for Nambu-Goto string simulations that include an integrated Sachs-Wolfe contribution only and do not include any recombination effects, before any parameters of the analysis are optimized. The sensitivity of the method compares favourably with other techniques applied to the same simulations.

A string theory which isn't about strings

NASA Astrophysics Data System (ADS)

Lee, Kanghoon; Rey, Soo-Jong; Rosabal, J. A.

2017-11-01

Quantization of closed string proceeds with a suitable choice of worldsheet vacuum. A priori, the vacuum may be chosen independently for left-moving and right-moving sectors. We construct ab initio quantized bosonic string theory with left-right asymmetric worldsheet vacuum and explore its consequences and implications. We critically examine the validity of new vacuum and carry out first-quantization using standard operator formalism. Remarkably, the string spectrum consists only of a finite number of degrees of freedom: string gravity (massless spin-two, Kalb-Ramond and dilaton fields) and two massive spin-two Fierz-Pauli fields. The massive spin-two fields have negative norm, opposite mass-squared, and provides a Lee-Wick type extension of string gravity. We compute two physical observables: tree-level scattering amplitudes and one-loop cosmological constant. Scattering amplitude of four dilatons is shown to be a rational function of kinematic invariants, and in D = 26 factorizes into contributions of massless spin-two and a pair of massive spin-two fields. The string one loop partition function is shown to perfectly agree with one loop Feynman diagram of string gravity and two massive spin-two fields. In particular, it does not exhibit modular invariance. We critically compare our construction with recent studies and contrast differences.

Critical non-Abelian vortex in four dimensions and little string theory

NASA Astrophysics Data System (ADS)

Shifman, M.; Yung, A.

2017-08-01

As was shown recently, non-Abelian vortex strings supported in four-dimensional N =2 supersymmetric QCD with the U(2) gauge group and Nf=4 quark multiplets (flavors) become critical superstrings. In addition to the translational moduli, non-Abelian strings under consideration carry six orientational and size moduli. Together, they form a ten-dimensional target space required for a superstring to be critical. The target space of the string sigma model is a product of the flat four-dimensional space and a Calabi-Yau noncompact threefold, namely, the conifold. We study closed string states which emerge in four dimensions and identify them with hadrons of four-dimensional N =2 QCD. One massless state was found previously; it emerges as a massless hypermultiplet associated with the deformation of the complex structure of the conifold. In this paper, we find a number of massive states. To this end, we exploit the approach used in LST little string theory, namely, the equivalence between the critical string on the conifold and noncritical c =1 string with the Liouville field and a compact scalar at the self-dual radius. The states we find carry "baryonic" charge (its definition differs from standard). We interpret them as "monopole necklaces" formed (at strong coupling) by the closed string with confined monopoles attached.

Patterned-string tasks: relation between fine motor skills and visual-spatial abilities in parrots.

PubMed

Krasheninnikova, Anastasia

2013-01-01

String-pulling and patterned-string tasks are often used to analyse perceptual and cognitive abilities in animals. In addition, the paradigm can be used to test the interrelation between visual-spatial and motor performance. Two Australian parrot species, the galah (Eolophus roseicapilla) and the cockatiel (Nymphicus hollandicus), forage on the ground, but only the galah uses its feet to manipulate food. I used a set of string pulling and patterned-string tasks to test whether usage of the feet during foraging is a prerequisite for solving the vertical string pulling problem. Indeed, the two species used techniques that clearly differed in the extent of beak-foot coordination but did not differ in terms of their success in solving the string pulling task. However, when the visual-spatial skills of the subjects were tested, the galahs outperformed the cockatiels. This supports the hypothesis that the fine motor skills needed for advanced beak-foot coordination may be interrelated with certain visual-spatial abilities needed for solving patterned-string tasks. This pattern was also found within each of the two species on the individual level: higher motor abilities positively correlated with performance in patterned-string tasks. This is the first evidence of an interrelation between visual-spatial and motor abilities in non-mammalian animals.

Spontaneous knotting of an agitated string.

PubMed

Raymer, Dorian M; Smith, Douglas E

2007-10-16

It is well known that a jostled string tends to become knotted; yet the factors governing the "spontaneous" formation of various knots are unclear. We performed experiments in which a string was tumbled inside a box and found that complex knots often form within seconds. We used mathematical knot theory to analyze the knots. Above a critical string length, the probability P of knotting at first increased sharply with length but then saturated below 100%. This behavior differs from that of mathematical self-avoiding random walks, where P has been proven to approach 100%. Finite agitation time and jamming of the string due to its stiffness result in lower probability, but P approaches 100% with long, flexible strings. We analyzed the knots by calculating their Jones polynomials via computer analysis of digital photos of the string. Remarkably, almost all were identified as prime knots: 120 different types, having minimum crossing numbers up to 11, were observed in 3,415 trials. All prime knots with up to seven crossings were observed. The relative probability of forming a knot decreased exponentially with minimum crossing number and Möbius energy, mathematical measures of knot complexity. Based on the observation that long, stiff strings tend to form a coiled structure when confined, we propose a simple model to describe the knot formation based on random "braid moves" of the string end. Our model can qualitatively account for the observed distribution of knots and dependence on agitation time and string length.

A method for the automated processing and analysis of images of ULVWF-platelet strings.

PubMed

Reeve, Scott R; Abbitt, Katherine B; Cruise, Thomas D; Hose, D Rodney; Lawford, Patricia V

2013-01-01

We present a method for identifying and analysing unusually large von Willebrand factor (ULVWF)-platelet strings in noisy low-quality images. The method requires relatively inexpensive, non-specialist equipment and allows multiple users to be employed in the capture of images. Images are subsequently enhanced and analysed, using custom-written software to perform the processing tasks. The formation and properties of ULVWF-platelet strings released in in vitro flow-based assays have recently become a popular research area. Endothelial cells are incorporated into a flow chamber, chemically stimulated to induce ULVWF release and perfused with isolated platelets which are able to bind to the ULVWF to form strings. The numbers and lengths of the strings released are related to characteristics of the flow. ULVWF-platelet strings are routinely identified by eye from video recordings captured during experiments and analysed manually using basic NIH image software to determine the number of strings and their lengths. This is a laborious, time-consuming task and a single experiment, often consisting of data from four to six dishes of endothelial cells, can take 2 or more days to analyse. The method described here allows analysis of the strings to provide data such as the number and length of strings, number of platelets per string and the distance between each platelet to be found. The software reduces analysis time, and more importantly removes user subjectivity, producing highly reproducible results with an error of less than 2% when compared with detailed manual analysis.

Characterization of binary string statistics for syntactic landmine detection

NASA Astrophysics Data System (ADS)

Nasif, Ahmed O.; Mark, Brian L.; Hintz, Kenneth J.

2011-06-01

Syntactic landmine detection has been proposed to detect and classify non-metallic landmines using ground penetrating radar (GPR). In this approach, the GPR return is processed to extract characteristic binary strings for landmine and clutter discrimination. In our previous work, we discussed the preprocessing methodology by which the amplitude information of the GPR A-scan signal can be effectively converted into binary strings, which identify the impedance discontinuities in the signal. In this work, we study the statistical properties of the binary string space. In particular, we develop a Markov chain model to characterize the observed bit sequence of the binary strings. The state is defined as the number of consecutive zeros between two ones in the binarized A-scans. Since the strings are highly sparse (the number of zeros is much greater than the number of ones), defining the state this way leads to fewer number of states compared to the case where each bit is defined as a state. The number of total states is further reduced by quantizing the number of consecutive zeros. In order to identify the correct order of the Markov model, the mean square difference (MSD) between the transition matrices of mine strings and non-mine strings is calculated up to order four using training data. The results show that order one or two maximizes this MSD. The specification of the transition probabilities of the chain can be used to compute the likelihood of any given string. Such a model can be used to identify characteristic landmine strings during the training phase. These developments on modeling and characterizing the string statistics can potentially be part of a real-time landmine detection algorithm that identifies landmine and clutter in an adaptive fashion.

Drill string transmission line

DOEpatents

Hall, David R.; Hall, Jr., H. Tracy; Pixton, David S.; Bradford, Kline; Fox, Joe

2006-03-28

A transmission line assembly for transmitting information along a downhole tool comprising a pin end, a box end, and a central bore traveling between the pin end and the box end, is disclosed in one embodiment of the invention as including a protective conduit. A transmission line is routed through the protective conduit. The protective conduit is routed through the central bore and the ends of the protective conduit are routed through channels formed in the pin end and box end of the downhole tool. The protective conduit is elastically forced into a spiral or other non-linear path along the interior surface of the central bore by compressing the protective conduit to a length within the downhole tool shorter than the protective conduit.

Temperature dependence of Fe/++/ crystal field spectra - Implications to mineralogical mapping of planetary surfaces

NASA Technical Reports Server (NTRS)

Sung, C.-M.; Singer, R. B.; Parkin, K. M.; Burns, R. G.; Osborne, M.

1977-01-01

Results are reported of Fe(++) crystal field spectral measurements for olivines and pyroxenes up to 400 C. The results are correlated with crystal structure data at elevated temperatures, and the validity of remote-sensed identifications of minerals on hot surfaces of the moon and Mercury is assessed. Two techniques were used to obtain spectra of minerals at elevated temperatures using a spectrophotometer. One employed a diamond cell assembly or a specially designed sample holder to measure polarized absorption spectra of heated single crystals. For the other technique, a sample holder was designed to attach to a diffuse reflectance accessory to produce reflectance spectra of heated powdered samples. Polarized absorption spectra of forsterite at 20-400 C are shown in a graph. Other graphs show the temperature dependence of Fe(++) crystal field bands in olivines, the diffuse reflectance spectra of olivine at 40-400 C, the polarization absorption spectra of orthopyroxene at 30-400 C, the diffuse reflectance spectra of pigeonite at 40-400 C, and unpolarized absorption spectra of lunar pyroxene from Apollo 15 rock 15058.

Drill string enclosure

DOEpatents

Jorgensen, D.K.; Kuhns, D.J.; Wiersholm, O.; Miller, T.A.

1993-03-02

The drill string enclosure consists of six component parts, including; a top bracket, an upper acrylic cylinder, an acrylic drill casing guide, a lower acrylic cylinder, a bottom bracket, and three flexible ducts. The upper acrylic cylinder is optional based upon the drill string length. The drill string enclosure allows for an efficient drill and sight operation at a hazardous waste site.

Drill string enclosure

DOEpatents

Jorgensen, Douglas K.; Kuhns, Douglass J.; Wiersholm, Otto; Miller, Timothy A.

1993-01-01

The drill string enclosure consists of six component parts, including; a top bracket, an upper acrylic cylinder, an acrylic drill casing guide, a lower acrylic cylinder, a bottom bracket, and three flexible ducts. The upper acrylic cylinder is optional based upon the drill string length. The drill string enclosure allows for an efficient drill and sight operation at a hazardous waste site.

The Illusive Sound of a Bundengan String

ERIC Educational Resources Information Center

Parikesit, Gea O. F.; Kusumaningtyas, Indraswari

2017-01-01

The acoustics of a vibrating string is frequently used as a simple example of how physics can be applied in the field of art. In this paper we describe a simple experiment and analysis using a clipped string. This experiment can generate scientific curiosity among students because the sound generated by the string seem surprising to our senses.…

Hammered Strings

NASA Astrophysics Data System (ADS)

Rossing, Thomas D.

In the next three chapters we consider the science of hammered string instruments. In this chapter, we present a brief discussion of vibrating strings excited by a hard or soft hammer. Chapter 20 discusses the most important hammered string instrument, the piano - probably the most versatile and popular of all musical instruments. Chapter 21 discusses hammered dulcimers, especially the American folk dulcimer.

Reflecting on the Rationales for String Study in Schools

ERIC Educational Resources Information Center

Brenner, Brenda

2010-01-01

This essay will address the question of the value of string education by first examining arguments offered on behalf of string education in schools, and noting their somewhat mixed value. Then a set of arguments will be presented that may have greater promise. The focal point will be the establishment of excellence in string teaching and playing.…

Got 'Em on a String: The Skills, Knowledge and Attributes of Group String Teachers in Queensland

ERIC Educational Resources Information Center

Ashton, Graham R.; Klopper, Christopher J.

2018-01-01

There appear to be considerable differences in the outcomes of group string teaching programs in Queensland. Some teachers appear to be able to generate, manage, and administrate highly efficacious programs; others seem to experience difficulty transferring the knowledge and skills required for students to become successful string players. As a…

Upgrades to the Closed Bomb Facility and Measurement of Propellant Burning Rate

DTIC Science & Technology

2010-01-01

attenuation ratio myScope.WriteString (":CHAN1:RANGe " + CStr (Me.tbVRange.value)) ‘Sets the vertical voltage range myScope.WriteString (":CHAN1...OFFSet " + CStr (Me.tboffset.value)) ‘Sets the voltage offset myScope.WriteString ":CHAN1:PROB:STYP SING" ‘Sets the signal type...myScope.WriteString (":TRIG:EDGE:SOURce CHAN" + CStr (Int(val(GetRegistry(CollType, cCHANNEL))))) ‘Sets the source channel myScope.WriteString

Bell's Inequalities, Superquantum Correlations, and String Theory

DOE PAGES

Chang, Lay Nam; Lewis, Zachary; Minic, Djordje; ...

2011-01-01

We offermore » an interpretation of superquantum correlations in terms of a “doubly” quantum theory. We argue that string theory, viewed as a quantum theory with two deformation parameters, the string tension α ' , and the string coupling constant g s , is such a superquantum theory that transgresses the usual quantum violations of Bell's inequalities. We also discuss the ℏ → ∞ limit of quantum mechanics in this context. As a superquantum theory, string theory should display distinct experimentally observable supercorrelations of entangled stringy states.« less

The Hubble Web: The Dark Matter Problem and Cosmic Strings

NASA Astrophysics Data System (ADS)

Alexander, Stephon

2009-07-01

I propose a reinterpretation of cosmic dark matter in which a rigid network of cosmic strings formed at the end of inflation. The cosmic strings fulfill three functions: At recombination they provide an accretion mechanism for virializing baryonic and warm dark matter into disks. These cosmic strings survive as configurations which thread spiral and elliptical galaxies leading to the observed flatness of rotation curves and the Tully-Fisher relation. We find a relationship between the rotational velocity of the galaxy and the string tension and discuss the testability of this model.

Surface controlled blade stabilizer

DOEpatents

Russell, Larry R.

1983-01-01

Drill string stabilizer apparatus, controllable to expand and retract entirely from the surface by control of drill string pressure, wherein increase of drill string pressure from the surface closes a valve to create a piston means which is moved down by drill string pressure to expand the stabilizer blades, said valve being opened and the piston moving upward upon reduction of drill string pressure to retract the stabilizer blades. Upward and downward movements of the piston and an actuator sleeve therebelow are controlled by a barrel cam acting between the housing and the actuator sleeve.

Null cosmological singularities and free strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

Narayan, K.

2010-03-15

We continue exploring free strings in the background of null Kasner-like cosmological singularities, following K. Narayan, arXiv:0904.4532. We study the free string Schrodinger wave functional along the lines of K. Narayan, arXiv:0807.1517. We find the wave functional to be nonsingular in the vicinity of singularities whose Kasner exponents satisfy certain relations. We compare this with the description in other variables. We then study certain regulated versions of these singularities where the singular region is replaced by a substringy but nonsingular region and study the string spectra in these backgrounds. The string modes can again be solved for exactly, giving somemore » insight into how string oscillator states get excited near the singularity.« less

CMB temperature trispectrum of cosmic strings

NASA Astrophysics Data System (ADS)

Hindmarsh, Mark; Ringeval, Christophe; Suyama, Teruaki

2010-03-01

We provide an analytical expression for the trispectrum of the cosmic microwave background (CMB) temperature anisotropies induced by cosmic strings. Our result is derived for the small angular scales under the assumption that the temperature anisotropy is induced by the Gott-Kaiser-Stebbins effect. The trispectrum is predicted to decay with a noninteger power-law exponent ℓ-ρ with 6<ρ<7, depending on the string microstructure, and thus on the string model. For Nambu-Goto strings, this exponent is related to the string mean square velocity and the loop distribution function. We then explore two classes of wave number configuration in Fourier space, the kite and trapezium quadrilaterals. The trispectrum can be of any sign and appears to be strongly enhanced for all squeezed quadrilaterals.

Galileon string measure and other modified measure extended objects

NASA Astrophysics Data System (ADS)

Vulfs, T. O.; Guendelman, E. I.

2017-12-01

We show that it is possible to formulate string theory as a “Galileon string theory”. The Galileon field χ enters in the definition of the integration measure in the action. Following the methods of the modified measure string theory, we find that the final equations are again those of the sigma-model. Moreover, the string tension appears again as an additional dynamical degree of freedom. At the same time, the theory satisfies all requirements of the Galileon higher derivative theory at the action level while the equations of motion are still of the second-order. A Galileon symmetry is displayed explicitly in the conformal string worldsheet frame. Also, we define the Galileon gauge transformations. Generalizations to branes with other modified measures are discussed.

