A Tutorial for Building CMMI Process Performance Models

DTIC Science & Technology

2010-04-26

70 90 120 1 0~-----0~----~ 2 Arch itecture/ Design All New Code M ajor Reuse of Code 55 70 90 8 10 15 2 0~-----0~----~ 3 Code All New Code M ajor...Robert Stoddard and Dave Zubrow © 2010 Carnegie Mellon University t "’ ·=··=· "’ •• ,. ...... ,. .... ~ .00 1 Arch [’ <si!JI ~h~;,...o ’ .. CodeChoice...Carnegie Mellon University : • Fit Model It; b][g~ El Model Select Columns 41111Delivered0efect; 411111nspection0 efect ..ollllnspectionCover

Ray Methods for Acoustic Scattering, Optics Of Bubbles, Diffraction Catastrophes, and Nonlinear Acoustics.

DTIC Science & Technology

1992-11-24

15 Code I: Internal Reports ................................................................. 19 Code M : Oral...experiments. 13. S. M . Baumer: completed M.S. thesis in 1988 on light scattering. 14. C. E. Dean: completed Ph.D. dissertation in 1989 on light...novel oscillation induced flow instabilities. 18. J. M . Winey: awarded M.S. degree in 1990 with project on capillary wave experiments. He

Agreement between hospital discharge diagnosis codes and medical records to identify metastatic colorectal cancer and associated comorbidities in elderly patients.

PubMed

Gouverneur, A; Dolatkhani, D; Rouyer, M; Grelaud, A; Francis, F; Gilleron, V; Fourrier-Réglat, A; Noize, P

2017-08-01

Quality of coding to identify cancers and comorbidities through the French hospital diagnosis database (Programme de médicalisation des systèmes d'information, PMSI) has been little investigated. Agreement between medical records and PMSI database was evaluated regarding metastatic colorectal cancer (mCRC) and comorbidities. From 01/01/2013 to 06/30/2014, 74 patients aged≥65years at mCRC diagnosis were identified in Bordeaux teaching hospital. Data on mCRC and comorbidities were collected from medical records. All diagnosis codes (main, related and associated) registered into the PMSI were extracted. Agreement between sources was evaluated using the percent agreement for mCRC and the kappa (κ) statistic for comorbidities. Agreement for primary CRC and mCRC was higher using all types of diagnosis codes instead of the main one exclusively (respectively 95% vs. 53% for primary CRC and 91% vs. 24% for mCRC). Agreement was substantial (κ 0.65) for cardiovascular diseases, notably atrial fibrillation (κ 0.77) and hypertension (κ 0.68). It was moderate for psychiatric disorders (κ 0.49) and respiratory diseases (κ 0.48), although chronic obstructive pulmonary disease had a good agreement (κ 0.75). Within the class of endocrine, nutritional and metabolic diseases (κ 0.55), agreement was substantial for diabetes (κ 0.91), obesity (κ 0.82) and hypothyroidism (κ 0.72) and moderate for hypercholesterolemia (κ 0.51) and malnutrition (κ 0.42). These results are reassuring with regard to detection through PMSI of mCRC if all types of diagnosis codes are considered and useful to better choose comorbidities in elderly mCRC patients that could be well identified through hospital diagnosis codes. Copyright © 2017 Elsevier Masson SAS. All rights reserved.

Distillation with Sublogarithmic Overhead.

PubMed

Hastings, Matthew B; Haah, Jeongwan

2018-02-02

It has been conjectured that, for any distillation protocol for magic states for the T gate, the number of noisy input magic states required per output magic state at output error rate ε is Ω[log(1/ε)]. We show that this conjecture is false. We find a family of quantum error correcting codes of parameters ⟦∑[under i=w+1][over m](m/i),∑[under i=0][over w](m/i),∑[under i=w+1][over r+1](r+1/i)⟧ for any integers m>2r, r>w≥0, by puncturing quantum Reed-Muller codes. When m>νr, our code admits a transversal logical gate at the νth level of Clifford hierarchy. In a distillation protocol for magic states at the level ν=3 (T gate), the ratio of input to output magic states is O(log^{γ}(1/ε)), where γ=log(n/k)/log(d)<0.678 for some m, r, w. The smallest code in our family for which γ<1 is on ≈2^{58} qubits.

OPTIMASS: a package for the minimization of kinematic mass functions with constraints

NASA Astrophysics Data System (ADS)

Cho, Won Sang; Gainer, James S.; Kim, Doojin; Lim, Sung Hak; Matchev, Konstantin T.; Moortgat, Filip; Pape, Luc; Park, Myeonghun

2016-01-01

Reconstructed mass variables, such as M 2, M 2 C , M T * , and M T2 W , play an essential role in searches for new physics at hadron colliders. The calculation of these variables generally involves constrained minimization in a large parameter space, which is numerically challenging. We provide a C++ code, O ptimass, which interfaces with the M inuit library to perform this constrained minimization using the Augmented Lagrangian Method. The code can be applied to arbitrarily general event topologies, thus allowing the user to significantly extend the existing set of kinematic variables. We describe this code, explain its physics motivation, and demonstrate its use in the analysis of the fully leptonic decay of pair-produced top quarks using M 2 variables.

A supersonic three-dimensional code for flow over blunt bodies: Program documentation and test cases

NASA Technical Reports Server (NTRS)

Chaussee, D. S.; Mcmillan, O. J.

1980-01-01

The use of a computer code for the calculation of steady, supersonic, three dimensional, inviscid flow over blunt bodies is illustrated. Input and output are given and explained for two cases: a pointed code of 20 deg half angle at 15 deg angle of attack in a free stream with M sub infinite = 7, and a cone-ogive-cylinder at 10 deg angle of attack with M sub infinite = 2.86. A source listing of the computer code is provided.

Performance analysis of a cascaded coding scheme with interleaved outer code

NASA Technical Reports Server (NTRS)

Lin, S.

1986-01-01

A cascaded coding scheme for a random error channel with a bit-error rate is analyzed. In this scheme, the inner code C sub 1 is an (n sub 1, m sub 1l) binary linear block code which is designed for simultaneous error correction and detection. The outer code C sub 2 is a linear block code with symbols from the Galois field GF (2 sup l) which is designed for correcting both symbol errors and erasures, and is interleaved with a degree m sub 1. A procedure for computing the probability of a correct decoding is presented and an upper bound on the probability of a decoding error is derived. The bound provides much better results than the previous bound for a cascaded coding scheme with an interleaved outer code. Example schemes with inner codes ranging from high rates to very low rates are evaluated. Several schemes provide extremely high reliability even for very high bit-error rates say 10 to the -1 to 10 to the -2 power.

Coding and Billing in Surgical Education: A Systems-Based Practice Education Program.

PubMed

Ghaderi, Kimeya F; Schmidt, Scott T; Drolet, Brian C

Despite increased emphasis on systems-based practice through the Accreditation Council for Graduate Medical Education core competencies, few studies have examined what surgical residents know about coding and billing. We sought to create and measure the effectiveness of a multifaceted approach to improving resident knowledge and performance of documenting and coding outpatient encounters. We identified knowledge gaps and barriers to documentation and coding in the outpatient setting. We implemented a series of educational and workflow interventions with a group of 12 residents in a surgical clinic at a tertiary care center. To measure the effect of this program, we compared billing codes for 1 year before intervention (FY2012) to prospectively collected data from the postintervention period (FY2013). All related documentation and coding were verified by study-blinded auditors. Interventions took place at the outpatient surgical clinic at Rhode Island Hospital, a tertiary-care center. A cohort of 12 plastic surgery residents ranging from postgraduate year 2 through postgraduate year 6 participated in the interventional sequence. A total of 1285 patient encounters in the preintervention group were compared with 1170 encounters in the postintervention group. Using evaluation and management codes (E&M) as a measure of documentation and coding, we demonstrated a significant and durable increase in billing with supporting clinical documentation after the intervention. For established patient visits, the monthly average E&M code level increased from 2.14 to 3.05 (p < 0.01); for new patients the monthly average E&M level increased from 2.61 to 3.19 (p < 0.01). This study describes a series of educational and workflow interventions, which improved resident coding and billing of outpatient clinic encounters. Using externally audited coding data, we demonstrate significantly increased rates of higher complexity E&M coding in a stable patient population based on improved documentation and billing awareness by the residents. Copyright © 2017 Association of Program Directors in Surgery. Published by Elsevier Inc. All rights reserved.

Fault-tolerant conversion between adjacent Reed-Muller quantum codes based on gauge fixing

NASA Astrophysics Data System (ADS)

Quan, Dong-Xiao; Zhu, Li-Li; Pei, Chang-Xing; Sanders, Barry C.

2018-03-01

We design forward and backward fault-tolerant conversion circuits, which convert between the Steane code and the 15-qubit Reed-Muller quantum code so as to provide a universal transversal gate set. In our method, only seven out of a total 14 code stabilizers need to be measured, and we further enhance the circuit by simplifying some stabilizers; thus, we need only to measure eight weight-4 stabilizers for one round of forward conversion and seven weight-4 stabilizers for one round of backward conversion. For conversion, we treat random single-qubit errors and their influence on syndromes of gauge operators, and our novel single-step process enables more efficient fault-tolerant conversion between these two codes. We make our method quite general by showing how to convert between any two adjacent Reed-Muller quantum codes \\overline{\\textsf{RM}}(1,m) and \\overline{\\textsf{RM}}≤ft(1,m+1\\right) , for which we need only measure stabilizers whose number scales linearly with m rather than exponentially with m obtained in previous work. We provide the explicit mathematical expression for the necessary stabilizers and the concomitant resources required.

Connections Underlying Translation and mRNA Stability.

PubMed

Radhakrishnan, Aditya; Green, Rachel

2016-09-11

Gene expression and regulation in organisms minimally depends on transcription by RNA polymerase and on the stability of the RNA product (for both coding and non-coding RNAs). For coding RNAs, gene expression is further influenced by the amount of translation by the ribosome and by the stability of the protein product. The stabilities of these two classes of RNA, non-coding and coding, vary considerably: tRNAs and rRNAs tend to be long lived while mRNAs tend to be more short lived. Even among mRNAs, however, there is a considerable range in stability (ranging from seconds to hours in bacteria and up to days in metazoans), suggesting a significant role for stability in the regulation of gene expression. Here, we review recent experiments from bacteria, yeast and metazoans indicating that the stability of most mRNAs is broadly impacted by the actions of ribosomes that translate them. Ribosomal recognition of defective mRNAs triggers "mRNA surveillance" pathways that target the mRNA for degradation [Shoemaker and Green (2012) ]. More generally, even the stability of perfectly functional mRNAs appears to be dictated by overall rates of translation by the ribosome [Herrick et al. (1990), Presnyak et al. (2015) ]. Given that mRNAs are synthesized for the purpose of being translated into proteins, it is reassuring that such intimate connections between mRNA and the ribosome can drive biological regulation. In closing, we consider the likelihood that these connections between protein synthesis and mRNA stability are widespread or whether other modes of regulation dominate the mRNA stability landscape in higher organisms. Copyright © 2016. Published by Elsevier Ltd.

Rooted tRNAomes and evolution of the genetic code

PubMed Central

Pak, Daewoo; Du, Nan; Kim, Yunsoo; Sun, Yanni

2018-01-01

ABSTRACT We advocate for a tRNA- rather than an mRNA-centric model for evolution of the genetic code. The mechanism for evolution of cloverleaf tRNA provides a root sequence for radiation of tRNAs and suggests a simplified understanding of code evolution. To analyze code sectoring, rooted tRNAomes were compared for several archaeal and one bacterial species. Rooting of tRNAome trees reveals conserved structures, indicating how the code was shaped during evolution and suggesting a model for evolution of a LUCA tRNAome tree. We propose the polyglycine hypothesis that the initial product of the genetic code may have been short chain polyglycine to stabilize protocells. In order to describe how anticodons were allotted in evolution, the sectoring-degeneracy hypothesis is proposed. Based on sectoring, a simple stepwise model is developed, in which the code sectors from a 1→4→8→∼16 letter code. At initial stages of code evolution, we posit strong positive selection for wobble base ambiguity, supporting convergence to 4-codon sectors and ∼16 letters. In a later stage, ∼5–6 letters, including stops, were added through innovating at the anticodon wobble position. In archaea and bacteria, tRNA wobble adenine is negatively selected, shrinking the maximum size of the primordial genetic code to 48 anticodons. Because 64 codons are recognized in mRNA, tRNA-mRNA coevolution requires tRNA wobble position ambiguity leading to degeneracy of the code. PMID:29372672

Bio—Cryptography: A Possible Coding Role for RNA Redundancy

NASA Astrophysics Data System (ADS)

Regoli, M.

2009-03-01

The RNA-Crypto System (shortly RCS) is a symmetric key algorithm to cipher data. The idea for this new algorithm starts from the observation of nature. In particular from the observation of RNA behavior and some of its properties. The RNA sequences have some sections called Introns. Introns, derived from the term "intragenic regions," are non-coding sections of precursor mRNA (pre-mRNA) or other RNAs, that are removed (spliced out of the RNA) before the mature RNA is formed. Once the introns have been spliced out of a pre-mRNA, the resulting mRNA sequence is ready to be translated into a protein. The corresponding parts of a gene are known as introns as well. The nature and the role of Introns in the pre-mRNA is not clear and it is under ponderous researches by biologists but, in our case, we will use the presence of Introns in the RNA-Crypto System output as a strong method to add chaotic non coding information and an unnecessary behavior in the access to the secret key to code the messages. In the RNA-Crypto System algorithm the introns are sections of the ciphered message with non-coding information as well as in the precursor mRNA.

Upregulation of long non-coding RNA M26317 correlates with tumor progression and poor prognosis in gastric cancer.

PubMed

Li, Li; Wang, Yuan-Yu; Mou, Xiao Zhou; Ye, Zai-Yuan; Zhao, Zhong-Sheng

2018-04-23

To investigate the expression and clinical significance of long non-coding RNA (lnc RNA) in gastric cancer, we applied microarray analysis to obtain expression profiles of protein coding genes and lncRNAs in tumor and paired adjacent non-tumor tissues. We found that 41 lncRNAs were upregulated and 31 lncRNAs were downregulated more than 2-fold in gastric cancer versus noncancerous tissues (ratio>2.0, P<.01). We established a co-expression network of the differentially expressed lncRNAs and targeted coding genes that included 17 lncRNAs and 16 coding genes. As the results of microarray analysis showed that lncRNA M26317 was upregulated in gastric cancer tissues we examined the expression level of M26317 in 103 gastric cancer tissues by RT-PCR and 436 gastric cancer tissues by in situ hybridization. Our data confirmed that M26317 was upregulated in gastric cancer tissues. Moreover, expression of M26317 correlated with patient age, size of tumor, Lauren's classification, depth of invasion, lymph node and distant metastasis, TNM stage and poor prognosis (P<.05), but was not associated with gender, location of tumor, and differentiation (P>.05). M26317 may have an important role in malignant transformation and metastasis of gastric cancer. Copyright © 2018. Published by Elsevier Inc.