Large-D gravity and low-D strings.

PubMed

Emparan, Roberto; Grumiller, Daniel; Tanabe, Kentaro

2013-06-21

We show that in the limit of a large number of dimensions a wide class of nonextremal neutral black holes has a universal near-horizon limit. The limiting geometry is the two-dimensional black hole of string theory with a two-dimensional target space. Its conformal symmetry explains the properties of massless scalars found recently in the large-D limit. For black branes with string charges, the near-horizon geometry is that of the three-dimensional black strings of Horne and Horowitz. The analogies between the α' expansion in string theory and the large-D expansion in gravity suggest a possible effective string description of the large-D limit of black holes. We comment on applications to several subjects, in particular to the problem of critical collapse.

Quantum vacuum interaction between two cosmic strings revisited

NASA Astrophysics Data System (ADS)

Muñoz-Castañeda, J. M.; Bordag, M.

2014-03-01

We reconsider the quantum vacuum interaction energy between two straight parallel cosmic strings. This problem was discussed several times in an approach treating both strings perturbatively and treating only one perturbatively. Here we point out that a simplifying assumption made by Bordag [Ann. Phys. (Berlin) 47, 93 (1990).] can be justified and show that, despite the global character of the background, the perturbative approach delivers a correct result. We consider the applicability of the scattering methods, developed in the past decade for the Casimir effect, for the cosmic string and find it not applicable. We calculate the scattering T-operator on one string. Finally, we consider the vacuum interaction of two strings when each carries a two-dimensional delta function potential.

Using group model building to understand factors that influence childhood obesity in an urban environment.

PubMed

Nelson, David A; Simenz, Christopher J; OʼConnor, Sarah P; Greer, Yvonne D; Bachrach, Ann L; Shields, Tony; Fuller, Brett A; Horrigan, Katie; Pritchard, Kathleen; Springer, Judy B; Meurer, John R

2015-01-01

Despite increased attention, conventional views of obesity are based upon individual behaviors, and children and parents living with obesity are assumed to be the primary problem solvers. Instead of focusing exclusively on individual reduction behaviors for childhood obesity, greater focus should be placed on better understanding existing community systems and their effects on obesity. The Milwaukee Childhood Obesity Prevention Project is a community-based coalition established to develop policy and environmental change strategies to impact childhood obesity in Milwaukee, Wisconsin. The coalition conducted a Group Model Building exercise to better understand root causes of childhood obesity in its community. Group Model Building is a process by which a group systematically engages in model construction to better understand the systems that are in place. It helps participants make their mental models explicit through a careful and consistent process to test assumptions. This process has 3 main components: (1) assembling a team of participants; (2) conducting a behavior-over-time graphs exercise; and (3) drawing the causal loop diagram exercise. The behavior-over-time graph portion produced 61 graphs in 10 categories. The causal loop diagram yielded 5 major themes and 7 subthemes. Factors that influence childhood obesity are varied, and it is important to recognize that no single solution exists. The perspectives from this exercise provided a means to create a process for dialogue and commitment by stakeholders and partnerships to build capacity for change within the community.

Method to prevent sulfur accumulation in membrane electrode assembly

DOEpatents

Steimke, John L; Steeper, Timothy J; Herman, David T

2014-04-29

A method of operating a hybrid sulfur electrolyzer to generate hydrogen is provided that includes the steps of providing an anolyte with a concentration of sulfur dioxide, and applying a current. During steady state generation of hydrogen a plot of applied current density versus concentration of sulfur dioxide is below a boundary line. The boundary line may be linear and extend through the origin of the graph with a slope of 0.001 in which the current density is measured in mA/cm2 and the concentration of sulfur dioxide is measured in moles of sulfur dioxide per liter of anolyte.

Cluster analysis in systems of magnetic spheres and cubes

NASA Astrophysics Data System (ADS)

Pyanzina, E. S.; Gudkova, A. V.; Donaldson, J. G.; Kantorovich, S. S.

2017-06-01

In the present work we use molecular dynamics simulations and graph-theory based cluster analysis to compare self-assembly in systems of magnetic spheres, and cubes where the dipole moment is oriented along the side of the cube in the [001] crystallographic direction. We show that under the same conditions cubes aggregate far less than their spherical counterparts. This difference can be explained in terms of the volume of phase space in which the formation of the bond is thermodynamically advantageous. It follows that this volume is much larger for a dipolar sphere than for a dipolar cube.

Fault-Tolerant Coding for State Machines

NASA Technical Reports Server (NTRS)

Naegle, Stephanie Taft; Burke, Gary; Newell, Michael

2008-01-01

Two reliable fault-tolerant coding schemes have been proposed for state machines that are used in field-programmable gate arrays and application-specific integrated circuits to implement sequential logic functions. The schemes apply to strings of bits in state registers, which are typically implemented in practice as assemblies of flip-flop circuits. If a single-event upset (SEU, a radiation-induced change in the bit in one flip-flop) occurs in a state register, the state machine that contains the register could go into an erroneous state or could hang, by which is meant that the machine could remain in undefined states indefinitely. The proposed fault-tolerant coding schemes are intended to prevent the state machine from going into an erroneous or hang state when an SEU occurs. To ensure reliability of the state machine, the coding scheme for bits in the state register must satisfy the following criteria: 1. All possible states are defined. 2. An SEU brings the state machine to a known state. 3. There is no possibility of a hang state. 4. No false state is entered. 5. An SEU exerts no effect on the state machine. Fault-tolerant coding schemes that have been commonly used include binary encoding and "one-hot" encoding. Binary encoding is the simplest state machine encoding and satisfies criteria 1 through 3 if all possible states are defined. Binary encoding is a binary count of the state machine number in sequence; the table represents an eight-state example. In one-hot encoding, N bits are used to represent N states: All except one of the bits in a string are 0, and the position of the 1 in the string represents the state. With proper circuit design, one-hot encoding can satisfy criteria 1 through 4. Unfortunately, the requirement to use N bits to represent N states makes one-hot coding inefficient.

Racquet string tension directly affects force experienced at the elbow: implications for the development of lateral epicondylitis in tennis players

PubMed Central

Mohandhas, Badri R; Makaram, Navnit; Drew, Tim S; Wang, Weijie; Arnold, Graham P

2016-01-01

Background Lateral epicondylitis (LE) occurs in almost half of all tennis players. Racket-string tension is considered to be an important factor influencing the development of LE. No literature yet exists that substantiates how string-tension affects force transmission to the elbow, as implicated in LE development. We establish a quantitative relationship between string-tension and elbow loading, analyzing tennis strokes using rackets with varying string-tensions. Methods Twenty recreational tennis players simulated backhand tennis strokes using three rackets strung at tensions of 200 N, 222 N and 245 N. Accelerometers recorded accelerations at the elbow, wrist and racket handle. Average peak acceleration was determined to correlate string-tension with elbow loading. Results Statistically significant differences (p < 0.05) were observed when average peak acceleration at the elbow at 200 N string-tension (acceleration of 5.58 m/s2) was compared with that at 222 N tension (acceleration of 6.83 m/s2) and 245 N tension (acceleration of 7.45 m/s2). The 200 N racket induced the least acceleration at the elbow. Conclusions Although parameters determining force transmission to the elbow during a tennis stroke are complex, the present study was able to control these parameters, isolating the effect of string-tension. Lower string-tensions transmit less force to the elbow in backhand strokes. Reducing string-tension should be considered favourably with respect to reducing the risk of developing LE. PMID:27583017

Integrated hydraulic booster/tool string technology for unfreezing of stuck downhole strings in horizontal wells

NASA Astrophysics Data System (ADS)

Tian, Q. Z.

2017-12-01

It is common to use a jarring tool to unfreeze stuck downhole string. However, in a horizontal well, influenced by the friction caused by the deviated section, jarring effect is poor; on the other hand, the forcing point can be located in the horizontal section by a hydraulic booster and the friction can be reduced, but it is time-consuming and easy to break downhole string using a large-tonnage and constant pull force. A hydraulic booster - jar tool string has been developed for unfreezing operation in horizontal wells. The technical solution involves three elements: a two-stage parallel spring cylinder structure for increasing the energy storage capacity of spring accelerators; multiple groups of spring accelerators connected in series to increase the working stroke; a hydraulic booster intensifying jarring force. The integrated unfreezing tool string based on these three elements can effectively overcome the friction caused by a deviated borehole, and thus unfreeze a stuck string with the interaction of the hydraulic booster and the mechanical jar which form an alternatively dynamic load. Experimental results show that the jarring performance parameters of the hydraulic booster-jar unfreezing tool string for the horizontal wells are in accordance with original design requirements. Then field technical parameters were developed based on numerical simulation and experimental data. Field application shows that the hydraulic booster-jar unfreezing tool string is effective to free stuck downhole tools in a horizontal well, and it reduces hook load by 80% and lessens the requirement of workover equipment. This provides a new technology to unfreeze stuck downhole string in a horizontal well.

Effect of changing of the parameters of the cable network of monitoring systems of high-rise buildings on the basis of string converters on their operability

NASA Astrophysics Data System (ADS)

Gusev, Nikolay; Svatovskaya, Larisa; Kucherenko, Alexandr

2018-03-01

The article is devoted to the problem of improving the reliability of monitoring systems for the technical conditions of high-rise buildings. The improvement is based on string sensors with an impulsed excitation method ensuring the maximum signal-to-noise ratio at their output. The influence of the parameters of the monitoring system on the shape of the excitation impulses of the string, and, consequently, on the amplitude of the string vibration of the string converter is also considered in the article. It has been experimentally proved that the parameters of the excitation impulses of the string converters. The article presents the results of the experiments showing the effect of the fronts duration of the excitation impulses on the amplitude of the oscillations of the strings. The influence of the fronts duration of the excitation impulse with the frontal lengths up to 0.5 ms is studied at the excitation impulse duration not exceeding 0.5 times the duration of natural oscillation periods of the string. The experimental data are compared with the theoretical ones and hypotheses explaining their difference are advanced. The article suggests some methods of reducing the influence of the cable-switching equipment system parameters on the amplitude of string oscillations. The possibilities of improving the reliability of the systems developed on the basis of string sensors with an impulsed excitation method and used for monitoring the technical conditions of the high-rise buildings are proposed.

Whiteheadian Actual Entitities and String Theory

NASA Astrophysics Data System (ADS)

Bracken, Joseph A.

2012-06-01

In the philosophy of Alfred North Whitehead, the ultimate units of reality are actual entities, momentary self-constituting subjects of experience which are too small to be sensibly perceived. Their combination into "societies" with a "common element of form" produces the organisms and inanimate things of ordinary sense experience. According to the proponents of string theory, tiny vibrating strings are the ultimate constituents of physical reality which in harmonious combination yield perceptible entities at the macroscopic level of physical reality. Given that the number of Whiteheadian actual entities and of individual strings within string theory are beyond reckoning at any given moment, could they be two ways to describe the same non-verifiable foundational reality? For example, if one could establish that the "superject" or objective pattern of self- constitution of an actual entity vibrates at a specific frequency, its affinity with the individual strings of string theory would be striking. Likewise, if one were to claim that the size and complexity of Whiteheadian 'societies" require different space-time parameters for the dynamic interrelationship of constituent actual entities, would that at least partially account for the assumption of 10 or even 26 instead of just 3 dimensions within string theory? The overall conclusion of this article is that, if a suitably revised understanding of Whiteheadian metaphysics were seen as compatible with the philosophical implications of string theory, their combination into a single world view would strengthen the plausibility of both schemes taken separately. Key words: actual entities, subject/superjects, vibrating strings, structured fields of activity, multi-dimensional physical reality.

Detection of low tension cosmic superstrings

NASA Astrophysics Data System (ADS)

Chernoff, David F.; Tye, S.-H. Henry

2018-05-01

Cosmic superstrings of string theory differ from conventional cosmic strings of field theory. We review how the physical and cosmological properties of the macroscopic string loops influence experimental searches for these relics from the epoch of inflation. The universe's average density of cosmic superstrings can easily exceed that of conventional cosmic strings having the same tension by two or more orders of magnitude. The cosmological behavior of the remnant superstring loops is qualitatively distinct because the string tension is exponentially smaller than the string scale in flux compactifications in string theory. Low tension superstring loops live longer, experience less recoil (rocket effect from the emission of gravitational radiation) and tend to cluster like dark matter in galaxies. Clustering enhances the string loop density with respect to the cosmological average in collapsed structures in the universe. The enhancement at the Sun's position is ~ 105. We develop a model encapsulating the leading order string theory effects, the current understanding of the string network loop production and the influence of cosmological structure formation suitable for forecasting the detection of superstring loops via optical microlensing, gravitational wave bursts and fast radio bursts. We evaluate the detection rate of bursts from cusps and kinks by LIGO- and LISA-like experiments. Clustering dominates rates for G μ < 10‑11.9 (LIGO cusp), G μ<10‑11.2 (LISA cusp), G μ < 10‑10.6 (LISA kink); we forecast experimentally accessible gravitational wave bursts for G μ>10‑14.2 (LIGO cusp), G μ>10‑15 (LISA cusp) and G μ>10‑ 14.1 (LISA kink).

Constraints on cosmic strings using data from the first Advanced LIGO observing run

NASA Astrophysics Data System (ADS)

Abbott, B. P.; Abbott, R.; Abbott, T. D.; Acernese, F.; Ackley, K.; Adams, C.; Adams, T.; Addesso, P.; Adhikari, R. X.; Adya, V. B.; Affeldt, C.; Afrough, M.; Agarwal, B.; Agathos, M.; Agatsuma, K.; Aggarwal, N.; Aguiar, O. D.; Aiello, L.; Ain, A.; Ajith, P.; Allen, B.; Allen, G.; Allocca, A.; Altin, P. A.; Amato, A.; Ananyeva, A.; Anderson, S. B.; Anderson, W. G.; Antier, S.; Appert, S.; Arai, K.; Araya, M. C.; Areeda, J. S.; Arnaud, N.; Arun, K. G.; Ascenzi, S.; Ashton, G.; Ast, M.; Aston, S. M.; Astone, P.; Aufmuth, P.; Aulbert, C.; AultONeal, K.; Avila-Alvarez, A.; Babak, S.; Bacon, P.; Bader, M. K. M.; Bae, S.; Baker, P. T.; Baldaccini, F.; Ballardin, G.; Ballmer, S. W.; Banagiri, S.; Barayoga, J. C.; Barclay, S. E.; Barish, B. C.; Barker, D.; Barone, F.; Barr, B.; Barsotti, L.; Barsuglia, M.; Barta, D.; Bartlett, J.; Bartos, I.; Bassiri, R.; Basti, A.; Batch, J. C.; Baune, C.; Bawaj, M.; Bazzan, M.; Bécsy, B.; Beer, C.; Bejger, M.; Belahcene, I.; Bell, A. S.; Berger, B. K.; Bergmann, G.; Berry, C. P. L.; Bersanetti, D.; Bertolini, A.; Betzwieser, J.; Bhagwat, S.; Bhandare, R.; Bilenko, I. A.; Billingsley, G.; Billman, C. R.; Birch, J.; Birney, R.; Birnholtz, O.; Biscans, S.; Bisht, A.; Bitossi, M.; Biwer, C.; Bizouard, M. A.; Blackburn, J. K.; Blackman, J.; Blair, C. D.; Blair, D. G.; Blair, R. M.; Bloemen, S.; Bock, O.; Bode, N.; Boer, M.; Bogaert, G.; Bohe, A.; Bondu, F.; Bonnand, R.; Boom, B. A.; Bork, R.; Boschi, V.; Bose, S.; Bouffanais, Y.; Bozzi, A.; Bradaschia, C.; Brady, P. R.; Braginsky, V. B.; Branchesi, M.; Brau, J. E.; Briant, T.; Brillet, A.; Brinkmann, M.; Brisson, V.; Brockill, P.; Broida, J. E.; Brooks, A. F.; Brown, D. A.; Brown, D. D.; Brown, N. M.; Brunett, S.; Buchanan, C. C.; Buikema, A.; Bulik, T.; Bulten, H. J.; Buonanno, A.; Buskulic, D.; Buy, C.; Byer, R. L.; Cabero, M.; Cadonati, L.; Cagnoli, G.; Cahillane, C.; Calderón Bustillo, J.; Callister, T. A.; Calloni, E.; Camp, J. B.; Canepa, M.; Canizares, P.; Cannon, K. C.; Cao, H.; Cao, J.; Capano, C. D.; Capocasa, E.; Carbognani, F.; Caride, S.; Carney, M. F.; Casanueva Diaz, J.; Casentini, C.; Caudill, S.; Cavaglià, M.; Cavalier, F.; Cavalieri, R.; Cella, G.; Cepeda, C. B.; Cerboni Baiardi, L.; Cerretani, G.; Cesarini, E.; Chamberlin, S. J.; Chan, M.; Chao, S.; Charlton, P.; Chassande-Mottin, E.; Chatterjee, D.; Cheeseboro, B. D.; Chen, H. Y.; Chen, Y.; Cheng, H.-P.; Chincarini, A.; Chiummo, A.; Chmiel, T.; Cho, H. S.; Cho, M.; Chow, J. H.; Christensen, N.; Chu, Q.; Chua, A. J. K.; Chua, S.; Chung, A. K. W.; Chung, S.; Ciani, G.; Ciolfi, R.; Cirelli, C. E.; Cirone, A.; Clara, F.; Clark, J. A.; Cleva, F.; Cocchieri, C.; Coccia, E.; Cohadon, P.-F.; Colla, A.; Collette, C. G.; Cominsky, L. R.; Constancio, M.; Conti, L.; Cooper, S. J.; Corban, P.; Corbitt, T. R.; Corley, K. R.; Cornish, N.; Corsi, A.; Cortese, S.; Costa, C. A.; Coughlin, M. W.; Coughlin, S. B.; Coulon, J.-P.; Countryman, S. T.; Couvares, P.; Covas, P. B.; Cowan, E. E.; Coward, D. M.; Cowart, M. J.; Coyne, D. C.; Coyne, R.; Creighton, J. D. E.; Creighton, T. D.; Cripe, J.; Crowder, S. G.; Cullen, T. J.; Cumming, A.; Cunningham, L.; Cuoco, E.; Dal Canton, T.; Danilishin, S. L.; D'Antonio, S.; Danzmann, K.; Dasgupta, A.; Da Silva Costa, C. F.; Dattilo, V.; Dave, I.; Davier, M.; Davis, D.; Daw, E. J.; Day, B.; De, S.; DeBra, D.; Degallaix, J.; De Laurentis, M.; Deléglise, S.; Del Pozzo, W.; Denker, T.; Dent, T.; Dergachev, V.; De Rosa, R.; DeRosa, R. T.; DeSalvo, R.; Devenson, J.; Devine, R. C.; Dhurandhar, S.; Díaz, M. C.; Di Fiore, L.; Di Giovanni, M.; Di Girolamo, T.; Di Lieto, A.; Di Pace, S.; Di Palma, I.; Di Renzo, F.; Doctor, Z.; Dolique, V.; Donovan, F.; Dooley, K. L.; Doravari, S.; Dorrington, I.; Douglas, R.; Dovale Álvarez, M.; Downes, T. P.; Drago, M.; Drever, R. W. P.; Driggers, J. C.; Du, Z.; Ducrot, M.; Duncan, J.; Dwyer, S. E.; Edo, T. B.; Edwards, M. C.; Effler, A.; Eggenstein, H.-B.; Ehrens, P.; Eichholz, J.; Eikenberry, S. S.; Eisenstein, R. A.; Essick, R. C.; Etienne, Z. B.; Etzel, T.; Evans, M.; Evans, T. M.; Factourovich, M.; Fafone, V.; Fair, H.; Fairhurst, S.; Fan, X.; Farinon, S.; Farr, B.; Farr, W. M.; Fauchon-Jones, E. J.; Favata, M.; Fays, M.; Fehrmann, H.; Feicht, J.; Fejer, M. M.; Fernandez-Galiana, A.; Ferrante, I.; Ferreira, E. C.; Ferrini, F.; Fidecaro, F.; Fiori, I.; Fiorucci, D.; Fisher, R. P.; Fitz-Axen, M.; Flaminio, R.; Fletcher, M.; Fong, H.; Forsyth, P. W. F.; Forsyth, S. S.; Fournier, J.-D.; Frasca, S.; Frasconi, F.; Frei, Z.; Freise, A.; Frey, R.; Frey, V.; Fries, E. M.; Fritschel, P.; Frolov, V. V.; Fulda, P.; Fyffe, M.; Gabbard, H.; Gabel, M.; Gadre, B. U.; Gaebel, S. M.; Gair, J. R.; Gammaitoni, L.; Ganija, M. R.; Gaonkar, S. G.; Garufi, F.; Gaudio, S.; Gaur, G.; Gayathri, V.; Gehrels, N.; Gemme, G.; Genin, E.; Gennai, A.; George, D.; George, J.; Gergely, L.; Germain, V.; Ghonge, S.; Ghosh, Abhirup; Ghosh, Archisman; Ghosh, S.; Giaime, J. A.; Giardina, K. D.; Giazotto, A.; Gill, K.; Glover, L.; Goetz, E.; Goetz, R.; Gomes, S.; González, G.; Gonzalez Castro, J. M.; Gopakumar, A.; Gorodetsky, M. L.; Gossan, S. E.; Gosselin, M.; Gouaty, R.; Grado, A.; Graef, C.; Granata, M.; Grant, A.; Gras, S.; Gray, C.; Greco, G.; Green, A. C.; Groot, P.; Grote, H.; Grunewald, S.; Gruning, P.; Guidi, G. M.; Guo, X.; Gupta, A.; Gupta, M. K.; Gushwa, K. E.; Gustafson, E. K.; Gustafson, R.; Hall, B. R.; Hall, E. D.; Hammond, G.; Haney, M.; Hanke, M. M.; Hanks, J.; Hanna, C.; Hannam, M. D.; Hannuksela, O. A.; Hanson, J.; Hardwick, T.; Harms, J.; Harry, G. M.; Harry, I. W.; Hart, M. J.; Haster, C.-J.; Haughian, K.; Healy, J.; Heidmann, A.; Heintze, M. C.; Heitmann, H.; Hello, P.; Hemming, G.; Hendry, M.; Heng, I. S.; Hennig, J.; Henry, J.; Heptonstall, A. W.; Heurs, M.; Hild, S.; Hoak, D.; Hofman, D.; Holt, K.; Holz, D. E.; Hopkins, P.; Horst, C.; Hough, J.; Houston, E. A.; Howell, E. J.; Hu, Y. M.; Huerta, E. A.; Huet, D.; Hughey, B.; Husa, S.; Huttner, S. H.; Huynh-Dinh, T.; Indik, N.; Ingram, D. R.; Inta, R.; Intini, G.; Isa, H. N.; Isac, J.-M.; Isi, M.; Iyer, B. R.; Izumi, K.; Jacqmin, T.; Jani, K.; Jaranowski, P.; Jawahar, S.; Jiménez-Forteza, F.; Johnson, W. W.; Jones, D. I.; Jones, R.; Jonker, R. J. G.; Ju, L.; Junker, J.; Kalaghatgi, C. V.; Kalogera, V.; Kandhasamy, S.; Kang, G.; Kanner, J. B.; Karki, S.; Karvinen, K. S.; Kasprzack, M.; Katolik, M.; Katsavounidis, E.; Katzman, W.; Kaufer, S.; Kawabe, K.; Kéfélian, F.; Keitel, D.; Kemball, A. J.; Kennedy, R.; Kent, C.; Key, J. S.; Khalili, F. Y.; Khan, I.; Khan, S.; Khan, Z.; Khazanov, E. A.; Kijbunchoo, N.; Kim, Chunglee; Kim, J. C.; Kim, W.; Kim, W. S.; Kim, Y.-M.; Kimbrell, S. J.; King, E. J.; King, P. J.; Kirchhoff, R.; Kissel, J. S.; Kleybolte, L.; Klimenko, S.; Koch, P.; Koehlenbeck, S. M.; Koley, S.; Kondrashov, V.; Kontos, A.; Korobko, M.; Korth, W. Z.; Kowalska, I.; Kozak, D. B.; Krämer, C.; Kringel, V.; Krishnan, B.; Królak, A.; Kuehn, G.; Kumar, P.; Kumar, R.; Kumar, S.; Kuo, L.; Kutynia, A.; Kwang, S.; Lackey, B. D.; Lai, K. H.; Landry, M.; Lang, R. N.; Lange, J.; Lantz, B.; Lanza, R. K.; Lartaux-Vollard, A.; Lasky, P. D.; Laxen, M.; Lazzarini, A.; Lazzaro, C.; Leaci, P.; Leavey, S.; Lee, C. H.; Lee, H. K.; Lee, H. M.; Lee, H. W.; Lee, K.; Lehmann, J.; Lenon, A.; Leonardi, M.; Leroy, N.; Letendre, N.; Levin, Y.; Li, T. G. F.; Libson, A.; Littenberg, T. B.; Liu, J.; Lo, R. K. L.; Lockerbie, N. A.; London, L. T.; Lord, J. E.; Lorenzini, M.; Loriette, V.; Lormand, M.; Losurdo, G.; Lough, J. D.; Lousto, C. O.; Lovelace, G.; Lück, H.; Lumaca, D.; Lundgren, A. P.; Lynch, R.; Ma, Y.; Macfoy, S.; Machenschalk, B.; MacInnis, M.; Macleod, D. M.; Magaña Hernandez, I.; Magaña-Sandoval, F.; Magaña Zertuche, L.; Magee, R. M.; Majorana, E.; Maksimovic, I.; Man, N.; Mandic, V.; Mangano, V.; Mansell, G. L.; Manske, M.; Mantovani, M.; Marchesoni, F.; Marion, F.; Márka, S.; Márka, Z.; Markakis, C.; Markosyan, A. S.; Maros, E.; Martelli, F.; Martellini, L.; Martin, I. W.; Martynov, D. V.; Mason, K.; Masserot, A.; Massinger, T. J.; Masso-Reid, M.; Mastrogiovanni, S.; Matas, A.; Matichard, F.; Matone, L.; Mavalvala, N.; Mazumder, N.; McCarthy, R.; McClelland, D. E.; McCormick, S.; McCuller, L.; McGuire, S. C.; McIntyre, G.; McIver, J.; McManus, D. J.; McRae, T.; McWilliams, S. T.; Meacher, D.; Meadors, G. D.; Meidam, J.; Mejuto-Villa, E.; Melatos, A.; Mendell, G.; Mercer, R. A.; Merilh, E. L.; Merzougui, M.; Meshkov, S.; Messenger, C.; Messick, C.; Metzdorff, R.; Meyers, P. M.; Mezzani, F.; Miao, H.; Michel, C.; Middleton, H.; Mikhailov, E. E.; Milano, L.; Miller, A. L.; Miller, A.; Miller, B. B.; Miller, J.; Millhouse, M.; Minazzoli, O.; Minenkov, Y.; Ming, J.; Mishra, C.; Mitra, S.; Mitrofanov, V. P.; Mitselmakher, G.; Mittleman, R.; Moggi, A.; Mohan, M.; Mohapatra, S. R. P.; Montani, M.; Moore, B. C.; Moore, C. J.; Moraru, D.; Moreno, G.; Morriss, S. R.; Mours, B.; Mow-Lowry, C. M.; Mueller, G.; Muir, A. W.; Mukherjee, Arunava; Mukherjee, D.; Mukherjee, S.; Mukund, N.; Mullavey, A.; Munch, J.; Muniz, E. A. M.; Murray, P. G.; Napier, K.; Nardecchia, I.; Naticchioni, L.; Nayak, R. K.; Nelemans, G.; Nelson, T. J. N.; Neri, M.; Nery, M.; Neunzert, A.; Newport, J. M.; Newton, G.; Ng, K. K. Y.; Nguyen, T. T.; Nichols, D.; Nielsen, A. B.; Nissanke, S.; Nitz, A.; Noack, A.; Nocera, F.; Nolting, D.; Normandin, M. E. N.; Nuttall, L. K.; Oberling, J.; Ochsner, E.; Oelker, E.; Ogin, G. H.; Oh, J. J.; Oh, S. H.; Ohme, F.; Oliver, M.; Oppermann, P.; Oram, Richard J.; O'Reilly, B.; Ormiston, R.; Ortega, L. F.; O'Shaughnessy, R.; Ottaway, D. J.; Overmier, H.; Owen, B. J.; Pace, A. E.; Page, J.; Page, M. A.; Pai, A.; Pai, S. A.; Palamos, J. R.; Palashov, O.; Palomba, C.; Pal-Singh, A.; Pan, H.; Pang, B.; Pang, P. T. H.; Pankow, C.; Pannarale, F.; Pant, B. C.; Paoletti, F.; Paoli, A.; Papa, M. A.; Paris, H. R.; Parker, W.; Pascucci, D.; Pasqualetti, A.; Passaquieti, R.; Passuello, D.; Patricelli, B.; Pearlstone, B. L.; Pedraza, M.; Pedurand, R.; Pekowsky, L.; Pele, A.; Penn, S.; Perez, C. J.; Perreca, A.; Perri, L. M.; Pfeiffer, H. P.; Phelps, M.; Piccinni, O. J.; Pichot, M.; Piergiovanni, F.; Pierro, V.; Pillant, G.; Pinard, L.; Pinto, I. M.; Pitkin, M.; Poggiani, R.; Popolizio, P.; Porter, E. K.; Post, A.; Powell, J.; Prasad, J.; Pratt, J. W. W.; Predoi, V.; Prestegard, T.; Prijatelj, M.; Principe, M.; Privitera, S.; Prix, R.; Prodi, G. A.; Prokhorov, L. G.; Puncken, O.; Punturo, M.; Puppo, P.; Pürrer, M.; Qi, H.; Qin, J.; Qiu, S.; Quetschke, V.; Quintero, E. A.; Quitzow-James, R.; Raab, F. J.; Rabeling, D. S.; Radkins, H.; Raffai, P.; Raja, S.; Rajan, C.; Rakhmanov, M.; Ramirez, K. E.; Rapagnani, P.; Raymond, V.; Razzano, M.; Read, J.; Regimbau, T.; Rei, L.; Reid, S.; Reitze, D. H.; Rew, H.; Reyes, S. D.; Ricci, F.; Ricker, P. M.; Rieger, S.; Riles, K.; Rizzo, M.; Robertson, N. A.; Robie, R.; Robinet, F.; Rocchi, A.; Rolland, L.; Rollins, J. G.; Roma, V. J.; Romano, J. D.; Romano, R.; Romel, C. L.; Romie, J. H.; Rosińska, D.; Ross, M. P.; Rowan, S.; Rüdiger, A.; Ruggi, P.; Ryan, K.; Sachdev, S.; Sadecki, T.; Sadeghian, L.; Sakellariadou, M.; Salconi, L.; Saleem, M.; Salemi, F.; Samajdar, A.; Sammut, L.; Sampson, L. M.; Sanchez, E. J.; Sandberg, V.; Sandeen, B.; Sanders, J. R.; Sassolas, B.; Saulson, P. R.; Sauter, O.; Savage, R. L.; Sawadsky, A.; Schale, P.; Scheuer, J.; Schmidt, E.; Schmidt, J.; Schmidt, P.; Schnabel, R.; Schofield, R. M. S.; Schönbeck, A.; Schreiber, E.; Schuette, D.; Schulte, B. W.; Schutz, B. F.; Schwalbe, S. G.; Scott, J.; Scott, S. M.; Seidel, E.; Sellers, D.; Sengupta, A. S.; Sentenac, D.; Sequino, V.; Sergeev, A.; Shaddock, D. A.; Shaffer, T. J.; Shah, A. A.; Shahriar, M. S.; Shao, L.; Shapiro, B.; Shawhan, P.; Sheperd, A.; Shoemaker, D. H.; Shoemaker, D. M.; Siellez, K.; Siemens, X.; Sieniawska, M.; Sigg, D.; Silva, A. D.; Singer, A.; Singer, L. P.; Singh, A.; Singh, R.; Singhal, A.; Sintes, A. M.; Slagmolen, B. J. J.; Smith, B.; Smith, J. R.; Smith, R. J. E.; Son, E. J.; Sonnenberg, J. A.; Sorazu, B.; Sorrentino, F.; Souradeep, T.; Spencer, A. P.; Srivastava, A. K.; Staley, A.; Steer, D. A.; Steinke, M.; Steinlechner, J.; Steinlechner, S.; Steinmeyer, D.; Stephens, B. C.; Stone, R.; Strain, K. A.; Stratta, G.; Strigin, S. E.; Sturani, R.; Stuver, A. L.; Summerscales, T. Z.; Sun, L.; Sunil, S.; Sutton, P. J.; Swinkels, B. L.; Szczepańczyk, M. J.; Tacca, M.; Talukder, D.; Tanner, D. B.; Tápai, M.; Taracchini, A.; Taylor, J. A.; Taylor, R.; Theeg, T.; Thomas, E. G.; Thomas, M.; Thomas, P.; Thorne, K. A.; Thorne, K. S.; Thrane, E.; Tiwari, S.; Tiwari, V.; Tokmakov, K. V.; Toland, K.; Tonelli, M.; Tornasi, Z.; Torrie, C. I.; Töyrä, D.; Travasso, F.; Traylor, G.; Trifirò, D.; Trinastic, J.; Tringali, M. C.; Trozzo, L.; Tsang, K. W.; Tse, M.; Tso, R.; Tuyenbayev, D.; Ueno, K.; Ugolini, D.; Unnikrishnan, C. S.; Urban, A. L.; Usman, S. A.; Vahlbruch, H.; Vajente, G.; Valdes, G.; Vallisneri, M.; van Bakel, N.; van Beuzekom, M.; van den Brand, J. F. J.; Van Den Broeck, C.; Vander-Hyde, D. C.; van der Schaaf, L.; van Heijningen, J. V.; van Veggel, A. A.; Vardaro, M.; Varma, V.; Vass, S.; Vasúth, M.; Vecchio, A.; Vedovato, G.; Veitch, J.; Veitch, P. J.; Venkateswara, K.; Venugopalan, G.; Verkindt, D.; Vetrano, F.; Viceré, A.; Viets, A. D.; Vinciguerra, S.; Vine, D. J.; Vinet, J.-Y.; Vitale, S.; Vo, T.; Vocca, H.; Vorvick, C.; Voss, D. V.; Vousden, W. D.; Vyatchanin, S. P.; Wade, A. R.; Wade, L. E.; Wade, M.; Walet, R.; Walker, M.; Wallace, L.; Walsh, S.; Wang, G.; Wang, H.; Wang, J. Z.; Wang, M.; Wang, Y.-F.; Wang, Y.; Ward, R. L.; Warner, J.; Was, M.; Watchi, J.; Weaver, B.; Wei, L.-W.; Weinert, M.; Weinstein, A. J.; Weiss, R.; Wen, L.; Wessel, E. K.; Weßels, P.; Westphal, T.; Wette, K.; Whelan, J. T.; Whiting, B. F.; Whittle, C.; Williams, D.; Williams, R. D.; Williamson, A. R.; Willis, J. L.; Willke, B.; Wimmer, M. H.; Winkler, W.; Wipf, C. C.; Wittel, H.; Woan, G.; Woehler, J.; Wofford, J.; Wong, K. W. K.; Worden, J.; Wright, J. L.; Wu, D. S.; Wu, G.; Yam, W.; Yamamoto, H.; Yancey, C. C.; Yap, M. J.; Yu, Hang; Yu, Haocun; Yvert, M.; ZadroŻny, A.; Zanolin, M.; Zelenova, T.; Zendri, J.-P.; Zevin, M.; Zhang, L.; Zhang, M.; Zhang, T.; Zhang, Y.-H.; Zhao, C.; Zhou, M.; Zhou, Z.; Zhu, S. J.; Zhu, X. J.; Zucker, M. E.; Zweizig, J.; LIGO Scientific Collaboration; Virgo Collaboration