Death of a dogma: eukaryotic mRNAs can code for more than one protein

PubMed Central

Mouilleron, Hélène; Delcourt, Vivian; Roucou, Xavier

2016-01-01

mRNAs carry the genetic information that is translated by ribosomes. The traditional view of a mature eukaryotic mRNA is a molecule with three main regions, the 5′ UTR, the protein coding open reading frame (ORF) or coding sequence (CDS), and the 3′ UTR. This concept assumes that ribosomes translate one ORF only, generally the longest one, and produce one protein. As a result, in the early days of genomics and bioinformatics, one CDS was associated with each protein-coding gene. This fundamental concept of a single CDS is being challenged by increasing experimental evidence indicating that annotated proteins are not the only proteins translated from mRNAs. In particular, mass spectrometry (MS)-based proteomics and ribosome profiling have detected productive translation of alternative open reading frames. In several cases, the alternative and annotated proteins interact. Thus, the expression of two or more proteins translated from the same mRNA may offer a mechanism to ensure the co-expression of proteins which have functional interactions. Translational mechanisms already described in eukaryotic cells indicate that the cellular machinery is able to translate different CDSs from a single viral or cellular mRNA. In addition to summarizing data showing that the protein coding potential of eukaryotic mRNAs has been underestimated, this review aims to challenge the single translated CDS dogma. PMID:26578573

Rate-compatible punctured convolutional codes (RCPC codes) and their applications

NASA Astrophysics Data System (ADS)

Hagenauer, Joachim

1988-04-01

The concept of punctured convolutional codes is extended by punctuating a low-rate 1/N code periodically with period P to obtain a family of codes with rate P/(P + l), where l can be varied between 1 and (N - 1)P. A rate-compatibility restriction on the puncturing tables ensures that all code bits of high rate codes are used by the lower-rate codes. This allows transmission of incremental redundancy in ARQ/FEC (automatic repeat request/forward error correction) schemes and continuous rate variation to change from low to high error protection within a data frame. Families of RCPC codes with rates between 8/9 and 1/4 are given for memories M from 3 to 6 (8 to 64 trellis states) together with the relevant distance spectra. These codes are almost as good as the best known general convolutional codes of the respective rates. It is shown that the same Viterbi decoder can be used for all RCPC codes of the same M. The application of RCPC codes to hybrid ARQ/FEC schemes is discussed for Gaussian and Rayleigh fading channels using channel-state information to optimize throughput.

PFMCal : Photonic force microscopy calibration extended for its application in high-frequency microrheology

NASA Astrophysics Data System (ADS)

Butykai, A.; Domínguez-García, P.; Mor, F. M.; Gaál, R.; Forró, L.; Jeney, S.

2017-11-01

The present document is an update of the previously published MatLab code for the calibration of optical tweezers in the high-resolution detection of the Brownian motion of non-spherical probes [1]. In this instance, an alternative version of the original code, based on the same physical theory [2], but focused on the automation of the calibration of measurements using spherical probes, is outlined. The new added code is useful for high-frequency microrheology studies, where the probe radius is known but the viscosity of the surrounding fluid maybe not. This extended calibration methodology is automatic, without the need of a user's interface. A code for calibration by means of thermal noise analysis [3] is also included; this is a method that can be applied when using viscoelastic fluids if the trap stiffness is previously estimated [4]. The new code can be executed in MatLab and using GNU Octave. Program Files doi:http://dx.doi.org/10.17632/s59f3gz729.1 Licensing provisions: GPLv3 Programming language: MatLab 2016a (MathWorks Inc.) and GNU Octave 4.0 Operating system: Linux and Windows. Supplementary material: A new document README.pdf includes basic running instructions for the new code. Journal reference of previous version: Computer Physics Communications, 196 (2015) 599 Does the new version supersede the previous version?: No. It adds alternative but compatible code while providing similar calibration factors. Nature of problem (approx. 50-250 words): The original code uses a MatLab-provided user's interface, which is not available in GNU Octave, and cannot be used outside of a proprietary software as MatLab. Besides, the process of calibration when using spherical probes needs an automatic method when calibrating big amounts of different data focused to microrheology. Solution method (approx. 50-250 words): The new code can be executed in the latest version of MatLab and using GNU Octave, a free and open-source alternative to MatLab. This code generates an automatic calibration process which requires only to write the input data in the main script. Additionally, we include a calibration method based on thermal noise statistics, which can be used with viscoelastic fluids if the trap stiffness is previously estimated. Reasons for the new version: This version extends the functionality of PFMCal for the particular case of spherical probes and unknown fluid viscosities. The extended code is automatic, works in different operating systems and it is compatible with GNU Octave. Summary of revisions: The original MatLab program in the previous version, which is executed by PFMCal.m, is not changed. Here, we have added two additional main archives named PFMCal_auto.m and PFMCal_histo.m, which implement automatic calculations of the calibration process and calibration through Boltzmann statistics, respectively. The process of calibration using this code for spherical beads is described in the README.pdf file provided in the new code submission. Here, we obtain different calibration factors, β (given in μm/V), according to [2], related to two statistical quantities: the mean-squared displacement (MSD), βMSD, and the velocity autocorrelation function (VAF), βVAF. Using that methodology, the trap stiffness, k, and the zero-shear viscosity of the fluid, η, can be calculated if the value of the particle's radius, a, is previously known. For comparison, we include in the extended code the method of calibration using the corner frequency of the power-spectral density (PSD) [5], providing a calibration factor βPSD. Besides, with the prior estimation of the trap stiffness, along with the known value of the particle's radius, we can use thermal noise statistics to obtain calibration factors, β, according to the quadratic form of the optical potential, βE, and related to the Gaussian distribution of the bead's positions, βσ2. This method has been demonstrated to be applicable to the calibration of optical tweezers when using non-Newtonian viscoelastic polymeric liquids [4]. An example of the results using this calibration process is summarized in Table 1. Using the data provided in the new code submission, for water and acetone fluids, we calculate all the calibration factors by using the original PFMCal.m and by the new non-GUI code PFMCal_auto.m and PFMCal_histo.m. Regarding the new code, PFMCal_auto.m returns η, k, βMSD, βVAF and βPSD, while PFMCal_histo.m provides βσ2 and βE. Table 1 shows how we obtain the expected viscosity of the two fluids at this temperature and how the different methods provide good agreement between trap stiffnesses and calibration factors. Additional comments including Restrictions and Unusual features (approx. 50-250 words): The original code, PFMCal.m, runs under MatLab using the Statistics Toolbox. The extended code, PFMCal_auto.m and PFMCal_histo.m, can be executed without modification using MatLab or GNU Octave. The code has been tested in Linux and Windows operating systems.

Arctic Ice Dynamics Joint Experiment 1975-1976. Physical Oceanography Data Report, Salinity, Temperature and Depth Data, Camp Blue Fox. Volume II.

DTIC Science & Technology

1980-02-01

to LM b. a w ewe%- ww re mOOc 4" o 0.NWmotvviiOf wt 00 f4Crfl ft -wm o.e. &*1 NO P..w N N o%9 a in - - -da inN 4p m a - U . .......0...V N m...200 1 Attn: Code 428AR 3 Attn: Code 420 a Director Naval Research Laboratory Washington, D.C. 20375 Attn: Library . Code 2620 1 U.S. Naval Research

Solid Geometric Modeling - The Key to Improved Materiel Acquisition from Concept to Deployment

DTIC Science & Technology

1984-09-01

M. J. Reisinger, "The GIFT Code User Manual; Volume I, Introduction and Input Requirements (U)," BRL Report No. 1802, July 1975. AD# A078364. 8 G...G. Kuehl, L. W. Bain, Jr., M. J. Reisinger, "The GIFT Code User Manual; Volume II, The Output Options (U)," USA ARRAOCOM Report No. 02189, Sep 79, AD...A078364 . • These results are plotted by a code called RunShot written by L. M. Rybak which takes input from GIFT and plots color shotlines on a

Non-coding functions of alternative pre-mRNA splicing in development

PubMed Central

Mockenhaupt, Stefan; Makeyev, Eugene V.

2015-01-01

A majority of messenger RNA precursors (pre-mRNAs) in the higher eukaryotes undergo alternative splicing to generate more than one mature product. By targeting the open reading frame region this process increases diversity of protein isoforms beyond the nominal coding capacity of the genome. However, alternative splicing also frequently controls output levels and spatiotemporal features of cellular and organismal gene expression programs. Here we discuss how these non-coding functions of alternative splicing contribute to development through regulation of mRNA stability, translational efficiency and cellular localization. PMID:26493705

Transfer Function Bounds for Partial-unit-memory Convolutional Codes Based on Reduced State Diagram

NASA Technical Reports Server (NTRS)

Lee, P. J.

1984-01-01

The performance of a coding system consisting of a convolutional encoder and a Viterbi decoder is analytically found by the well-known transfer function bounding technique. For the partial-unit-memory byte-oriented convolutional encoder with m sub 0 binary memory cells and (k sub 0 m sub 0) inputs, a state diagram of 2(K) (sub 0) was for the transfer function bound. A reduced state diagram of (2 (m sub 0) +1) is used for easy evaluation of transfer function bounds for partial-unit-memory codes.

On codes with multi-level error-correction capabilities

NASA Technical Reports Server (NTRS)

Lin, Shu

1987-01-01

In conventional coding for error control, all the information symbols of a message are regarded equally significant, and hence codes are devised to provide equal protection for each information symbol against channel errors. However, in some occasions, some information symbols in a message are more significant than the other symbols. As a result, it is desired to devise codes with multilevel error-correcting capabilities. Another situation where codes with multi-level error-correcting capabilities are desired is in broadcast communication systems. An m-user broadcast channel has one input and m outputs. The single input and each output form a component channel. The component channels may have different noise levels, and hence the messages transmitted over the component channels require different levels of protection against errors. Block codes with multi-level error-correcting capabilities are also known as unequal error protection (UEP) codes. Structural properties of these codes are derived. Based on these structural properties, two classes of UEP codes are constructed.

User's manual for CBS3DS, version 1.0

NASA Astrophysics Data System (ADS)

Reddy, C. J.; Deshpande, M. D.

1995-10-01

CBS3DS is a computer code written in FORTRAN 77 to compute the backscattering radar cross section of cavity backed apertures in infinite ground plane and slots in thick infinite ground plane. CBS3DS implements the hybrid Finite Element Method (FEM) and Method of Moments (MoM) techniques. This code uses the tetrahedral elements, with vector edge basis functions for FEM in the volume of the cavity/slot and the triangular elements with the basis functions for MoM at the apertures. By virtue of FEM, this code can handle any arbitrarily shaped three-dimensional cavities filled with inhomogeneous lossy materials; due to MoM, the apertures can be of any arbitrary shape. The User's Manual is written to make the user acquainted with the operation of the code. The user is assumed to be familiar with the FORTRAN 77 language and the operating environment of the computer the code is intended to run.

Implementation of Soft X-ray Tomography on NSTX

NASA Astrophysics Data System (ADS)

Tritz, K.; Stutman, D.; Finkenthal, M.; Granetz, R.; Menard, J.; Park, W.

2003-10-01

A set of poloidal ultrasoft X-ray arrays is operated by the Johns Hopkins group on NSTX. To enable MHD mode analysis independent of the magnetic reconstruction, the McCormick-Granetz tomography code developed at MIT is being adapted to the NSTX geometry. Tests of the code using synthetic data show that that present X-ray system is adequate for m=1 tomography. In addition, we have found that spline basis functions may be better suited than Bessel functions for the reconstruction of radially localized phenomena in NSTX. The tomography code was also used to determine the necessary array expansion and optimal array placement for the characterization of higher m modes (m=2,3) in the future. Initial reconstruction of experimental soft X-ray data has been performed for m=1 internal modes, which are often encountered in high beta NSTX discharges. The reconstruction of these modes will be compared to predictions from the M3D code and magnetic measurements.

Wall-touching kink mode calculations with the M3D code

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

Breslau, J. A., E-mail: jbreslau@pppl.gov; Bhattacharjee, A.

This paper seeks to address a controversy regarding the applicability of the 3D nonlinear extended MHD code M3D [W. Park et al., Phys. Plasmas 6, 1796 (1999)] and similar codes to calculations of the electromagnetic interaction of a disrupting tokamak plasma with the surrounding vessel structures. M3D is applied to a simple test problem involving an external kink mode in an ideal cylindrical plasma, used also by the Disruption Simulation Code (DSC) as a model case for illustrating the nature of transient vessel currents during a major disruption. While comparison of the results with those of the DSC is complicatedmore » by effects arising from the higher dimensionality and complexity of M3D, we verify that M3D is capable of reproducing both the correct saturation behavior of the free boundary kink and the “Hiro” currents arising when the kink interacts with a conducting tile surface interior to the ideal wall.« less

Metformin-Induced Changes of the Coding Transcriptome and Non-Coding RNAs in the Livers of Non-Alcoholic Fatty Liver Disease Mice.

PubMed

Guo, Jun; Zhou, Yuan; Cheng, Yafen; Fang, Weiwei; Hu, Gang; Wei, Jie; Lin, Yajun; Man, Yong; Guo, Lixin; Sun, Mingxiao; Cui, Qinghua; Li, Jian

2018-01-01

Recent studies have suggested that changes in non-coding mRNA play a key role in the progression of non-alcoholic fatty liver disease (NAFLD). Metformin is now recommended and effective for the treatment of NAFLD. We hope the current analyses of the non-coding mRNA transcriptome will provide a better presentation of the potential roles of mRNAs and long non-coding RNAs (lncRNAs) that underlie NAFLD and metformin intervention. The present study mainly analysed changes in the coding transcriptome and non-coding RNAs after the application of a five-week metformin intervention. Liver samples from three groups of mice were harvested for transcriptome profiling, which covered mRNA, lncRNA, microRNA (miRNA) and circular RNA (circRNA), using a microarray technique. A systematic alleviation of high-fat diet (HFD)-induced transcriptome alterations by metformin was observed. The metformin treatment largely reversed the correlations with diabetes-related pathways. Our analysis also suggested interaction networks between differentially expressed lncRNAs and known hepatic disease genes and interactions between circRNA and their disease-related miRNA partners. Eight HFD-responsive lncRNAs and three metformin-responsive lncRNAs were noted due to their widespread associations with disease genes. Moreover, seven miRNAs that interacted with multiple differentially expressed circRNAs were highlighted because they were likely to be associated with metabolic or liver diseases. The present study identified novel changes in the coding transcriptome and non-coding RNAs in the livers of NAFLD mice after metformin treatment that might shed light on the underlying mechanism by which metformin impedes the progression of NAFLD. © 2018 The Author(s). Published by S. Karger AG, Basel.

On the existence of binary simplex codes. [using combinatorial construction

NASA Technical Reports Server (NTRS)

Taylor, H.

1977-01-01

Using a simple combinatorial construction, the existence of a binary simplex code with m codewords for all m is greater than or equal to 1 is proved. The problem of the shortest possible length is left open.

Linear Chebyshev Complex Function Approximation.

DTIC Science & Technology

1981-02-26

CONTINUE C C C LEVEL I C C LEVaI KwC 30 KUKeI C C THE NEXT VARIABLE IS NOT USED, BUT IS IN THE PUBLISHED CODE. KPIuKi1 C NPI MK=NP 1-K MODE2 0 DO 40 J=K,M...WEAPONS CENTER, Silver Spring, Code 432-4 (Egbert H. Jackson)I DWTNSRDC ANNAI DWTNSRDC CARDI NRL, Code 5330 (Dr. Robert J. Adams ), 5209 (Russell M. Brown

Tau mRNA 3'UTR-to-CDS ratio is increased in Alzheimer disease.

PubMed

García-Escudero, Vega; Gargini, Ricardo; Martín-Maestro, Patricia; García, Esther; García-Escudero, Ramón; Avila, Jesús

2017-08-10

Neurons frequently show an imbalance in expression of the 3' untranslated region (3'UTR) relative to the coding DNA sequence (CDS) region of mature messenger RNAs (mRNA). The ratio varies among different cells or parts of the brain. The Map2 protein levels per cell depend on the 3'UTR-to-CDS ratio rather than the total mRNA amount, which suggests powerful regulation of protein expression by 3'UTR sequences. Here we found that MAPT (the microtubule-associated protein tau gene) 3'UTR levels are particularly high with respect to other genes; indeed, the 3'UTR-to-CDS ratio of MAPT is balanced in healthy brain in mouse and human. The tau protein accumulates in Alzheimer diseased brain. We nonetheless observed that the levels of RNA encoding MAPT/tau were diminished in these patients' brains. To explain this apparently contradictory result, we studied MAPT mRNA stoichiometry in coding and non-coding regions, and found that the 3'UTR-to-CDS ratio was higher in the hippocampus of Alzheimer disease patients, with higher tau protein but lower total mRNA levels. Our data indicate that changes in the 3'UTR-to-CDS ratio have a regulatory role in the disease. Future research should thus consider not only mRNA levels, but also the ratios between coding and non-coding regions. Copyright © 2017 Elsevier B.V. All rights reserved.