2018-05-01

Cosmic strings are topological defects which can be formed in grand unified theory scale phase transitions in the early universe. They are also predicted to form in the context of string theory. The main mechanism for a network of Nambu-Goto cosmic strings to lose energy is through the production of loops and the subsequent emission of gravitational waves, thus offering an experimental signature for the existence of cosmic strings. Here we report on the analysis conducted to specifically search for gravitational-wave bursts from cosmic string loops in the data of Advanced LIGO 2015-2016 observing run (O1). No evidence of such signals was found in the data, and as a result we set upper limits on the cosmic string parameters for three recent loop distribution models. In this paper, we initially derive constraints on the string tension G μ and the intercommutation probability, using not only the burst analysis performed on the O1 data set but also results from the previously published LIGO stochastic O1 analysis, pulsar timing arrays, cosmic microwave background and big-bang nucleosynthesis experiments. We show that these data sets are complementary in that they probe gravitational waves produced by cosmic string loops during very different epochs. Finally, we show that the data sets exclude large parts of the parameter space of the three loop distribution models we consider.

Modeling the influence of string collective phenomena on the long range rapidity correlations between the transverse momentum and the multiplicities

DOE Office of Scientific and Technical Information (OSTI.GOV)

Andronov, E.; Vechernin, V.

2016-01-22

The long-range rapidity correlations between the multiplicities (n-n) and the transverse momentum and the multiplicity (pT-n) of charge particles are analyzed in the framework of the simple string inspired model with two types of sources. The sources of the first type correspond to the initial strings formed in a hadronic collision. The sources of the second type imitate the appearance of the emitters of a new kind resulting from interaction (fusion) of the initial strings. The model enabled to describe effectively the influence of the string fusion effects on the strength both the n-n and the pT-n correlations. It wasmore » found that in the region, where the process of string fusion comes into play, the calculation results predict the non-monotonic behaviour of the n-n and pT-n correlation coefficients with the growth of the mean number of initial strings, i.e. with the increase of the collision centrality. It was shown also that the increase of the event-by-event fluctuation in the number of primary strings leads to the change of the pT-n correlation sign from negative to positive. One can try to search these signatures of string collective phenomena in interactions of various nuclei at different energies varying the class of collision centrality and its width.« less

On Atwood's Machine with a Nonzero Mass String

NASA Astrophysics Data System (ADS)

Tarnopolski, Mariusz

2015-11-01

Let us consider a classical high school exercise concerning two weights on a pulley and a string, illustrated in Fig. 1(a). A system like this is called an Atwood's machine and was invented by George Atwood in 1784 as a laboratory experiment to verify the mechanical laws of motion with constant acceleration. Nowadays, Atwood's machine is used for didactic purposes to demonstrate uniformly accelerated motion with acceleration arbitrarily smaller than the gravitational acceleration g. The simplest case is with a massless and frictionless pulley and a massless string. With little effort one can include the mass of the pulley in calculations. The mass of a string has been incorporated previously in some considerations and experiments. These include treatments focusing on friction, justifying the assumption of a massless string, incorporating variations in Earth's gravitational field, comparing the calculated value of g based on a simple experiment, taking the mass of the string into account in such a way that the resulting acceleration is constant, or in one exception solely focusing on a heavy string, but with a slightly different approach. Here we wish to provide i) a derivation of the acceleration and position dependence on the weights' masses based purely on basic dynamical reasoning similar to the conventional version of the exercise, and ii) focus on the influence of the string's linear density, or equivalently its mass, on the outcome compared to a massless string case.

A group theoretic method for string loop diagram

NASA Astrophysics Data System (ADS)

Neveu, A.; West, P.

1987-08-01

The new approach to arbitrary string scattering proposed by the authors is used to compute the planar tadpole operator, including its measure, for the open bosonic string. The Virasoro gauge identities play a crucial role and are found to contain in general anomalous terms for open strings. Permanent address: Mathematics Department, King's College, London WC2R 2LS, UK.

Self-Gravitating Fundamental Strings and Black Holes

NASA Technical Reports Server (NTRS)

Damour, T.; Veneziano, G.

1999-01-01

The configuration of typically highly excited M much greater than M(sub s) which is approximately equal to alpha(prime) to the 1/2 power string states is considered as the string coupling g is adiabatically increased. The size distribution of very massive single string states is studied and the mass shift, due to a long-range gravitational, dilatonic, and axionic attraction, is estimated.

String junction as a baryonic constituent

NASA Astrophysics Data System (ADS)

Kalashnikova, Yu. S.; Nefediev, A. V.

1996-02-01

We extend the model for QCD string with quarks to consider the Mercedes Benz string configuration describing the three-quark baryon. Under the assumption of adiabatic separation of quark and string junction motion we formulate and solve the classical equation of motion for the junction. We dare to quantize the motion of the junction, and discuss the impact of these modes on the baryon spectra.

Development and Trial of a Two Year Program of String Instruction. Final Report.

ERIC Educational Resources Information Center

Rolland, Paul; And Others

A series of films focused on movement education and rhythm training in string playing with emphasis on the violin were developed. An introductory film deals with principles of movement in string playing. Fifteen additional titles offer guidance to the student and teacher in the various details of basic string instruction. A summary film presents a…

The Physics of "String Passing through Ice"

ERIC Educational Resources Information Center

Mohazzabi, Pirooz

2011-01-01

One of the oldest yet interesting experiments related to heat and thermodynamics is placing a string on a block of ice and hanging two masses from the ends of the string. Sometime later, it is discovered that the string has passed through the ice without cutting it in half. A simple explanation of this effect is that the pressure caused by the…

String Stability of a Linear Formation Flight Control System

NASA Technical Reports Server (NTRS)

Allen, Michael J.; Ryan, Jack; Hanson, Curtis E.; Parle, James F.

2002-01-01

String stability analysis of an autonomous formation flight system was performed using linear and nonlinear simulations. String stability is a measure of how position errors propagate from one vehicle to another in a cascaded system. In the formation flight system considered here, each i(sup th) aircraft uses information from itself and the preceding ((i-1)(sup th)) aircraft to track a commanded relative position. A possible solution for meeting performance requirements with such a system is to allow string instability. This paper explores two results of string instability and outlines analysis techniques for string unstable systems. The three analysis techniques presented here are: linear, nonlinear formation performance, and ride quality. The linear technique was developed from a worst-case scenario and could be applied to the design of a string unstable controller. The nonlinear formation performance and ride quality analysis techniques both use nonlinear formation simulation. Three of the four formation-controller gain-sets analyzed in this paper were limited more by ride quality than by performance. Formations of up to seven aircraft in a cascaded formation could be used in the presence of light gusts with this string unstable system.

Chern-Simons improved Hamiltonians for strings in three space dimensions

NASA Astrophysics Data System (ADS)

Gordeli, Ivan; Melnikov, Dmitry; Niemi, Antti J.; Sedrakyan, Ara

2016-07-01

In the case of a structureless string the extrinsic curvature and torsion determine uniquely its shape in three-dimensional ambient space, by way of solution of the Frenet equation. In many physical scenarios there are in addition symmetries that constrain the functional form of the ensuing energy function. For example, the energy of a structureless string should be independent of the way the string is framed in the Frenet equation. Thus the energy should only involve the curvature and torsion as dynamical variables, in a manner that resembles the Hamiltonian of the Abelian Higgs model. Here we investigate the effect of symmetry principles in the construction of Hamiltonians for structureless strings. We deduce from the concept of frame independence that in addition to extrinsic curvature and torsion, the string can also engage a three-dimensional Abelian bulk gauge field as a dynamical variable. We find that the presence of a bulk gauge field gives rise to a long-range interaction between different strings. Moreover, when this gauge field is subject to Chern-Simons self-interaction, it becomes plausible that interacting strings are subject to fractional statistics in three space dimensions.

Survival of pq -superstrings in field theory simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lizarraga, Joanes; Urrestilla, Jon, E-mail: joanes.lizarraga@ehu.eus, E-mail: jon.urrestilla@ehu.eus

2016-04-01

We perform large-scale field theoretical simulations in expanding universe to characterize a network of strings that can form composed bound states. The network consists of two copies of Abelian Higgs strings (which we label p and q , respectively) coupled via a potential term to give pq bound states. The simulations are performed using two different kinds of initial conditions: the first one with a network of p - and q -strings, and the second one with a network of q - and pq -strings. This way, we start from two opposite situations: one with no initial pq -strings, andmore » one with a large initial number of pq -strings. We find that in both cases the system scales, and in both cases the system prefers to have a low fraction of pq -strings. This is somewhat surprising in the case for the second type of conditions, showing that the unzipping mechanism is very efficient. We also find hints that both initial conditions tend to asymptote to a common configuration, though we would need a larger dynamical range to confirm it. The average velocities of the different types of strings in the network have also been explored for the first time.« less

The reproductive output of sea lice Caligus rogercresseyi under controlled conditions.

PubMed

Bravo, Sandra

2010-05-01

Gravid females of Caligus rogercresseyi were collected from Atlantic salmon (Salmo salar) from a farm located at Chiloe Island (42 degrees 40'S73 degrees 15'W), Chile, to obtain information about the reproductive output of this parasite in vitro. The egg strings removed from the females were incubated under controlled conditions to obtain virgin adult females. One female which had mated only once produced eleven generations of eggs strings in a period of 74 days. The first egg strings of the females obtained in vitro were produced at 389 degree days ( degrees D) after egg incubation, while the next generations of eggs strings were produced with a periodicity between 4 and 6 days dependent on the water temperature. The average length of the egg string was 3.1mm and the mean number of eggs per string was 31. The values recorded in captivity for the egg string length and the number of eggs per string, were lower than the values recorded in gravid females from the field. One female survived for 79 days and males, maintained separately from the females, survived for 60 days. Copyright 2009 Elsevier Inc. All rights reserved.

Modeling and simulation performance of sucker rod beam pump

DOE Office of Scientific and Technical Information (OSTI.GOV)

Aditsania, Annisa, E-mail: annisaaditsania@gmail.com; Rahmawati, Silvy Dewi, E-mail: silvyarahmawati@gmail.com; Sukarno, Pudjo, E-mail: psukarno@gmail.com

2015-09-30

Artificial lift is a mechanism to lift hydrocarbon, generally petroleum, from a well to surface. This is used in the case that the natural pressure from the reservoir has significantly decreased. Sucker rod beam pumping is a method of artificial lift. Sucker rod beam pump is modeled in this research as a function of geometry of the surface part, the size of sucker rod string, and fluid properties. Besides its length, sucker rod string also classified into tapered and un-tapered. At the beginning of this research, for easy modeling, the sucker rod string was assumed as un-tapered. The assumption provedmore » non-realistic to use. Therefore, the tapered sucker rod string modeling needs building. The numerical solution of this sucker rod beam pump model is computed using finite difference method. The numerical result shows that the peak of polished rod load for sucker rod beam pump unit C-456-D-256-120, for non-tapered sucker rod string is 38504.2 lb, while for tapered rod string is 25723.3 lb. For that reason, to avoid the sucker rod string breaks due to the overload, the use of tapered sucker rod beam string is suggested in this research.« less

Searching for cosmic strings in CMB anisotropy maps using wavelets and curvelets

NASA Astrophysics Data System (ADS)

Hergt, Lukas; Amara, Adam; Brandenberger, Robert; Kacprzak, Tomasz; Réfrégier, Alexandre

2017-06-01

We use wavelet and curvelet transforms to extract signals of cosmic strings from simulated cosmic microwave background (CMB) temperature anisotropy maps, and to study the limits on the cosmic string tension which various ongoing CMB temperature anisotropy experiments will be able to achieve. We construct sky maps with size and angular resolution corresponding to various experiments. These maps contain the signals of a scaling solution of long string segments with a given string tension G μ, the contribution of the dominant Gaussian primordial cosmological fluctuations, and pixel by pixel white noise with an amplitude corresponding to the instrumental noise of the various experiments. In the case that we include white noise, we find that using curvelets we obtain lower bounds on the string tension than with wavelets. For maps with Planck specification, we obtain bounds comparable to what was obtained by the Planck collaboration [1]. Experiments with better angular resolution such as the South Pole Telescope third generation (SPT-3G) survey will be able to yield stronger limits. For maps with a specification of SPT-3G we find that string signals will be visible down to a string tension of G μ = 1.4 × 10-7.

Segmented strings in AdS 3

DOE Office of Scientific and Technical Information (OSTI.GOV)

Callebaut, Nele; Gubser, Steven S.; Samberg, Andreas

We study segmented strings in flat space and in AdS 3. In flat space, these well known classical motions describe strings which at any instant of time are piecewise linear. In AdS 3, the worldsheet is composed of faces each of which is a region bounded by null geodesics in an AdS 2 subspace of AdS 3. The time evolution can be described by specifying the null geodesic motion of kinks in the string at which two segments are joined. The outcome of collisions of kinks on the worldsheet can be worked out essentially using considerations of causality. We studymore » several examples of closed segmented strings in AdS 3 and find an unexpected quasi-periodic behavior. Here, we also work out a WKB analysis of quantum states of yo-yo strings in AdS 5 and find a logarithmic term reminiscent of the logarithmic twist of string states on the leading Regge trajectory.« less

Segmented strings in AdS 3

DOE PAGES

Callebaut, Nele; Gubser, Steven S.; Samberg, Andreas; ...

2015-11-17

We study segmented strings in flat space and in AdS 3. In flat space, these well known classical motions describe strings which at any instant of time are piecewise linear. In AdS 3, the worldsheet is composed of faces each of which is a region bounded by null geodesics in an AdS 2 subspace of AdS 3. The time evolution can be described by specifying the null geodesic motion of kinks in the string at which two segments are joined. The outcome of collisions of kinks on the worldsheet can be worked out essentially using considerations of causality. We studymore » several examples of closed segmented strings in AdS 3 and find an unexpected quasi-periodic behavior. Here, we also work out a WKB analysis of quantum states of yo-yo strings in AdS 5 and find a logarithmic term reminiscent of the logarithmic twist of string states on the leading Regge trajectory.« less

Self-gravitating strings in 2+1 dimensions

NASA Astrophysics Data System (ADS)

Ben-Menahem, Shahar

1993-05-01

We present a family of classical spacetimes in 2+1 dimensions. Such a spacetime is produced by a Nambu-Goto self-gravitating string. Because of the special properties of three-dimensional gravity, the metric is completely described as a Minkowski space with two identified world sheets. In the flat limit, the standard string is recovered. The formalism is developed for an open string with massive end points, but applies to other boundary conditions as well. We consider another limit, where the string tension vanishes in geometrical units but the end masses produce finite deficit angles. In this limit, our open string reduces to the free-masses solution of Gott, which possesses closed timelike curves when the relative motion of the two masses is sufficiently rapid. It is shown that the induced world sheet Liouville mode obeys (-classically)- a sinh- or cosh-Gordon differential equation, which reduces to the Liouville equation in the flat limit. A quadratic-action formulation of this system is presented. The possibility and significance of quantizing the self-gravitating string is discussed.