Death of a dogma: eukaryotic mRNAs can code for more than one protein.

PubMed

Mouilleron, Hélène; Delcourt, Vivian; Roucou, Xavier

2016-01-08

mRNAs carry the genetic information that is translated by ribosomes. The traditional view of a mature eukaryotic mRNA is a molecule with three main regions, the 5' UTR, the protein coding open reading frame (ORF) or coding sequence (CDS), and the 3' UTR. This concept assumes that ribosomes translate one ORF only, generally the longest one, and produce one protein. As a result, in the early days of genomics and bioinformatics, one CDS was associated with each protein-coding gene. This fundamental concept of a single CDS is being challenged by increasing experimental evidence indicating that annotated proteins are not the only proteins translated from mRNAs. In particular, mass spectrometry (MS)-based proteomics and ribosome profiling have detected productive translation of alternative open reading frames. In several cases, the alternative and annotated proteins interact. Thus, the expression of two or more proteins translated from the same mRNA may offer a mechanism to ensure the co-expression of proteins which have functional interactions. Translational mechanisms already described in eukaryotic cells indicate that the cellular machinery is able to translate different CDSs from a single viral or cellular mRNA. In addition to summarizing data showing that the protein coding potential of eukaryotic mRNAs has been underestimated, this review aims to challenge the single translated CDS dogma. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

A Taxonomy for Insourcing in the Aerospace Industry

DTIC Science & Technology

2011-06-01

Patterson Air Force Base, Ohio APPROVED FOR PUBLIC RELEASE; DISTRIBUTION UNLIMITED. The...editor (2008) DAU Acquipedia (2011) US Code Title 10 (2011) Robert M. Morgan and Shelby Hunt (1994) Miller and Whitford (2006) Harris and Raviv...G. Bennett (1991) Lambert, Douglas M. editor (2008) DAU Acquipedia (2011) US Code Title 10 (2011) Robert M. Morgan and Shelby Hunt (1994

Final Evaluation of MIPS M/500

DTIC Science & Technology

1987-11-01

recognizing common subexpressions by changing the code to read: acke (n,m) If (, - 0) return *+I; return a ker(n-1, 0 ? 1 aaker (n,.-1)); I the total code...INSTITUTE JPO PTTTSBURCH. PA 15213 N/A N/A N/O 11 TITLE (Inciude Security Class.iication) Final Evaluation of MIPS M/500 12. PERSONAL AUTHOR(S) Daniel V

PNPN Latchup in Bipolar LSI Devices.

DTIC Science & Technology

1982-01-01

6611, J. Ritter ATTN: STEWS -TE-N, T. Arellanes ATTN: Code 6612, G. McLane ATTN: STEWS -TE-AN, R. Dutchover ATTN: Code 6816, H. Hughes ATTN: STEWS -TE...AN, R. Hays ATTN: Code 6653, A. Namenson * ATTN: STEWS -TE-N, K. Cummings ATTN: Code 6611, L. August ATTN: STEWS -TE-NT, M. Squires ATTN: Code 6813, J...Killiany ATTN: STEWS -TE-AN, J. Meason ATTN: Code 6600, J. Schriempf ATTN: STEWS -TE-AN, A. De La Paz ATTN: Code 6610, R. Marlow USA MATTN: Code 2627USA

OPTIMASS: A package for the minimization of kinematic mass functions with constraints

DOE PAGES

Cho, Won Sang; Gainer, James S.; Kim, Doojin; ...

2016-01-07

Reconstructed mass variables, such as M 2, M 2C, M* T, and M T2 W, play an essential role in searches for new physics at hadron colliders. The calculation of these variables generally involves constrained minimization in a large parameter space, which is numerically challenging. We provide a C++ code, Optimass, which interfaces with the Minuit library to perform this constrained minimization using the Augmented Lagrangian Method. The code can be applied to arbitrarily general event topologies, thus allowing the user to significantly extend the existing set of kinematic variables. Here, we describe this code, explain its physics motivation, andmore » demonstrate its use in the analysis of the fully leptonic decay of pair-produced top quarks using M 2 variables.« less

Non-coding functions of alternative pre-mRNA splicing in development.

PubMed

Mockenhaupt, Stefan; Makeyev, Eugene V

2015-12-01

A majority of messenger RNA precursors (pre-mRNAs) in the higher eukaryotes undergo alternative splicing to generate more than one mature product. By targeting the open reading frame region this process increases diversity of protein isoforms beyond the nominal coding capacity of the genome. However, alternative splicing also frequently controls output levels and spatiotemporal features of cellular and organismal gene expression programs. Here we discuss how these non-coding functions of alternative splicing contribute to development through regulation of mRNA stability, translational efficiency and cellular localization. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

Long Non-Coding RNAs Differentially Expressed between Normal versus Primary Breast Tumor Tissues Disclose Converse Changes to Breast Cancer-Related Protein-Coding Genes

PubMed Central

Reiche, Kristin; Kasack, Katharina; Schreiber, Stephan; Lüders, Torben; Due, Eldri U.; Naume, Bjørn; Riis, Margit; Kristensen, Vessela N.; Horn, Friedemann; Børresen-Dale, Anne-Lise; Hackermüller, Jörg; Baumbusch, Lars O.

2014-01-01

Breast cancer, the second leading cause of cancer death in women, is a highly heterogeneous disease, characterized by distinct genomic and transcriptomic profiles. Transcriptome analyses prevalently assessed protein-coding genes; however, the majority of the mammalian genome is expressed in numerous non-coding transcripts. Emerging evidence supports that many of these non-coding RNAs are specifically expressed during development, tumorigenesis, and metastasis. The focus of this study was to investigate the expression features and molecular characteristics of long non-coding RNAs (lncRNAs) in breast cancer. We investigated 26 breast tumor and 5 normal tissue samples utilizing a custom expression microarray enclosing probes for mRNAs as well as novel and previously identified lncRNAs. We identified more than 19,000 unique regions significantly differentially expressed between normal versus breast tumor tissue, half of these regions were non-coding without any evidence for functional open reading frames or sequence similarity to known proteins. The identified non-coding regions were primarily located in introns (53%) or in the intergenic space (33%), frequently orientated in antisense-direction of protein-coding genes (14%), and commonly distributed at promoter-, transcription factor binding-, or enhancer-sites. Analyzing the most diverse mRNA breast cancer subtypes Basal-like versus Luminal A and B resulted in 3,025 significantly differentially expressed unique loci, including 682 (23%) for non-coding transcripts. A notable number of differentially expressed protein-coding genes displayed non-synonymous expression changes compared to their nearest differentially expressed lncRNA, including an antisense lncRNA strongly anticorrelated to the mRNA coding for histone deacetylase 3 (HDAC3), which was investigated in more detail. Previously identified chromatin-associated lncRNAs (CARs) were predominantly downregulated in breast tumor samples, including CARs located in the protein-coding genes for CALD1, FTX, and HNRNPH1. In conclusion, a number of differentially expressed lncRNAs have been identified with relation to cancer-related protein-coding genes. PMID:25264628

Long non-coding RNAs differentially expressed between normal versus primary breast tumor tissues disclose converse changes to breast cancer-related protein-coding genes.

PubMed

Reiche, Kristin; Kasack, Katharina; Schreiber, Stephan; Lüders, Torben; Due, Eldri U; Naume, Bjørn; Riis, Margit; Kristensen, Vessela N; Horn, Friedemann; Børresen-Dale, Anne-Lise; Hackermüller, Jörg; Baumbusch, Lars O

2014-01-01

Breast cancer, the second leading cause of cancer death in women, is a highly heterogeneous disease, characterized by distinct genomic and transcriptomic profiles. Transcriptome analyses prevalently assessed protein-coding genes; however, the majority of the mammalian genome is expressed in numerous non-coding transcripts. Emerging evidence supports that many of these non-coding RNAs are specifically expressed during development, tumorigenesis, and metastasis. The focus of this study was to investigate the expression features and molecular characteristics of long non-coding RNAs (lncRNAs) in breast cancer. We investigated 26 breast tumor and 5 normal tissue samples utilizing a custom expression microarray enclosing probes for mRNAs as well as novel and previously identified lncRNAs. We identified more than 19,000 unique regions significantly differentially expressed between normal versus breast tumor tissue, half of these regions were non-coding without any evidence for functional open reading frames or sequence similarity to known proteins. The identified non-coding regions were primarily located in introns (53%) or in the intergenic space (33%), frequently orientated in antisense-direction of protein-coding genes (14%), and commonly distributed at promoter-, transcription factor binding-, or enhancer-sites. Analyzing the most diverse mRNA breast cancer subtypes Basal-like versus Luminal A and B resulted in 3,025 significantly differentially expressed unique loci, including 682 (23%) for non-coding transcripts. A notable number of differentially expressed protein-coding genes displayed non-synonymous expression changes compared to their nearest differentially expressed lncRNA, including an antisense lncRNA strongly anticorrelated to the mRNA coding for histone deacetylase 3 (HDAC3), which was investigated in more detail. Previously identified chromatin-associated lncRNAs (CARs) were predominantly downregulated in breast tumor samples, including CARs located in the protein-coding genes for CALD1, FTX, and HNRNPH1. In conclusion, a number of differentially expressed lncRNAs have been identified with relation to cancer-related protein-coding genes.

The design of the CMOS wireless bar code scanner applying optical system based on ZigBee

NASA Astrophysics Data System (ADS)

Chen, Yuelin; Peng, Jian

2008-03-01

The traditional bar code scanner is influenced by the length of data line, but the farthest distance of the wireless bar code scanner of wireless communication is generally between 30m and 100m on the market. By rebuilding the traditional CCD optical bar code scanner, a CMOS code scanner is designed based on the ZigBee to meet the demands of market. The scan system consists of the CMOS image sensor and embedded chip S3C2401X, when the two dimensional bar code is read, the results show the inaccurate and wrong code bar, resulted from image defile, disturber, reads image condition badness, signal interference, unstable system voltage. So we put forward the method which uses the matrix evaluation and Read-Solomon arithmetic to solve them. In order to construct the whole wireless optics of bar code system and to ensure its ability of transmitting bar code image signals digitally with long distances, ZigBee is used to transmit data to the base station, and this module is designed based on image acquisition system, and at last the wireless transmitting/receiving CC2430 module circuit linking chart is established. And by transplanting the embedded RTOS system LINUX to the MCU, an applying wireless CMOS optics bar code scanner and multi-task system is constructed. Finally, performance of communication is tested by evaluation software Smart RF. In broad space, every ZIGBEE node can realize 50m transmission with high reliability. When adding more ZigBee nodes, the transmission distance can be several thousands of meters long.

An RNA tool kit to study the status of mouse ES cells: sex determination and stemness.

PubMed

Jay, F; Ciaudo, C

2013-09-01

Mouse embryonic stem cells (mESCs) are pluripotent stem cells derived from the inner cell mass of the blastocyst. They can be maintained under controlled culture conditions in a pluripotent state, or be induced to differentiate into all derivatives of the three primary germ layers: ectoderm, endoderm and mesoderm. Several studies have characterised the coding and non-coding (nc) RNA repertoires of mESCs, uncovering highly dynamic variations during the process of differentiation, but also qualitative differences pertaining to sex. For example, up-regulation of the long non-coding RNA Xist on the X chromosome induces gene silencing and X inactivation exclusively during female mESC differentiation. In contrast, specific small RNAs have been shown to be up-regulated during male mESC differentiation. Here, we illustrate how a small set of key coding and ncRNAs can be exploited as dynamic and sensitive markers of the stemness and/or the differentiation status of male or female mESC lines. We describe adapted techniques for the extended characterization and analysis of mESCs from as little material as that cultured in a single 75cm(2) flask. Copyright © 2013 Elsevier Inc. All rights reserved.

Quantitative analysis of the anti-noise performance of an m-sequence in an electromagnetic method

NASA Astrophysics Data System (ADS)

Yuan, Zhe; Zhang, Yiming; Zheng, Qijia

2018-02-01

An electromagnetic method with a transmitted waveform coded by an m-sequence achieved better anti-noise performance compared to the conventional manner with a square-wave. The anti-noise performance of the m-sequence varied with multiple coding parameters; hence, a quantitative analysis of the anti-noise performance for m-sequences with different coding parameters was required to optimize them. This paper proposes the concept of an identification system, with the identified Earth impulse response obtained by measuring the system output with the input of the voltage response. A quantitative analysis of the anti-noise performance of the m-sequence was achieved by analyzing the amplitude-frequency response of the corresponding identification system. The effects of the coding parameters on the anti-noise performance are summarized by numerical simulation, and their optimization is further discussed in our conclusions; the validity of the conclusions is further verified by field experiment. The quantitative analysis method proposed in this paper provides a new insight into the anti-noise mechanism of the m-sequence, and could be used to evaluate the anti-noise performance of artificial sources in other time-domain exploration methods, such as the seismic method.

Distillation with Sublogarithmic Overhead

NASA Astrophysics Data System (ADS)

Hastings, Matthew B.; Haah, Jeongwan

2018-02-01

It has been conjectured that, for any distillation protocol for magic states for the T gate, the number of noisy input magic states required per output magic state at output error rate ɛ is Ω [log (1 /ɛ )] . We show that this conjecture is false. We find a family of quantum error correcting codes of parameters ⟦ ∑ i =w +1 m (m i ),∑ i =0 w (m i ),∑ i =w +1 r +1 (r +1 i )⟧ for any integers m >2 r , r >w ≥0 , by puncturing quantum Reed-Muller codes. When m >ν r , our code admits a transversal logical gate at the ν th level of Clifford hierarchy. In a distillation protocol for magic states at the level ν =3 (T gate), the ratio of input to output magic states is O (logγ(1 /ɛ )) , where γ =log (n /k )/log (d )<0.678 for some m , r , w . The smallest code in our family for which γ <1 is on ≈258 qubits.

Genetic Programming-based Phononic Bandgap Structure Design

DTIC Science & Technology

2011-09-01

derivative-based methods is that they require a good starting location to find the global minimum of a function. As can be seen from figure 2, there are many... FRANCHI CODE 7100 M H ORR CODE 7120 J A BUCARO CODE 7130 G J ORRIS 7140 J S PERKINS CODE 7140 S A CHIN BING CODE 7180 4555 OVERLOOK AVE SW WASHINGTON DC

nIFTY galaxy cluster simulations - III. The similarity and diversity of galaxies and subhaloes

NASA Astrophysics Data System (ADS)

Elahi, Pascal J.; Knebe, Alexander; Pearce, Frazer R.; Power, Chris; Yepes, Gustavo; Cui, Weiguang; Cunnama, Daniel; Kay, Scott T.; Sembolini, Federico; Beck, Alexander M.; Davé, Romeel; February, Sean; Huang, Shuiyao; Katz, Neal; McCarthy, Ian G.; Murante, Giuseppe; Perret, Valentin; Puchwein, Ewald; Saro, Alexandro; Teyssier, Romain

2016-05-01

We examine subhaloes and galaxies residing in a simulated Λ cold dark matter galaxy cluster (M^crit_{200}=1.1× 10^{15} h^{-1} M_{⊙}) produced by hydrodynamical codes ranging from classic smooth particle hydrodynamics (SPH), newer SPH codes, adaptive and moving mesh codes. These codes use subgrid models to capture galaxy formation physics. We compare how well these codes reproduce the same subhaloes/galaxies in gravity-only, non-radiative hydrodynamics and full feedback physics runs by looking at the overall subhalo/galaxy distribution and on an individual object basis. We find that the subhalo population is reproduced to within ≲10 per cent for both dark matter only and non-radiative runs, with individual objects showing code-to-code scatter of ≲0.1 dex, although the gas in non-radiative simulations shows significant scatter. Including feedback physics significantly increases the diversity. Subhalo mass and Vmax distributions vary by ≈20 per cent. The galaxy populations also show striking code-to-code variations. Although the Tully-Fisher relation is similar in almost all codes, the number of galaxies with 109 h- 1 M⊙ ≲ M* ≲ 1012 h- 1 M⊙ can differ by a factor of 4. Individual galaxies show code-to-code scatter of ˜0.5 dex in stellar mass. Moreover, systematic differences exist, with some codes producing galaxies 70 per cent smaller than others. The diversity partially arises from the inclusion/absence of active galactic nucleus feedback. Our results combined with our companion papers demonstrate that subgrid physics is not just subject to fine-tuning, but the complexity of building galaxies in all environments remains a challenge. We argue that even basic galaxy properties, such as stellar mass to halo mass, should be treated with errors bars of ˜0.2-0.4 dex.