Elliptic genus of E-strings

NASA Astrophysics Data System (ADS)

Kim, Joonho; Kim, Seok; Lee, Kimyeong; Park, Jaemo; Vafa, Cumrun

2017-09-01

We study a family of 2d N=(0, 4) gauge theories which describes at low energy the dynamics of E-strings, the M2-branes suspended between a pair of M5 and M9 branes. The gauge theory is engineered using a duality with type IIA theory, leading to the D2-branes suspended between an NS5-brane and 8 D8-branes on an O8-plane. We compute the elliptic genus of this family of theories, and find agreement with the known results for single and two E-strings. The partition function can in principle be computed for arbitrary number of E-strings, and we compute them explicitly for low numbers. We test our predictions against the partially known results from topological strings, as well as from the instanton calculus of 5d Sp(1) gauge theory. Given the relation to topological strings, our computation provides the all genus partition function of the refined topological strings on the canonical bundle over 1/2K3.

Experimental observation of Bethe strings

NASA Astrophysics Data System (ADS)

Wang, Zhe; Wu, Jianda; Yang, Wang; Bera, Anup Kumar; Kamenskyi, Dmytro; Islam, A. T. M. Nazmul; Xu, Shenglong; Law, Joseph Matthew; Lake, Bella; Wu, Congjun; Loidl, Alois

2018-02-01

Almost a century ago, string states—complex bound states of magnetic excitations—were predicted to exist in one-dimensional quantum magnets. However, despite many theoretical studies, the experimental realization and identification of string states in a condensed-matter system have yet to be achieved. Here we use high-resolution terahertz spectroscopy to resolve string states in the antiferromagnetic Heisenberg-Ising chain SrCo2V2O8 in strong longitudinal magnetic fields. In the field-induced quantum-critical regime, we identify strings and fractional magnetic excitations that are accurately described by the Bethe ansatz. Close to quantum criticality, the string excitations govern the quantum spin dynamics, whereas the fractional excitations, which are dominant at low energies, reflect the antiferromagnetic quantum fluctuations. Today, Bethe’s result is important not only in the field of quantum magnetism but also more broadly, including in the study of cold atoms and in string theory; hence, we anticipate that our work will shed light on the study of complex many-body systems in general.

The acoustics of the bagana

NASA Astrophysics Data System (ADS)

Weisser, Stephanie; Demolin, Didier

2002-11-01

The bagana is a big Ethiopian lyre with ten strings. The instrument is found in the area of the Amhara, the culturally dominant tribe of Ethiopia. It is an intimate instrument, played only with the voice, for prayer and meditation. It can be tuned in two pentatonic scales, and can be plucked with the fingers, string by string or with a plectrum, all strings together. The box of the bagana is made of wood covered with leather, and the strings are made of gut. They are very thick and between them and the bridge, there are ten buzzers. Therefore, the bagana produces a very deep and buzzing sound. The paper will analyze the acoustical function of several parts of this instrument, e.g., the sound box and its crosslike hole at the back. The influence of the buzzers on the fundamental frequency, the spectrum, the duration, and the intensity of the signal will be closely examined. The role of the five unused strings (the ''rest'' strings) will also be examined.

Mechanical Properties of Nylon Harp Strings

PubMed Central

Lynch-Aird, Nicolas; Woodhouse, Jim

2017-01-01

Monofilament nylon strings with a range of diameters, commercially marketed as harp strings, have been tested to establish their long-term mechanical properties. Once a string had settled into a desired stress state, the Young’s modulus was measured by a variety of methods that probe different time-scales. The modulus was found to be a strong function of testing frequency and also a strong function of stress. Strings were also subjected to cyclical variations of temperature, allowing various thermal properties to be measured: the coefficient of linear thermal expansion and the thermal sensitivities of tuning, Young’s modulus and density. The results revealed that the particular strings tested are divided into two groups with very different properties: stress-strain behaviour differing by a factor of two and some parametric sensitivities even having the opposite sign. Within each group, correlation studies allowed simple functional fits to be found to the key properties, which have the potential to be used in automated tuning systems for harp strings. PMID:28772858

Hydroball string sensing system

DOEpatents

Hurwitz, Michael J.; Ekeroth, Douglas E.; Squarer, David

1991-01-01

A hydroball string sensing system for a nuclear reactor that includes stainless tubes positioned to guide hydroball strings into and out of the nuclear reactor core. A sensor such as an ultrasonic transducer transmitter and receiver is positioned outside of the nuclear reactor core and adjacent to the tube. The presence of an object such a bullet member positioned at an end a hydroball string, or any one of the hydroballs interrupts the transmission of ultrasound from the transmitter to the receiver. Alternatively, if the bullet member and hydroballs include a ferritic material, either a Hall effect sensor or other magnetic field sensors such as a magnetic field rate of change sensor can be used to detect the location and position of a hydroball string. Placing two sensors along the tube with a known distance between the sensors enables the velocity of a hydroball string to be determined. This determined velocity can be used to control the flow rate of a fluid within the tube so as to control the velocity of the hydroball string.

Open string with a background B field as the first order mechanics, noncommutativity, and soldering formalism

DOE Office of Scientific and Technical Information (OSTI.GOV)

Deriglazov, A. A.; Neves, C.; Oliveira, W.

2007-09-15

To study noncommutativity properties of the open string with constant B field, we construct a mechanical action that reproduces classical dynamics of the string sector under consideration. It allows one to apply the Dirac quantization procedure for constrained systems in a direct and unambiguous way. The mechanical action turns out to be the first order system without taking the strong field limit B{yields}{infinity}. In particular, it is true for the zero mode of the string coordinate, which means that the noncommutativity is an intrinsic property of this mechanical system. We describe the arbitrariness in the relation existing between the mechanicalmore » and the string variables and show that noncommutativity of the string variables on the boundary can be removed. This is in correspondence with the result of Seiberg and Witten on the relation among noncommutative and ordinary Yang-Mills theories. The recently developed soldering formalism helps us to establish a connection between the original open string action and the Polyakov action.« less

Mechanical Properties of Nylon Harp Strings.

PubMed

Lynch-Aird, Nicolas; Woodhouse, Jim

2017-05-04

Monofilament nylon strings with a range of diameters, commercially marketed as harp strings, have been tested to establish their long-term mechanical properties. Once a string had settled into a desired stress state, the Young's modulus was measured by a variety of methods that probe different time-scales. The modulus was found to be a strong function of testing frequency and also a strong function of stress. Strings were also subjected to cyclical variations of temperature, allowing various thermal properties to be measured: the coefficient of linear thermal expansion and the thermal sensitivities of tuning, Young's modulus and density. The results revealed that the particular strings tested are divided into two groups with very different properties: stress-strain behaviour differing by a factor of two and some parametric sensitivities even having the opposite sign. Within each group, correlation studies allowed simple functional fits to be found to the key properties, which have the potential to be used in automated tuning systems for harp strings.

Further Development of HS Field Theory

NASA Astrophysics Data System (ADS)

Abdurrahman, Abdulmajeed; Faridani, Jacqueline; Gassem, Mahmoud

2006-04-01

We present a systematic treatment of the HS Field theory of the open bosonic string and discuss its relationship to other full string field theories of the open bosonic string such as Witten's theory and the CVS theory. In the development of the HS field theory we encounter infinite dimensional matrices arising from the change of representation between the two theories, i.e., the HS field theory and the full string field theory. We give a general procedure of how to invert these gigantic matrices. The inversion of these matrices involves the computation of many infinite sums. We give the values of these sums and state their generalizations arising from considering higher order vertices (i.e., more than three strings) in string field theory. Moreover, we give a general procedure, on how to evaluate the generalized sums, that can be extended to many generic sums of similar properties. We also discuss the conformal operator connecting the HS field theory to that of the CVS string field theory.

Plucked String on a Shoestring Budget

NASA Astrophysics Data System (ADS)

Gluck, Paul

2009-01-01

The physics of the plucked string has been treated in many articles and books.1-4 For our 12th-grade high school physics laboratory, we have built a cheap, simple sonometer apparatus for each pair of students on which they may investigate some interesting phenomena that arise when a string is plucked. Among these are the generation of harmonics (overtones) and the way their number depends on the length of a string and on where one plucks, the relation between the frequencies of the fundamental and those of the harmonics, and the way these are affected by changes in the length and the tension in the string. Such an experiment will help students appreciate the working of stringed musical instruments and, in particular, the contribution of overtones to the richness of sound produced.

A Search for Cosmic String Loops Using GADGET-2 Cosmological N-Body Simulator

NASA Astrophysics Data System (ADS)

Braverman, William; Cousins, Bryce; Jia, Hewei

2018-01-01

Cosmic string loops are an extremely elusive hypothetical entity that have eluded the grasp of physicists and astronomers since their existence was postulated in the 1970’s. Finding evidence of their existence could be the first empirical evidence of string theory.Simulating their basic motion in a cold dark matter background using GADGET-2 allows us to predict where they may cluster during large scale structure formation (if they cluster at all). Here, we present our progress in placing cosmic strings into GADGET-2 with their basic equations of motion to lay a ground work for more complex simulations to find where these strings cluster. Ultimately, these simulations could lay a groundwork as to where future microlensing and gravitational wave observatories should look for cosmic strings.

CMB temperature trispectrum of cosmic strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hindmarsh, Mark; Ringeval, Christophe; Suyama, Teruaki

2010-03-15

We provide an analytical expression for the trispectrum of the cosmic microwave background (CMB) temperature anisotropies induced by cosmic strings. Our result is derived for the small angular scales under the assumption that the temperature anisotropy is induced by the Gott-Kaiser-Stebbins effect. The trispectrum is predicted to decay with a noninteger power-law exponent l{sup -{rho}}with 6<{rho}<7, depending on the string microstructure, and thus on the string model. For Nambu-Goto strings, this exponent is related to the string mean square velocity and the loop distribution function. We then explore two classes of wave number configuration in Fourier space, the kite andmore » trapezium quadrilaterals. The trispectrum can be of any sign and appears to be strongly enhanced for all squeezed quadrilaterals.« less

Semianalytic calculation of cosmic microwave background anisotropies from wiggly and superconducting cosmic strings

NASA Astrophysics Data System (ADS)

Rybak, I. Yu.; Avgoustidis, A.; Martins, C. J. A. P.

2017-11-01

We study how the presence of world-sheet currents affects the evolution of cosmic string networks, and their impact on predictions for the cosmic microwave background (CMB) anisotropies generated by these networks. We provide a general description of string networks with currents and explicitly investigate in detail two physically motivated examples: wiggly and superconducting cosmic string networks. By using a modified version of the CMBact code, we show quantitatively how the relevant network parameters in both of these cases influence the predicted CMB signal. Our analysis suggests that previous studies have overestimated the amplitude of the anisotropies for wiggly strings. For superconducting strings the amplitude of the anisotropies depends on parameters which presently are not well known—but which can be measured in future high-resolution numerical simulations.

Exploring the spectrum of regularized bosonic string theory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ambjørn, J., E-mail: ambjorn@nbi.dk; Makeenko, Y., E-mail: makeenko@nbi.dk

2015-03-15

We implement a UV regularization of the bosonic string by truncating its mode expansion and keeping the regularized theory “as diffeomorphism invariant as possible.” We compute the regularized determinant of the 2d Laplacian for the closed string winding around a compact dimension, obtaining the effective action in this way. The minimization of the effective action reliably determines the energy of the string ground state for a long string and/or for a large number of space-time dimensions. We discuss the possibility of a scaling limit when the cutoff is taken to infinity.

Evolution of cosmic string networks

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Turok, Neil

1989-01-01

Results on cosmic strings are summarized including: (1) the application of non-equilibrium statistical mechanics to cosmic string evolution; (2) a simple one scale model for the long strings which has a great deal of predictive power; (3) results from large scale numerical simulations; and (4) a discussion of the observational consequences of our results. An upper bound on G mu of approximately 10(-7) emerges from the millisecond pulsar gravity wave bound. How numerical uncertainties affect this are discussed. Any changes which weaken the bound would probably also give the long strings the dominant role in producing observational consequences.

Perturbations from cosmic strings in cold dark matter

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Stebbins, Albert

1992-01-01

A systematic linear analysis of the perturbations induced by cosmic strings in cold dark matter is presented. The power spectrum is calculated and it is found that the strings produce a great deal of power on small scales. It is shown that the perturbations on interesting scales are the result of many uncorrelated string motions, which indicates a much more Gaussian distribution than was previously supposed.

Mean transverse momenta correlations in hadron-hadron collisions in MC toy model with repulsing strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

Altsybeev, Igor

2016-01-22

In the present work, Monte-Carlo toy model with repulsing quark-gluon strings in hadron-hadron collisions is described. String repulsion creates transverse boosts for the string decay products, giving modifications of observables. As an example, long-range correlations between mean transverse momenta of particles in two observation windows are studied in MC toy simulation of the heavy-ion collisions.

Perturbations from cosmic strings in cold dark matter

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Stebbins, Albert

1991-01-01

A systematic linear analysis of the perturbations induced by cosmic strings in cold dark matter is presented. The power spectrum is calculated and it is found that the strings produce a great deal of power on small scales. It is shown that the perturbations on interesting scales are the result of many uncorrelated string motions, which indicates a much more Gaussian distribution than was previously supposed.

Relativistic strings - From soap films to a grand unified theory

NASA Astrophysics Data System (ADS)

Nesterenko, V. V.

1986-11-01

The concept of relativistic strings is considered in connection with the theory of minimal surfaces (e.g., soap films stretched onto closed wire contours). The role of relativistic strings in hadron physics is discussed. Attention is then given to the creation of a grand unified theory on the basis of the superstring concept. Finally, the role of relativistic strings in cosmology is examined.

D1 string dynamics in curved backgrounds with fluxes

NASA Astrophysics Data System (ADS)

Banerjee, Aritra; Biswas, Sagar; Nayak, Rashmi R.

2016-04-01

We study various rotating and oscillating D-string configurations in some general backgrounds with fluxes. In particular, we look for solutions to the equations of motion of various rigidly rotating D-strings in AdS3 background with mixed flux, and in the intersecting D-brane geometries. We find out relations among various conserved charges corresponding to the breathing and rotating D-string configurations.

A Concept for Continuous Monitoring that Reduces Redundancy in Information Assurance Processes

DTIC Science & Technology

2011-09-01

System.out.println(“Driver loaded”); String url=“jdbc:postgresql://localhost/IAcontrols”; String user = “ postgres ”; String pwd... postgres ”; Connection DB_mobile_conn = DriverManager.getConnection(url,user,pwd); System.out.println(“Database Connect ok...user = “ postgres ”; String pwd = “ postgres ”; Connection DB_mobile_conn = DriverManager.getConnection(url,user,pwd); System.out.println

Energy and Momentum Transport in String Waves

ERIC Educational Resources Information Center

Juenker, D. W.

1976-01-01

Formulas are derived for the energy, momentum, and angular momentum transmitted by waves of arbitrary shape in an inextensible string by pure transverse waves in a string using Tait's procedure. (Author/CP)

Separation of traveling and standing waves in a finite dispersive string with partial or continuous viscoelastic foundation

NASA Astrophysics Data System (ADS)

Cheng, Xiangle; Blanchard, Antoine; Tan, Chin An; Lu, Huancai; Bergman, Lawrence A.; McFarland, D. Michael; Vakakis, Alexander F.

2017-12-01

The free and forced vibrations of a linear string with a local spring-damper on a partial elastic foundation, as well as a linear string on a viscoelastic foundation conceptualized as a continuous distribution of springs and dampers, are studied in this paper. Exact, analytical results are obtained for the free and forced response to a harmonic excitation applied at one end of the string. Relations between mode complexity and energy confinement with the dispersion in the string system are examined for the steady-state forced vibration, and numerical methods are applied to simulate the transient evolution of energy propagation. Eigenvalue loci veering and normal mode localization are observed for weakly coupled subsystems, when the foundation stiffness is sufficiently large, for both the spatially symmetric and asymmetric systems. The forced vibration results show that nonproportional damping-induced mode complexity, for which there are co-existing regions of purely traveling waves and standing waves, is attainable for the dispersive string system. However, this wave transition phenomenon depends strongly on the location of the attached discrete spring-damper relative to the foundation and whether the excitation frequency Ω is above or below the cutoff frequency ωc. When Ω<ωc, the wave transition cannot be attained for a string on an elastic foundation, but is possible if the string is on a viscoelastic foundation. Although this study is primarily formulated for a harmonic boundary excitation at one end of the string, generalization of the mode complexity can be deduced for the steady-state forced response of the string-foundation system to synchronous end excitations and is confirmed numerically. This work represents a novel study to understand the wave transitions in a dispersive structural system and lays the groundwork for potentially effective passive vibration control strategies.