VizieR Online Data Catalog: Comparison of evolutionary tracks (Martins+, 2013)

NASA Astrophysics Data System (ADS)

Martins, F.; Palacios, A.

2013-11-01

Tables of evolutionary models for massive stars. The files m*_stol.dat correspond to models computed with the code STAREVOL. The files m*_mesa.dat correspond to models computed with the code MESA. For each code, models with initial masses equal to 7, 9, 15, 20, 25, 40 and 60M⊙ are provided. No rotation is included. The overshooting parameter f is equal to 0.01. The metallicity is solar. (14 data files).

A Combinatorial Geometry Computer Description of the M9 ACE (Armored Combat Earthmover) Vehicle

DTIC Science & Technology

1984-12-01

program requires as input the M9 target descriptions as processed by the Geometric Information for Targets ( GIFT ) ’ computer code. The first step is...model of the target. This COM-GEOM target description is used as input to the Geometric Information For Targets ( GIFT ) computer code. Among other...things, the GIFT code traces shotlines through a COM-GEOM description from any specified aspect, listing pertinent information about each component hit

Theoretical Thermal Evaluation of Energy Recovery Incinerators

DTIC Science & Technology

1985-12-01

Army Logistics Mgt Center, Fort Lee , VA DTIC Alexandria, VA DTNSRDC Code 4111 (R. Gierich), Bethesda MD; Code 4120, Annapolis, MD; Code 522 (Library...Washington. DC: Code (I6H4. Washington. DC NAVSECGRUACT PWO (Code .’^O.’^). Winter Harbor. IVIE ; PWO (Code 4(1). Edzell. Scotland; PWO. Adak AK...NEW YORK Fort Schuyler. NY (Longobardi) TEXAS A&M UNIVERSITY W.B. Ledbetter College Station. TX UNIVERSITY OF CALIFORNIA Energy Engineer. Davis CA

Coding in Muscle Disease.

PubMed

Jones, Lyell K; Ney, John P

2016-12-01

Accurate coding is critically important for clinical practice and research. Ongoing changes to diagnostic and billing codes require the clinician to stay abreast of coding updates. Payment for health care services, data sets for health services research, and reporting for medical quality improvement all require accurate administrative coding. This article provides an overview of administrative coding for patients with muscle disease and includes a case-based review of diagnostic and Evaluation and Management (E/M) coding principles in patients with myopathy. Procedural coding for electrodiagnostic studies and neuromuscular ultrasound is also reviewed.

New decoding methods of interleaved burst error-correcting codes

NASA Astrophysics Data System (ADS)

Nakano, Y.; Kasahara, M.; Namekawa, T.

1983-04-01

A probabilistic method of single burst error correction, using the syndrome correlation of subcodes which constitute the interleaved code, is presented. This method makes it possible to realize a high capability of burst error correction with less decoding delay. By generalizing this method it is possible to obtain probabilistic method of multiple (m-fold) burst error correction. After estimating the burst error positions using syndrome correlation of subcodes which are interleaved m-fold burst error detecting codes, this second method corrects erasure errors in each subcode and m-fold burst errors. The performance of these two methods is analyzed via computer simulation, and their effectiveness is demonstrated.

QR Codes

ERIC Educational Resources Information Center

Lai, Hsin-Chih; Chang, Chun-Yen; Li, Wen-Shiane; Fan, Yu-Lin; Wu, Ying-Tien

2013-01-01

This study presents an m-learning method that incorporates Integrated Quick Response (QR) codes. This learning method not only achieves the objectives of outdoor education, but it also increases applications of Cognitive Theory of Multimedia Learning (CTML) (Mayer, 2001) in m-learning for practical use in a diverse range of outdoor locations. When…

A comparison of skyshine computational methods.

PubMed

Hertel, Nolan E; Sweezy, Jeremy E; Shultis, J Kenneth; Warkentin, J Karl; Rose, Zachary J

2005-01-01

A variety of methods employing radiation transport and point-kernel codes have been used to model two skyshine problems. The first problem is a 1 MeV point source of photons on the surface of the earth inside a 2 m tall and 1 m radius silo having black walls. The skyshine radiation downfield from the point source was estimated with and without a 30-cm-thick concrete lid on the silo. The second benchmark problem is to estimate the skyshine radiation downfield from 12 cylindrical canisters emplaced in a low-level radioactive waste trench. The canisters are filled with ion-exchange resin with a representative radionuclide loading, largely 60Co, 134Cs and 137Cs. The solution methods include use of the MCNP code to solve the problem by directly employing variance reduction techniques, the single-scatter point kernel code GGG-GP, the QADMOD-GP point kernel code, the COHORT Monte Carlo code, the NAC International version of the SKYSHINE-III code, the KSU hybrid method and the associated KSU skyshine codes.

Pacific Northwest (PNW) Hydrologic Landscape (HL) polygons and HL code

EPA Pesticide Factsheets

A five-letter hydrologic landscape code representing five indices of hydrologic form that are related to hydrologic function: climate, seasonality, aquifer permeability, terrain, and soil permeability. Each hydrologic assessment unit is classified by one of the 81 different five-letter codes representing these indices. Polygon features in this dataset were created by aggregating (dissolving boundaries between) adjacent, similarly-coded hydrologic assessment units. Climate Classes: V-Very wet, W-Wet, M-Moist, D-Dry, S-Semiarid, A-Arid. Seasonality Sub-Classes: w-Fall or winter, s-Spring. Aquifer Permeability Classes: H-High, L-Low. Terrain Classes: M-Mountain, T-Transitional, F-Flat. Soil Permeability Classes: H-High, L-Low.

Inertial Impact Switches for Artillery Fuzes. Part III. Rocket Application

DTIC Science & Technology

1975-04-01

INtWT.INiUUITO» iiTwar mN.coimcT Nom > i. minrtwotMutt. SLOTS IN END UP MO SCOVTOBCmUNC«ITH EMM OTMR WITHIN 10* SCCNOTC...ENGR LAB COMMANDER NAVAL SURFACE WEAPONS CENTER WHITE OAK, MD 20910 ATTN CODE 043 , PROJ MGR, FUZES ATTN CODE 511, ATTN CODE 512, ATTN CODE 522

Dynamic Elasto-Plastic Response of Shells in an Acoustic Medium - Theoretical Development for the EPSA Code

DTIC Science & Technology

1978-07-01

TECHNOLOGY OFFICE OF NAVAL RESEARCH ARLINGTON* VA 22217 ATTN CODE 200 NAVAL. UNDERWATER SYSTEMS COMMAND NEWPORT. RI 02840 ATTN DRo AZRIEL HARARI/ 3 .b 311...ANAOST.FIT THEORETICAL DEVELOPMENT FOR THE EPSA CODE ~/ R/Atkatsh, M.P./Bieniek. -AM M.L.,/aron OFF NAVAL RESEARCH CONTRACT N/ 3 14-72-C-19~. TRACT 7_...the report, both procedures result In a marked increase in computational efficiency, parti- cularly for cases in which large systems are to be

Genome-wide screening and identification of long noncoding RNAs and their interaction with protein coding RNAs in bladder urothelial cell carcinoma.