Constraining the String Gauge Field by Galaxy Rotation Curves and Perihelion Precession of Planets

NASA Astrophysics Data System (ADS)

Cheung, Yeuk-Kwan E.; Xu, Feng

2013-09-01

We discuss a cosmological model in which the string gauge field coupled universally to matter gives rise to an extra centripetal force and will have observable signatures on cosmological and astronomical observations. Several tests are performed using data including galaxy rotation curves of 22 spiral galaxies of varied luminosities and sizes and perihelion precessions of planets in the solar system. The rotation curves of the same group of galaxies are independently fit using a dark matter model with the generalized Navarro-Frenk-White (NFW) profile and the string model. A remarkable fit of galaxy rotation curves is achieved using the one-parameter string model as compared to the three-parameter dark matter model with the NFW profile. The average χ2 value of the NFW fit is 9% better than that of the string model at a price of two more free parameters. Furthermore, from the string model, we can give a dynamical explanation for the phenomenological Tully-Fisher relation. We are able to derive a relation between field strength, galaxy size, and luminosity, which can be verified with data from the 22 galaxies. To further test the hypothesis of the universal existence of the string gauge field, we apply our string model to the solar system. Constraint on the magnitude of the string field in the solar system is deduced from the current ranges for any anomalous perihelion precession of planets allowed by the latest observations. The field distribution resembles a dipole field originating from the Sun. The string field strength deduced from the solar system observations is of a similar magnitude as the field strength needed to sustain the rotational speed of the Sun inside the Milky Way. This hypothesis can be tested further by future observations with higher precision.

Acoustic data transmission through a drill string

DOEpatents

Drumheller, D.S.

1988-04-21

Acoustical signals are transmitted through a drill string by canceling upward moving acoustical noise and by preconditioning the data in recognition of the comb filter impedance characteristics of the drill string. 5 figs.

Computer Center: BASIC String Models of Genetic Information Transfer.

ERIC Educational Resources Information Center

Spain, James D., Ed.

1984-01-01

Discusses some of the major genetic information processes which may be modeled by computer program string manipulation, focusing on replication and transcription. Also discusses instructional applications of using string models. (JN)

Effects of ordinary and superconducting cosmic strings on primordial nucleosynthesis

NASA Technical Reports Server (NTRS)

Hodges, Hardy M.; Turner, Michael S.

1988-01-01

A precise calculation is done of the primordial nucleosynthesis constraint on the energy per length of ordinary and superconducting cosmic strings. A general formula is provided for the constraint on the string tension for ordinary strings. Using the current values for the various parameters that describe the evolution of loops, the constraint for ordinary strings is G mu less than 2.2 x 10 to the minus 5 power. Our constraint is weaker than previously quoted limits by a factor of approximately 5. For superconducting loops, with currents generated by primordial magnetic fields, the constraint can be less or more stringent than this limit, depending on the strength of the magnetic field. It is also found in this case that there is a negligible amount of entropy production if the electromagnetic radiation from strings thermalizes with the radiation background.

Evolution and End Point of the Black String Instability: Large D Solution.

PubMed

Emparan, Roberto; Suzuki, Ryotaku; Tanabe, Kentaro

2015-08-28

We derive a simple set of nonlinear, (1+1)-dimensional partial differential equations that describe the dynamical evolution of black strings and branes to leading order in the expansion in the inverse of the number of dimensions D. These equations are easily solved numerically. Their solution shows that thin enough black strings are unstable to developing inhomogeneities along their length, and at late times they asymptote to stable nonuniform black strings. This proves an earlier conjecture about the end point of the instability of black strings in a large enough number of dimensions. If the initial black string is very thin, the final configuration is highly nonuniform and resembles a periodic array of localized black holes joined by short necks. We also present the equations that describe the nonlinear dynamics of anti-de Sitter black branes at large D.

Effects of cosmic string velocities and the origin of globular clusters

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lin, Ling; Yamanouchi, Shoma; Brandenberger, Robert, E-mail: ling.lin2@mail.mcgill.ca, E-mail: shoma.yamanouchi@mail.mcgill.ca, E-mail: rhb@physics.mcgill.ca

2015-12-01

With the hypothesis that cosmic string loops act as seeds for globular clusters in mind, we study the role that velocities of these strings will play in determining the mass distribution of globular clusters. Loops with high enough velocities will not form compact and roughly spherical objects and can hence not be the seeds for globular clusters. We compute the expected number density and mass function of globular clusters as a function of both the string tension and the peak loop velocity, and compare the results with the observational data on the mass distribution of globular clusters in our Milkymore » Way. We determine the critical peak string loop velocity above which the agreement between the string loop model for the origin of globular clusters (neglecting loop velocities) and observational data is lost.« less

Coupling of transverse and longitudinal waves in piano strings.

PubMed

Etchenique, Nikki; Collin, Samantha R; Moore, Thomas R

2015-04-01

The existence of longitudinal waves in vibrating piano strings has been previously established, as has their importance in producing the characteristic sound of the piano. Modeling of the coupling between the transverse and longitudinal motion of strings indicates that the amplitude of the longitudinal waves are quadratically related to the transverse displacement of the string, however, experimental verification of this relationship is lacking. In the work reported here this relationship is tested by driving the transverse motion of a piano string at only two frequencies, which simplifies the task of unambiguously identifying the constituent signals. The results indicate that the generally accepted relationship between the transverse motion and the longitudinal motion is valid. It is further shown that this dependence on transverse displacement is a good approximation when a string is excited by the impact of the hammer during normal play.

The confining baryonic Y-strings on the lattice

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bakry, Ahmed S.; Chen, Xurong; Zhang, Peng-Ming

2016-01-22

In a string picture, the nucleon is conjectured as consisting of a Y-shaped gluonic string ended by constituent quarks. In this proceeding, we summarize our results on revealing the signature of the confining Y-bosonic string in the gluonic profile due to a system of three static quarks on the lattice at finite temperature. The analysis of the action density unveils a background of a filled-Δ distribution. However, we found that these Δ-shaped profiles are comprised of three Y-shaped Gaussian-like flux tubes. The length of the revealed Y-string-like distribution is maximum near the deconfinement point and approaches the geometrical minimal nearmore » the end of the QCD plateau. The action density width profile returns good fits to a baryonic string model for the junction fluctuations at large quark source separation.« less

String stabilized ribbon growth a method for seeding same

DOEpatents

Sachs, Emanuel M.

1987-08-25

This invention is a method of initiating or seeding the growth of a crystalline or polycrystalline ribbon by the String Stabilized Ribbon Growth Method. The method for seeding the crystal growth comprises contacting a melt surface with a seed and two strings used in edge stabilization. The wetted strings attach to the wetted seed as a result of the freezing of the liquid melt. Upon drawing the seed, which is attached to the strings, away from the melt surface a melt liquid meniscus, a seed junction, and a growth interface forms. Further pulling of the attached seed causes a crystal ribbon to grow at the growth interface. The boundaries of the growing ribbon are: at the top the seed junction, at the bottom the freezing boundary of the melt liquid meniscus, and at the edges frozen-in strings.

NanoStringNormCNV: pre-processing of NanoString CNV data.

PubMed

Sendorek, Dorota H; Lalonde, Emilie; Yao, Cindy Q; Sabelnykova, Veronica Y; Bristow, Robert G; Boutros, Paul C

2018-03-15

The NanoString System is a well-established technology for measuring RNA and DNA abundance. Although it can estimate copy number variation, relatively few tools support analysis of these data. To address this gap, we created NanoStringNormCNV, an R package for pre-processing and copy number variant calling from NanoString data. This package implements algorithms for pre-processing, quality-control, normalization and copy number variation detection. A series of reporting and data visualization methods support exploratory analyses. To demonstrate its utility, we apply it to a new dataset of 96 genes profiled on 41 prostate tumour and 24 matched normal samples. NanoStringNormCNV is implemented in R and is freely available at http://labs.oicr.on.ca/boutros-lab/software/nanostringnormcnv. paul.boutros@oicr.on.ca. Supplementary data are available at Bioinformatics online.

Pointless strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

Periwal, V.

1988-01-01

The author proves that bosonic string perturbation theory diverges and is not Borel summable. This is an indication of a non-perturbative instability of the bosonic string vacuum. He formulates two-dimensional sigma models in terms of algebras of functions. He extends this formulation to general C* algebras. He illustrates the utility of these algebraic notions by calculating some determinants of interest in the study of string propagation in orbifold backgrounds. He studies the geometry of spaces of field theories and show that the vanishing of the curvature of the natural Gel'fand-Naimark-Segal metric on such spaces is exactly the strong associativity conditionmore » of the operator product expansion.He shows that string scattering amplitudes arise as invariants of renormalization, when he formulates renormalization in terms of rescalings of the metric on the string world-sheet.« less

Black strings, low viscosity fluids, and violation of cosmic censorship.

PubMed

Lehner, Luis; Pretorius, Frans

2010-09-03

We describe the behavior of 5-dimensional black strings, subject to the Gregory-Laflamme instability. Beyond the linear level, the evolving strings exhibit a rich dynamics, where at intermediate stages the horizon can be described as a sequence of 3-dimensional spherical black holes joined by black string segments. These segments are themselves subject to a Gregory-Laflamme instability, resulting in a self-similar cascade, where ever-smaller satellite black holes form connected by ever-thinner string segments. This behavior is akin to satellite formation in low-viscosity fluid streams subject to the Rayleigh-Plateau instability. The simulation results imply that the string segments will reach zero radius in finite asymptotic time, whence the classical space-time terminates in a naked singularity. Since no fine-tuning is required to excite the instability, this constitutes a generic violation of cosmic censorship.

Abelian Higgs cosmic strings: Small-scale structure and loops

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hindmarsh, Mark; Stuckey, Stephanie; Bevis, Neil

2009-06-15

Classical lattice simulations of the Abelian Higgs model are used to investigate small-scale structure and loop distributions in cosmic string networks. Use of the field theory ensures that the small-scale physics is captured correctly. The results confirm analytic predictions of Polchinski and Rocha 29 for the two-point correlation function of the string tangent vector, with a power law from length scales of order the string core width up to horizon scale. An analysis of the size distribution of string loops gives a very low number density, of order 1 per horizon volume, in contrast with Nambu-Goto simulations. Further, our loopmore » distribution function does not support the detailed analytic predictions for loop production derived by Dubath et al. 30. Better agreement to our data is found with a model based on loop fragmentation 32, coupled with a constant rate of energy loss into massive radiation. Our results show a strong energy-loss mechanism, which allows the string network to scale without gravitational radiation, but which is not due to the production of string width loops. From evidence of small-scale structure we argue a partial explanation for the scale separation problem of how energy in the very low frequency modes of the string network is transformed into the very high frequency modes of gauge and Higgs radiation. We propose a picture of string network evolution, which reconciles the apparent differences between Nambu-Goto and field theory simulations.« less

Modulating the forces between self-assembling molecules to control the shape of vesicles and the mechanics and alignment of nanofiber networks

NASA Astrophysics Data System (ADS)

Greenfield, Megan Ann

One of the great challenges in supramolecular chemistry is the design of molecules that can self-assemble into functional aggregates with well-defined three-dimensional structures and bulk material properties. Since the self-assembly of nanostructures is greatly influenced by both the nature of the self-assembling components and the environmental conditions in which the components assemble, this work explores how changes in the molecular design and the environment affect the properties of self-assembled structures. We first explore how to control the mechanical properties of self-assembled fibrillar networks by changing environmental conditions. We report here on how changing pH, screening ions, and solution temperature affect the gelation, stiffness, and response to deformation of peptide amphiphile gels. Although the morphology of PA gels formed by charge neutralization and salt-mediated charge screening are similar by electron microscopy, rheological measurements indicate that the calcium-mediated ionic bridges in CaCl2-PA gels form stronger intra- and inter-fiber crosslinks than the hydrogen bonds formed by the protonated carboxylic acid residues in HCl-PA gels. In contrast, the structure of PA gels changes drastically when the PA solution is annealed prior to gel formation. Annealed PA solutions are birefringent and can form viscoelastic strings of aligned nanofibers when manually dragged across a thin film of CaCl2. These aligned arrays of PA nanofibers hold great promise in controlling the orientation of cells in three-dimensions. Separately, we applied the principles of molecular design to create buckled membrane nanostructures that mimic the shape of viruses. When oppositely charged amphiphilic molecules are mixed they can form vesicles with a periodic two-dimensional ionic lattice that opposes the membrane's natural curvature and can result in vesicle buckling. Our results demonstrate that a large +3 to -1 charge imbalance between the cationic and anionic head groups of amphiphiles enables their co-assembly into small buckled vesicles. In contrast to previous reports, the structures described here form without the rigorous exclusion of salt and are tolerant to physiological salt concentrations. Our work opens a new path for exploring how ionic laterally correlated domains can influence the morphology of self-assembled nanostructures.

Patch-based iterative conditional geostatistical simulation using graph cuts

NASA Astrophysics Data System (ADS)

Li, Xue; Mariethoz, Gregoire; Lu, DeTang; Linde, Niklas

2016-08-01

Training image-based geostatistical methods are increasingly popular in groundwater hydrology even if existing algorithms present limitations that often make real-world applications difficult. These limitations include a computational cost that can be prohibitive for high-resolution 3-D applications, the presence of visual artifacts in the model realizations, and a low variability between model realizations due to the limited pool of patterns available in a finite-size training image. In this paper, we address these issues by proposing an iterative patch-based algorithm which adapts a graph cuts methodology that is widely used in computer graphics. Our adapted graph cuts method optimally cuts patches of pixel values borrowed from the training image and assembles them successively, each time accounting for the information of previously stitched patches. The initial simulation result might display artifacts, which are identified as regions of high cost. These artifacts are reduced by iteratively placing new patches in high-cost regions. In contrast to most patch-based algorithms, the proposed scheme can also efficiently address point conditioning. An advantage of the method is that the cut process results in the creation of new patterns that are not present in the training image, thereby increasing pattern variability. To quantify this effect, a new measure of variability is developed, the merging index, quantifies the pattern variability in the realizations with respect to the training image. A series of sensitivity analyses demonstrates the stability of the proposed graph cuts approach, which produces satisfying simulations for a wide range of parameters values. Applications to 2-D and 3-D cases are compared to state-of-the-art multiple-point methods. The results show that the proposed approach obtains significant speedups and increases variability between realizations. Connectivity functions applied to 2-D models transport simulations in 3-D models are used to demonstrate that pattern continuity is preserved.

Fourier Analysis of a Vibrating String through a Low-Cost Experimental Setup and a Smartphone

ERIC Educational Resources Information Center

Pereyra, C. J.; Osorio, M.; Laguarda, A.; Gau, D. L.

2018-01-01

In this work we present a simple and low-cost setup to illustrate the dependence of the behaviour of a standing wave in a guitar string with the initial conditions. To do so, we impose two kinds of initial conditions; in the first instance, the initial shape of the string is varied. Secondly, different nodes are imposed on the string. This…

System and method for advanced power management

DOEpatents

Atcitty, Stanley [Albuquerque, NM; Symons, Philip C [Surprise, AZ; Butler, Paul C [Albuquerque, NM; Corey, Garth P [Albuquerque, NM

2009-07-28

A power management system is provided that includes a power supply means comprising a plurality of power supply strings, a testing means operably connected to said plurality of power supply strings for evaluating performance characteristics of said plurality of power supply strings, and a control means for monitoring power requirements and comprising a switching means for controlling switching of said plurality of power supply strings to said testing means.

K-theoretic aspects of string theory dualities

NASA Astrophysics Data System (ADS)

Mendez-Diez, Stefan Milo

String theory is a a physical field theory in which point particles are replaced by 1-manifolds propagating in time, called strings. The 2-manifold representing the time evolution of a string is called the string worldsheet. Strings can be either closed (meaning their worldsheets are closed surfaces) or open (meaning their worldsheets have boundary). A D-brane is a submanifold of the spacetime manifold on which string endpoints are constrained to lie. There are five different string theories that have supersymmetry, and they are all related by various dualities. This dissertation will review how D-branes are classified by K-theory. We will then explore the K-theoretic aspects of a hypothesized duality between the type I theory compactified on a 4-torus and the type IIA theory compactified on a K3 surface, by looking at a certain blow down of the singular limit of K3. This dissertation concludes by classifying D-branes on the type II orientifold Tn/Z2 when the Z2 action is multiplication by -1 and the H-flux is trivial. We find that classifying D-branes on the singular limit of K3, T4/Z2 by equivariant K-theory agrees with the classification of D-branes on a smooth K3 surface by ordinary K-theory.

CMB power spectrum contribution from cosmic strings using field-evolution simulations of the Abelian Higgs model

NASA Astrophysics Data System (ADS)

Bevis, Neil; Hindmarsh, Mark; Kunz, Martin; Urrestilla, Jon

2007-03-01

We present the first field-theoretic calculations of the contribution made by cosmic strings to the temperature power spectrum of the cosmic microwave background (CMB). Unlike previous work, in which strings were modeled as idealized one-dimensional objects, we evolve the simplest example of an underlying field theory containing local U(1) strings, the Abelian Higgs model. Limitations imposed by finite computational volumes are overcome using the scaling property of string networks and a further extrapolation related to the lessening of the string width in comoving coordinates. The strings and their decay products, which are automatically included in the field theory approach, source metric perturbations via their energy-momentum tensor, the unequal-time correlation functions of which are used as input into the CMB calculation phase. These calculations involve the use of a modified version of CMBEASY, with results provided over the full range of relevant scales. We find that the string tension μ required to normalize to the WMAP 3-year data at multipole ℓ=10 is Gμ=[2.04±0.06(stat.)±0.12(sys.)]×10-6, where we have quoted statistical and systematic errors separately, and G is Newton’s constant. This is a factor 2 3 higher than values in current circulation.

Spin chains and string theory.

PubMed

Kruczenski, Martin

2004-10-15

Recently, an important test of the anti de Sitter/conformal field theory correspondence has been done using rotating strings with two angular momenta. We show that such a test can be described more generally as the agreement between two actions: one a low energy description of a spin chain appearing in the field theory side, and the other a limit of the string action in AdS5xS5. This gives a map between the mean value of the spin in the boundary theory and the position of the string in the bulk, and shows how a string action can emerge from a gauge theory in the large-N limit.

Cosmic strings

NASA Technical Reports Server (NTRS)

Bennett, David P.

1988-01-01

Cosmic strings are linear topological defects which are predicted by some grand unified theories to form during a spontaneous symmetry breaking phase transition in the early universe. They are the basis for the only theories of galaxy formation aside from quantum fluctuations from inflation based on fundamental physics. In contrast to inflation, they can also be observed directly through gravitational lensing and their characterisitc microwave background anisotropy. It was recently discovered that details of cosmic string evolution are very differnt from the so-called standard model that was assumed in most of the string-induced galaxy formation calculations. Therefore, the details of galaxy formation in the cosmic string models are currently very uncertain.

The production of phantom partials due to nonlinearities in the structural components of the piano.

PubMed

Rokni, Eric; Neldner, Lauren M; Adkison, Camille; Moore, Thomas R

2017-10-01

Phantom partials are anomalous overtones in the spectrum of the piano sound that occur at sum and difference frequencies of the natural overtones of the string. Although they are commonly assumed to be produced by forced longitudinal waves in the string, analysis of the sound of a piano produced by mechanically vibrating the soundboard while all the strings are damped indicates that phantom partials can occur in the absence of string motion. The magnitude of the effect leads to the conclusion that nonlinearity in the non-string components may be responsible for some of the power in the phantom partials.

Analytical Solutions to Backreaction on Cosmic Strings

NASA Astrophysics Data System (ADS)

Wachter, Jeremy M.

2017-08-01

We present analytical studies of gravitational and electromagnetic backreaction on cosmic strings. For oscillating loops of cosmic string, we present a general argument for how kinks must change; additionally, we apply this general argument to the geometrically simple case of the Garfinkle-Vachaspati loop. Our results suggest that the formation of cusps on loops is delayed, and so we should expect fewer cuspy signatures to be seen in gravitational wave observations. Electromagnetic backreaction we show to reduce currents on a string at least as rapidly as necessary to avoid a paradox, and currents induced on a superconducting straight string will be asymptotically reduced to zero.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bierlich, Christian; Gustafson, Gösta; Lönnblad, Leif

In models for hadron collisions based on string hadronization, the strings are usually treated as independent, allowing no interaction between the confined colour fields. In studies of nucleus collisions it has been suggested that strings close in space can fuse to form "colour ropes." Such ropes are expected to give more strange particles and baryons, which also has been suggested as a signal for plasma formation. Overlapping strings can also be expected in pp collisions, where usually no phase transition is expected. In particular at the high LHC energies the expected density of strings is quite high. To investigate possiblemore » effects of rope formation, we present a model in which strings are allowed to combine into higher multiplets, giving rise to increased production of baryons and strangeness, or recombine into singlet structures and vanish. Also a crude model for strings recombining into junction structures is considered, again giving rise to increased baryon production. The models are implemented in the DIPSY MC event generator, using PYTHIA8 for hadronization, and comparison to pp minimum bias data, reveals improvement in the description of identified particle spectra.« less

Compression of strings with approximate repeats.

PubMed

Allison, L; Edgoose, T; Dix, T I

1998-01-01

We describe a model for strings of characters that is loosely based on the Lempel Ziv model with the addition that a repeated substring can be an approximate match to the original substring; this is close to the situation of DNA, for example. Typically there are many explanations for a given string under the model, some optimal and many suboptimal. Rather than commit to one optimal explanation, we sum the probabilities over all explanations under the model because this gives the probability of the data under the model. The model has a small number of parameters and these can be estimated from the given string by an expectation-maximization (EM) algorithm. Each iteration of the EM algorithm takes O(n2) time and a few iterations are typically sufficient. O(n2) complexity is impractical for strings of more than a few tens of thousands of characters and a faster approximation algorithm is also given. The model is further extended to include approximate reverse complementary repeats when analyzing DNA strings. Tests include the recovery of parameter estimates from known sources and applications to real DNA strings.

Don't Panic! Closed String Tachyons in ALE Spacetimes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Silverstein, Eva M

2001-08-20

We consider closed string tachyons localized at the fixed points of noncompact nonsupersymmetric orbifolds. We argue that tachyon condensation drives these orbifolds to flat space or supersymmetric ALE spaces. The decay proceeds via an expanding shell of dilaton gradients and curvature which interpolates between two regions of distinct angular geometry. The string coupling remains weak throughout. For small tachyon VEVs, evidence comes from quiver theories on D-branes probes, in which deformations by twisted couplings smoothly connect non-supersymmetric orbifolds to supersymmetric orbifolds of reduced order. For large tachyon VEVs, evidence comes from worldsheet RG flow and spacetime gravity. For C{sup 2}/Z{submore » n}, we exhibit infinite sequences of transitions producing SUSY ALE spaces via twisted closed string condensation from non-supersymmetric ALE spaces. In a T-dual description this provides a mechanism for creating NS5-branes via closed string tachyon condensation similar to the creation of D-branes via open string tachyon condensation. We also apply our results to recent duality conjectures involving fluxbranes and the type 0 string.« less

Level crossing analysis of cosmic microwave background radiation: a method for detecting cosmic strings

DOE Office of Scientific and Technical Information (OSTI.GOV)

Movahed, M. Sadegh; Khosravi, Shahram, E-mail: m.s.movahed@ipm.ir, E-mail: khosravi@ipm.ir

2011-03-01

In this paper we study the footprint of cosmic string as the topological defects in the very early universe on the cosmic microwave background radiation. We develop the method of level crossing analysis in the context of the well-known Kaiser-Stebbins phenomenon for exploring the signature of cosmic strings. We simulate a Gaussian map by using the best fit parameter given by WMAP-7 and then superimpose cosmic strings effects on it as an incoherent and active fluctuations. In order to investigate the capability of our method to detect the cosmic strings for the various values of tension, Gμ, a simulated puremore » Gaussian map is compared with that of including cosmic strings. Based on the level crossing analysis, the superimposed cosmic string with Gμ∼>4 × 10{sup −9} in the simulated map without instrumental noise and the resolution R = 1' could be detected. In the presence of anticipated instrumental noise the lower bound increases just up to Gμ∼>5.8 × 10{sup −9}.« less

The illusive sound of a Bundengan string

NASA Astrophysics Data System (ADS)

Parikesit, Gea O. F.; Kusumaningtyas, Indraswari

2017-09-01

The acoustics of a vibrating string is frequently used as a simple example of how physics can be applied in the field of art. In this paper we describe a simple experiment and analysis using a clipped string. This experiment can generate scientific curiosity among students because the sound generated by the string seem surprising to our senses. The first surprise comes from the gong-like sounds produced by the string, which we usually associate with metallic instruments rather than string instruments. The second surprise comes from the fact that when we shift the clip we perceive an increase of pitch, even though the measured value of the frequency with the maximum amplitude is actually decreased. We use high-speed video recording as well as audio spectral analysis to elucidate the physics behind these two surprises. A set of student activities is prepared to help them follow up their curiosity. Students can make their own clipped string, which is found in Indonesia in an instrument called Bundengan, by setting up their own prepared piano as invented by John Cage.

String theory, gauge theory and quantum gravity. Proceedings. Trieste Spring School and Workshop on String Theory, Gauge Theory and Quantum Gravity, Trieste (Italy), 11 - 22 Apr 1994.

NASA Astrophysics Data System (ADS)

1995-04-01

The following topics were dealt with: string theory, gauge theory, quantum gravity, quantum geometry, black hole physics and information loss, second quantisation of the Wilson loop, 2D Yang-Mills theory, topological field theories, equivariant cohomology, superstring theory and fermion masses, supergravity, topological gravity, waves in string cosmology, superstring theories, 4D space-time.

Specifications for Managed Strings, Second Edition

DTIC Science & Technology

2010-05-01

const char * cstr , const size_t maxsize, const char *charset); 10 | CMU/SEI-2010-TR-018 Runtime-Constraints s shall not be a null pointer...strcreate_m function creates a managed string, referenced by s, given a conventional string cstr (which may be null or empty). maxsize specifies the...characters to those in the null-terminated byte string cstr (which may be empty). If charset is a null pointer, no restricted character set is defined. If

Patterns of the cosmic microwave background from evolving string networks

NASA Technical Reports Server (NTRS)

Bouchet, Francois R.; Bennett, David P.; Stebbins, Albert

1988-01-01

A network of cosmic strings generated in the early universe may still exist today. As the strings move across the sky, they produce, by gravitational lensing, a characteristic pattern of anisotropies in the temperature of the cosmic microwave background. The observed absence of such anisotropies places constraints on theories in which galaxy formation is seeded by strings, but it is anticipated that the next generation of experiments will detect them.

Free field theory as a string theory?

NASA Astrophysics Data System (ADS)

Gopakumar, Rajesh

2004-11-01

An approach to systematically implement open-closed string duality for free large N gauge theories is summarised. We show how the relevant closed string moduli space emerges from a reorganisation of the Feynman diagrams contributing to free field correlators. We also indicate why the resulting integrand on moduli space has the right features to be that of a string theory on AdS. To cite this article: R. Gopakumar, C. R. Physique 5 (2004).

Holography and noncommutative yang-mills theory

PubMed

Li; Wu

2000-03-06

In this Letter a recently proposed gravity dual of noncommutative Yang-Mills theory is derived from the relations between closed string moduli and open string moduli recently suggested by Seiberg and Witten. The only new input one needs is a simple form of the running string tension as a function of energy. This derivation provides convincing evidence that string theory integrates with the holographical principle and demonstrates a direct link between noncommutative Yang-Mills theory and holography.

String Fragmentation Model in Space Radiation Problems

NASA Technical Reports Server (NTRS)

Tang, Alfred; Johnson, Eloise (Editor); Norbury, John W.; Tripathi, R. K.

2002-01-01

String fragmentation models such as the Lund Model fit experimental particle production cross sections very well in the high-energy limit. This paper gives an introduction of the massless relativistic string in the Lund Model and shows how it can be modified with a simple assumption to produce formulas for meson production cross sections for space radiation research. The results of the string model are compared with inclusive pion production data from proton-proton collision experiments.

The relationship of document and quantitative literacy with learning styles and selected personal variables for aerospace technology students at Indiana State University

NASA Astrophysics Data System (ADS)

Martin, Royce Ann

The purpose of this study was to determine the extent that student scores on a researcher-constructed quantitative and document literacy test, the Aviation Documents Delineator (ADD), were associated with (a) learning styles (imaginative, analytic, common sense, dynamic, and undetermined), as identified by the Learning Type Measure, (b) program curriculum (aerospace administration, professional pilot, both aerospace administration and professional pilot, other, or undeclared), (c) overall cumulative grade point average at Indiana State University, and (d) year in school (freshman, sophomore, junior, or senior). The Aviation Documents Delineator (ADD) was a three-part, 35 question survey that required students to interpret graphs, tables, and maps. Tasks assessed in the ADD included (a) locating, interpreting, and describing specific data displayed in the document, (b) determining data for a specified point on the table through interpolation, (c) comparing data for a string of variables representing one aspect of aircraft performance to another string of variables representing a different aspect of aircraft performance, (d) interpreting the documents to make decisions regarding emergency situations, and (e) performing single and/or sequential mathematical operations on a specified set of data. The Learning Type Measure (LTM) was a 15 item self-report survey developed by Bernice McCarthy (1995) to profile an individual's processing and perception tendencies in order to reveal different individual approaches to learning. The sample used in this study included 143 students enrolled in Aerospace Technology Department courses at Indiana State University in the fall of 1996. The ADD and the LTM were administered to each subject. Data collected in this investigation were analyzed using a stepwise multiple regression analysis technique. Results of the study revealed that the variables, year in school and GPA, were significant predictors of the criterion variables, document, quantitative, and total literacy, when utilizing the ADD. The variables learning style and program of study were found not to be significant predictors of literacy scores on the ADD instrument.

Effect of the cosmological constant on the deflection angle by a rotating cosmic string

NASA Astrophysics Data System (ADS)

Jusufi, Kimet; Övgün, Ali

2018-03-01

We report the effect of the cosmological constant and the internal energy density of a cosmic string on the deflection angle of light in the spacetime of a rotating cosmic string with internal structure. We first revisit the deflection angle by a rotating cosmic string and then provide a generalization using the geodesic equations and the Gauss-Bonnet theorem. We show there is an agreement between the two methods when employing higher-order terms of the linear mass density of the cosmic string. By modifying the integration domain for the global conical topology, we resolve the inconsistency between these two methods previously reported in the literature. We show that the deflection angle is not affected by the rotation of the cosmic string; however, the cosmological constant Λ strongly affects the deflection angle, which generalizes the well-known result.

Vibration of a string against multiple spring-mass-damper stoppers

NASA Astrophysics Data System (ADS)

Shin, Ji-Hwan; Talib, Ezdiani; Kwak, Moon K.

2018-02-01

When a building sways due to strong wind or an earthquake, the elevator rope can undergo resonance, resulting in collision with the hoist-way wall. In this study, a hard stopper and a soft stopper comprised of a spring-mass-damper system installed along the hoist-way wall were considered to prevent the string from undergoing excessive vibrations. The collision of the string with multiple hard stoppers and multiple spring-mass-damper stoppers was investigated using an analytical method. The result revealed new formulas and computational algorithms that are suitable for simulating the vibration of the string against multiple stoppers. The numerical results show that the spring-mass-damper stopper is more effective in suppressing the vibrations of the string and reducing structural failure. The proposed algorithms were shown to be efficient to simulate the motion of the string against a vibration stopper.

String theory of the Regge intercept.

PubMed

Hellerman, S; Swanson, I

2015-03-20

Using the Polchinski-Strominger effective string theory in the covariant gauge, we compute the mass of a rotating string in D dimensions with large angular momenta J, in one or two planes, in fixed ratio, up to and including first subleading order in the large J expansion. This constitutes a first-principles calculation of the value for the order-J(0) contribution to the mass squared of a meson on the leading Regge trajectory in planar QCD with bosonic quarks. For open strings with Neumann boundary conditions, and for closed strings in D≥5, the order-J(0) term in the mass squared is exactly calculated by the semiclassical approximation. This term in the expansion is universal and independent of the details of the theory, assuming only D-dimensional Poincaré invariance and the absence of other infinite-range excitations on the string world volume, beyond the Nambu-Goldstone bosons.

Note on tachyon actions in string theory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Headrick, Matthew

2009-02-15

A number of spacetime fields in string theory (notably the metric, dilaton, bosonic and type 0 bulk closed-string tachyon, and bosonic open-string tachyon) have the following property: whenever the spacetime field configuration factorizes in an appropriate sense, the matter sector of the world-sheet theory factorizes into a tensor product of two decoupled theories. Since the beta functions for such a product theory necessarily also factorize, this property strongly constrains the form of the spacetime action encoding those beta functions. We show that this constraint alone--without needing actually to compute any of the beta functions--is sufficient to fix the form ofmore » the two-derivative action for the metric-dilaton system, as well as the potential for the bosonic open-string tachyon. We also show that no action consistent with this constraint exists for the closed-string tachyon coupled to the metric and dilaton.« less

Superconducting Strings in High Density QCD

NASA Astrophysics Data System (ADS)

Buckley, Kirk B. W.

2003-02-01

Recently it has been argued that the ground state of high density QCD is likely to be a combination of the CFL-phase along with condensation of the K0 field. This state spontaneously breaks a global U(1)Y symmetry, therefore one would expect the formation of U(1)Y global strings. We discuss the core structure of these strings and demonstrate that under some conditions the global U(1)Y symmetry may not be restored inside the string. Instead, K+ condensation occurs inside the core of the string if a relevant parameter \\cos θ {K0 } ≡ {{m{K0 }2 } {/ {{m{K0 }2 } {μ eff2 }}} ; . } {μ eff2 }} is larger than some critical value θK° ≥ θcrit. If this phenomenon happens, the U(1)Y strings become superconducting and may considerably influence the magnetic properties of dense quark matter, in particular in neutron stars.

Prior familiarity with components enhances unconscious learning of relations.

PubMed

Scott, Ryan B; Dienes, Zoltan

2010-03-01

The influence of prior familiarity with components on the implicit learning of relations was examined using artificial grammar learning. Prior to training on grammar strings, participants were familiarized with either the novel symbols used to construct the strings or with irrelevant geometric shapes. Participants familiarized with the relevant symbols showed greater accuracy when judging the correctness of new grammar strings. Familiarity with elemental components did not increase conscious awareness of the basis for discriminations (structural knowledge) but increased accuracy even in its absence. The subjective familiarity of test strings predicted grammaticality judgments. However, prior exposure to relevant symbols did not increase overall test string familiarity or reliance on familiarity when making grammaticality judgments. Familiarity with the symbols increased the learning of relations between them (bigrams and trigrams) thus resulting in greater familiarity for grammatical versus ungrammatical strings. The results have important implications for models of implicit learning.

Stiff self-interacting strings at high temperature QCD

NASA Astrophysics Data System (ADS)

S Bakry, A.; Chen, X.; Deliyergiyev, M.; Galal, A.; Khalaf, A.; M Pengming, P.

2018-03-01

We investigate the implications of Nambu-Goto (NG), Lüscher Weisz (LW) and Polyakov-Kleinert (PK) effective string actions for the Casimir energy and the width of the quantum delocalization of the string in 4-dim pure SU(3) Yang-Mills lattice gauge theory. At a temperature closer to the critical point T/Tc=0.9, we found that the next to leading-order (NLO) contributions from the expansion of the NG string in addition to the boundary terms in LW action to decrease the deviations from the lattice data in the intermediate distance scales for both the quark-antiquark QQ̅ potential and broadening of the color tube compared to the free string approximation. We conjecture possible stiffness of the QCD string through studying the effects of extrinsic curvature term in PK action and find a good fitting behavior for the lattice Monte-Carlo data at both long and intermediate quark separations regions.

High redshift signatures in the 21 cm forest due to cosmic string wakes

NASA Astrophysics Data System (ADS)

Tashiro, Hiroyuki; Sekiguchi, Toyokazu; Silk, Joseph

2014-01-01

Cosmic strings induce minihalo formation in the early universe. The resultant minihalos cluster in string wakes and create a ``21 cm forest'' against the cosmic microwave background (CMB) spectrum. Such a 21 cm forest can contribute to angular fluctuations of redshifted 21 cm signals integrated along the line of sight. We calculate the root-mean-square amplitude of the 21 cm fluctuations due to strings and show that these fluctuations can dominate signals from minihalos due to primordial density fluctuations at high redshift (zgtrsim10), even if the string tension is below the current upper bound, Gμ < 1.5 × 10-7. Our results also predict that the Square Kilometre Array (SKA) can potentially detect the 21 cm fluctuations due to strings with Gμ ≈ 7.5 × 10-8 for the single frequency band case and 4.0 × 10-8 for the multi-frequency band case.

Termination Proofs for String Rewriting Systems via Inverse Match-Bounds

NASA Technical Reports Server (NTRS)

Butler, Ricky (Technical Monitor); Geser, Alfons; Hofbauer, Dieter; Waldmann, Johannes

2004-01-01

Annotating a letter by a number, one can record information about its history during a reduction. A string rewriting system is called match-bounded if there is a global upper bound to these numbers. In earlier papers we established match-boundedness as a strong sufficient criterion for both termination and preservation of regular languages. We show now that the string rewriting system whose inverse (left and right hand sides exchanged) is match-bounded, also have exceptional properties, but slightly different ones. Inverse match-bounded systems effectively preserve context-free languages; their sets of normalized strings and their sets of immortal strings are effectively regular. These sets of strings can be used to decide the normalization, the termination and the uniform termination problems of inverse match-bounded systems. We also show that the termination problem is decidable in linear time, and that a certain strong reachability problem is deciable, thus solving two open problems of McNaughton's.

The effect of gas and fluid flows on nonlinear lateral vibrations of rotating drill strings

NASA Astrophysics Data System (ADS)

Khajiyeva, Lelya; Kudaibergenov, Askar; Kudaibergenov, Askat

2018-06-01

In this work we develop nonlinear mathematical models describing coupled lateral vibrations of a rotating drill string under the effect of external supersonic gas and internal fluid flows. An axial compressive load and a torque also affect the drill string. The mathematical models are derived by the use of Novozhilov's nonlinear theory of elasticity with implementation of Hamilton's variation principle. Expressions for the gas flow pressure are determined according to the piston theory. The fluid flow is considered as added mass inside the curved tube of the drill string. Using an algorithm developed in the Mathematica computation program on the basis of the Galerkin approach and the stiffness switching method the numerical solution of the obtained approximate differential equations is found. Influences of the external loads, drill string angular speed of rotation, parameters of the gas and fluid flows on the drill string vibrations are shown.

On-orbit assembly of a team of flexible spacecraft using potential field based method

NASA Astrophysics Data System (ADS)

Chen, Ti; Wen, Hao; Hu, Haiyan; Jin, Dongping

2017-04-01

In this paper, a novel control strategy is developed based on artificial potential field for the on-orbit autonomous assembly of four flexible spacecraft without inter-member collision. Each flexible spacecraft is simplified as a hub-beam model with truncated beam modes in the floating frame of reference and the communication graph among the four spacecraft is assumed to be a ring topology. The four spacecraft are driven to a pre-assembly configuration first and then to the assembly configuration. In order to design the artificial potential field for the first step, each spacecraft is outlined by an ellipse and a virtual leader of circle is introduced. The potential field mainly depends on the attitude error between the flexible spacecraft and its neighbor, the radial Euclidian distance between the ellipse and the circle and the classical Euclidian distance between the centers of the ellipse and the circle. It can be demonstrated that there are no local minima for the potential function and the global minimum is zero. If the function is equal to zero, the solution is not a certain state, but a set. All the states in the set are corresponding to the desired configurations. The Lyapunov analysis guarantees that the four spacecraft asymptotically converge to the target configuration. Moreover, the other potential field is also included to avoid the inter-member collision. In the control design of the second step, only small modification is made for the controller in the first step. Finally, the successful application of the proposed control law to the assembly mission is verified by two case studies.

Packaging signals in two single-stranded RNA viruses imply a conserved assembly mechanism and geometry of the packaged genome.

PubMed

Dykeman, Eric C; Stockley, Peter G; Twarock, Reidun

2013-09-09

The current paradigm for assembly of single-stranded RNA viruses is based on a mechanism involving non-sequence-specific packaging of genomic RNA driven by electrostatic interactions. Recent experiments, however, provide compelling evidence for sequence specificity in this process both in vitro and in vivo. The existence of multiple RNA packaging signals (PSs) within viral genomes has been proposed, which facilitates assembly by binding coat proteins in such a way that they promote the protein-protein contacts needed to build the capsid. The binding energy from these interactions enables the confinement or compaction of the genomic RNAs. Identifying the nature of such PSs is crucial for a full understanding of assembly, which is an as yet untapped potential drug target for this important class of pathogens. Here, for two related bacterial viruses, we determine the sequences and locations of their PSs using Hamiltonian paths, a concept from graph theory, in combination with bioinformatics and structural studies. Their PSs have a common secondary structure motif but distinct consensus sequences and positions within the respective genomes. Despite these differences, the distributions of PSs in both viruses imply defined conformations for the packaged RNA genomes in contact with the protein shell in the capsid, consistent with a recent asymmetric structure determination of the MS2 virion. The PS distributions identified moreover imply a preferred, evolutionarily conserved assembly pathway with respect to the RNA sequence with potentially profound implications for other single-stranded RNA viruses known to have RNA PSs, including many animal and human pathogens. Copyright © 2013 Elsevier Ltd. All rights reserved.

Classical probes of string/gauge theory duality

NASA Astrophysics Data System (ADS)

Ishizeki, Riei

The AdS/CFT correspondence has played an important role in the recent development of string theory. The reason is that it proposes a description of certain gauge theories in terms of string theory. It is such that simple string theory computations give information about the strong coupling regime of the gauge theory. Vice versa, gauge theory computations give information about string theory and quantum gravity. Although much is known about AdS/CFT, the precise map between the two sides of the correspondence is not completely understood. In the unraveling of such map classical string solutions play a vital role. In this thesis, several classical string solutions are proposed to help understand the AdS/CFT duality. First, rigidly rotating strings on a two-sphere are studied. Taking special limits of such solutions leads to two cases: the already known giant magnon solution, and a new solution which we call the single spike solution. Next, we compute the scattering phase shift of the single spike solutions and compare the result with the giant magnon solutions. Intriguingly, the results are the same up to non-logarithmic terms, indicating that the single spike solution should have the same rich spin chain structure as the giant magnon solution. Afterward, we consider open string solutions ending on the boundary of AdS5. The lines traced by the ends of such open strings can be viewed as Wilson loops in N = 4 SYM theory. After applying an inversion transformation, the open Wilson loops become closed Wilson loops whose expectation value is consistent with previously conjectured results. Next, several Wilson loops for N = 4 SYM in an AdS5 pp-wave background are considered and translated to the pure AdS 5 background and their interpretation as forward quark-gluon scattering is suggested. In the last part of this thesis, a class of classical solutions for closed strings moving in AdS3 x S 1 ⊂ AdS5 x S5 with energy E and spin S in AdS3 and angular momentum J and winding m in S1 is explained. The relation between different limits of the spiky string solution with the Landau-Lifshitz model is of particular interest. The presented solutions provide new classes of string motion that are used to better understand the AdS/CFT correspondence, including the single spike solution and previously unknown examples of supersymmetric Wilson loops.

Composite drill pipe and method for forming same

DOEpatents

Leslie, James C; Leslie, II, James C; Heard, James; Truong, Liem V; Josephson, Marvin

2012-10-16

A lightweight and durable drill pipe string capable of short radius drilling formed using a composite pipe segment formed to include tapered wall thickness ends that are each defined by opposed frustoconical surfaces conformed for self-aligning receipt and intimate bonding contact within an annular space between corresponding surfaces of a coaxially nested set of metal end pieces and a set of nonconductive sleeves. The distal peripheries of the nested end pieces and sleeves are then welded to each other and the sandwiched and bonded portions are radially pinned. The composite segment may include imbedded conductive leads and the axial end portions of the end pieces are shaped to form a threaded joint with the next pipe assembly that includes contact rings in the opposed surfaces of the pipe joint for contact together.

Long stroke jar bumper sub with safety sleeve

DOE Office of Scientific and Technical Information (OSTI.GOV)

Downen, J.L.; Sutliff, W.N.

1981-04-14

A hydraulic jar apparatus to be disposed in a drilling string embodying inner and outer telescopically arranged elements. Overlapping portions of the elements provide an annual chamber confining an operating liquid by an annular seal fixed to the outer element at the lower end of the chamber and an annular polly pack seal fixed to the outer element at the upper end of the chamber. A piston is extended radially from the inner element into the chamber and the chamber is divided by a cylinder on the outer element into low and high pressure sections. Impact shoulders are provided onmore » the elements in axially opposed relation to produce a jarring blow and the elements are telescopically coupled by a hexagonal spline sub assembly.« less

Overview of crew member energy expenditure during Shuttle Flight 61-8 EASE/ACCESS task performance

NASA Technical Reports Server (NTRS)

Horrigan, D. J.; Waligora, J. W.; Stanford, J.; Edwards, B. F.

1987-01-01

The energy expenditure of the Shuttle Flight 61-B crewmembers during the extravehicular performance of Experimental Assembly of Structures in EVA (EASE) and Assembly Concept of Construction of Space Structures (ACCESS) construction system tasks are reported. These data consist of metabolic rate time profiles correlated with specific EASE and ACCESS tasks and crew comments. Average extravehicular activity metabolic rates are computed and compared with those reported from previous Apollo, Shylab, and Shuttle flights. These data reflect total energy expenditure and not that of individual muscle groups such as hand and forearm. When correlated with specific EVA tasks and subtasks, the metabolic profile data is expected to be useful in planning future EVA protocols. For example, after experiencing high work rates and apparent overheating during some Gemini EVAs, it was found useful to carefully monitor work rates in subsequent flights to assess the adequacy of cooling garments and as an aid to preplanning EVA procedures. This presentation is represented by graphs and charts.

Multi-scale structural community organisation of the human genome.

PubMed

Boulos, Rasha E; Tremblay, Nicolas; Arneodo, Alain; Borgnat, Pierre; Audit, Benjamin

2017-04-11

Structural interaction frequency matrices between all genome loci are now experimentally achievable thanks to high-throughput chromosome conformation capture technologies. This ensues a new methodological challenge for computational biology which consists in objectively extracting from these data the structural motifs characteristic of genome organisation. We deployed the fast multi-scale community mining algorithm based on spectral graph wavelets to characterise the networks of intra-chromosomal interactions in human cell lines. We observed that there exist structural domains of all sizes up to chromosome length and demonstrated that the set of structural communities forms a hierarchy of chromosome segments. Hence, at all scales, chromosome folding predominantly involves interactions between neighbouring sites rather than the formation of links between distant loci. Multi-scale structural decomposition of human chromosomes provides an original framework to question structural organisation and its relationship to functional regulation across the scales. By construction the proposed methodology is independent of the precise assembly of the reference genome and is thus directly applicable to genomes whose assembly is not fully determined.

The complete mitochondrial genome of the desert darkling beetle Asbolus verrucosus (Coleoptera, Tenebrionidae).

PubMed

Rider, Stanley Dean

2016-07-01

The complete mitochondrial genome of the desert darkling beetle Asbolus verrucosus (LeConte, 1851) was sequenced using paired-end technology to an average depth of 42,111× and assembled using De Bruijn graph-based methods. The genome is 15,828 bp in length and conforms to the basal arthropod mitochondrial gene composition with the same gene orders and orientations as other darkling beetle mitochondria. This arrangement includes a control region, 22 tRNA genes, 2 rRNA genes and 13 protein-coding genes. The main coding strand is probably replicated as the lagging strand (GC skew of -0.36 and AT skew of +0.19). Phylogenomics analyses are consistent with taxonomic classifications and indicate that Tenebrio molitor is the closest relative that has a completely sequenced mitochondrial genome available for analysis. This is the first fully assembled mitogenome sequence for a darkling beetle in the subfamily Pimeliinae and will be useful for population studies on members of this ecologically important group of beetles.

Walking tree heuristics for biological string alignment, gene location, and phylogenies

NASA Astrophysics Data System (ADS)

Cull, P.; Holloway, J. L.; Cavener, J. D.

1999-03-01

Basic biological information is stored in strings of nucleic acids (DNA, RNA) or amino acids (proteins). Teasing out the meaning of these strings is a central problem of modern biology. Matching and aligning strings brings out their shared characteristics. Although string matching is well-understood in the edit-distance model, biological strings with transpositions and inversions violate this model's assumptions. We propose a family of heuristics called walking trees to align biologically reasonable strings. Both edit-distance and walking tree methods can locate specific genes within a large string when the genes' sequences are given. When we attempt to match whole strings, the walking tree matches most genes, while the edit-distance method fails. We also give examples in which the walking tree matches substrings even if they have been moved or inverted. The edit-distance method was not designed to handle these problems. We include an example in which the walking tree "discovered" a gene. Calculating scores for whole genome matches gives a method for approximating evolutionary distance. We show two evolutionary trees for the picornaviruses which were computed by the walking tree heuristic. Both of these trees show great similarity to previously constructed trees. The point of this demonstration is that WHOLE genomes can be matched and distances calculated. The first tree was created on a Sequent parallel computer and demonstrates that the walking tree heuristic can be efficiently parallelized. The second tree was created using a network of work stations and demonstrates that there is suffient parallelism in the phylogenetic tree calculation that the sequential walking tree can be used effectively on a network.