PubMed

Wang, Longxin; Fu, Dian; Qiu, Yongbin; Xing, Xiaoxiao; Xu, Feng; Han, Conghui; Xu, Xiaofeng; Wei, Zhifeng; Zhang, Zhengyu; Ge, Jingping; Cheng, Wen; Xie, Hai-Long

2014-07-10

To understand lncRNAs expression profiling and their potential functions in bladder cancer, we investigated the lncRNA and coding RNA expression on human bladder cancer and normal bladder tissues. Bioinformatic analysis revealed thousands of significantly differentially expressed lncRNAs and coding mRNA in bladder cancer relative to normal bladder tissue. Co-expression analysis revealed that 50% of lncRNAs and coding RNAs expressed in the same direction. A subset of lncRNAs might be involved in mTOR signaling, p53 signaling, cancer pathways. Our study provides a large scale of co-expression between lncRNA and coding RNAs in bladder cancer cells and lays biological basis for further investigation. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

Concurrent error detecting codes for arithmetic processors

NASA Technical Reports Server (NTRS)

Lim, R. S.

1979-01-01

A method of concurrent error detection for arithmetic processors is described. Low-cost residue codes with check-length l and checkbase m = 2 to the l power - 1 are described for checking arithmetic operations of addition, subtraction, multiplication, division complement, shift, and rotate. Of the three number representations, the signed-magnitude representation is preferred for residue checking. Two methods of residue generation are described: the standard method of using modulo m adders and the method of using a self-testing residue tree. A simple single-bit parity-check code is described for checking the logical operations of XOR, OR, and AND, and also the arithmetic operations of complement, shift, and rotate. For checking complement, shift, and rotate, the single-bit parity-check code is simpler to implement than the residue codes.

mRNA changes in nucleus accumbens related to methamphetamine addiction in mice

NASA Astrophysics Data System (ADS)

Zhu, Li; Li, Jiaqi; Dong, Nan; Guan, Fanglin; Liu, Yufeng; Ma, Dongliang; Goh, Eyleen L. K.; Chen, Teng

2016-11-01

Methamphetamine (METH) is a highly addictive psychostimulant that elicits aberrant changes in the expression of microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) in the nucleus accumbens of mice, indicating a potential role of METH in post-transcriptional regulations. To decipher the potential consequences of these post-transcriptional regulations in response to METH, we performed strand-specific RNA sequencing (ssRNA-Seq) to identify alterations in mRNA expression and their alternative splicing in the nucleus accumbens of mice following exposure to METH. METH-mediated changes in mRNAs were analyzed and correlated with previously reported changes in non-coding RNAs (miRNAs and lncRNAs) to determine the potential functions of these mRNA changes observed here and how non-coding RNAs are involved. A total of 2171 mRNAs were differentially expressed in response to METH with functions involved in synaptic plasticity, mitochondrial energy metabolism and immune response. 309 and 589 of these mRNAs are potential targets of miRNAs and lncRNAs respectively. In addition, METH treatment decreases mRNA alternative splicing, and there are 818 METH-specific events not observed in saline-treated mice. Our results suggest that METH-mediated addiction could be attributed by changes in miRNAs and lncRNAs and consequently, changes in mRNA alternative splicing and expression. In conclusion, our study reported a methamphetamine-modified nucleus accumbens transcriptome and provided non-coding RNA-mRNA interaction networks possibly involved in METH addiction.

An overview of new video coding tools under consideration for VP10: the successor to VP9

NASA Astrophysics Data System (ADS)

Mukherjee, Debargha; Su, Hui; Bankoski, James; Converse, Alex; Han, Jingning; Liu, Zoe; Xu, Yaowu

2015-09-01

Google started an opensource project, entitled the WebM Project, in 2010 to develop royaltyfree video codecs for the web. The present generation codec developed in the WebM project called VP9 was finalized in mid2013 and is currently being served extensively by YouTube, resulting in billions of views per day. Even though adoption of VP9 outside Google is still in its infancy, the WebM project has already embarked on an ambitious project to develop a next edition codec VP10 that achieves at least a generational bitrate reduction over the current generation codec VP9. Although the project is still in early stages, a set of new experimental coding tools have already been added to baseline VP9 to achieve modest coding gains over a large enough test set. This paper provides a technical overview of these coding tools.

Pre-Mrna Introns as a Model for Cryptographic Algorithm:. Theory and Experiments

NASA Astrophysics Data System (ADS)

Regoli, Massimo

2010-01-01

The RNA-Crypto System (shortly RCS) is a symmetric key algorithm to cipher data. The idea for this new algorithm starts from the observation of nature. In particular from the observation of RNA behavior and some of its properties. In particular the RNA sequences have some sections called Introns. Introns, derived from the term "intragenic regions", are non-coding sections of precursor mRNA (pre-mRNA) or other RNAs, that are removed (spliced out of the RNA) before the mature RNA is formed. Once the introns have been spliced out of a pre-mRNA, the resulting mRNA sequence is ready to be translated into a protein. The corresponding parts of a gene are known as introns as well. The nature and the role of Introns in the pre-mRNA is not clear and it is under ponderous researches by Biologists but, in our case, we will use the presence of Introns in the RNA-Crypto System output as a strong method to add chaotic non coding information and an unnecessary behaviour in the access to the secret key to code the messages. In the RNA-Crypto System algorithm the introns are sections of the ciphered message with non-coding information as well as in the precursor mRNA.

a Simple Symmetric Algorithm Using a Likeness with Introns Behavior in RNA Sequences

NASA Astrophysics Data System (ADS)

Regoli, Massimo

2009-02-01

The RNA-Crypto System (shortly RCS) is a symmetric key algorithm to cipher data. The idea for this new algorithm starts from the observation of nature. In particular from the observation of RNA behavior and some of its properties. The RNA sequences has some sections called Introns. Introns, derived from the term "intragenic regions", are non-coding sections of precursor mRNA (pre-mRNA) or other RNAs, that are removed (spliced out of the RNA) before the mature RNA is formed. Once the introns have been spliced out of a pre-mRNA, the resulting mRNA sequence is ready to be translated into a protein. The corresponding parts of a gene are known as introns as well. The nature and the role of Introns in the pre-mRNA is not clear and it is under ponderous researches by Biologists but, in our case, we will use the presence of Introns in the RNA-Crypto System output as a strong method to add chaotic non coding information and an unnecessary behaviour in the access to the secret key to code the messages. In the RNA-Crypto System algoritnm the introns are sections of the ciphered message with non-coding information as well as in the precursor mRNA.

Images multiplexing by code division technique

NASA Astrophysics Data System (ADS)

Kuo, Chung J.; Rigas, Harriett

Spread Spectrum System (SSS) or Code Division Multiple Access System (CDMAS) has been studied for a long time, but most of the attention was focused on the transmission problems. In this paper, we study the results when the code division technique is applied to the image at the source stage. The idea is to convolve the N different images with the corresponding m-sequence to obtain the encrypted image. The superimposed image (summation of the encrypted images) is then stored or transmitted. The benefit of this is that no one knows what is stored or transmitted unless the m-sequence is known. The recovery of the original image is recovered by correlating the superimposed image with corresponding m-sequence. Two cases are studied in this paper. First, the two-dimensional image is treated as a long one-dimensional vector and the m-sequence is employed to obtain the results. Secondly, the two-dimensional quasi m-array is proposed and used for the code division multiplexing. It is shown that quasi m-array is faster when the image size is 256 x 256. The important features of the proposed technique are not only the image security but also the data compactness. The compression ratio depends on how many images are superimposed.

Images Multiplexing By Code Division Technique

NASA Astrophysics Data System (ADS)

Kuo, Chung Jung; Rigas, Harriett B.

1990-01-01

Spread Spectrum System (SSS) or Code Division Multiple Access System (CDMAS) has been studied for a long time, but most of the attention was focused on the transmission problems. In this paper, we study the results when the code division technique is applied to the image at the source stage. The idea is to convolve the N different images with the corresponding m-sequence to obtain the encrypted image. The superimposed image (summation of the encrypted images) is then stored or transmitted. The benefit of this is that no one knows what is stored or transmitted unless the m-sequence is known. The recovery of the original image is recovered by correlating the superimposed image with corresponding m-sequence. Two cases are studied in this paper. First, the 2-D image is treated as a long 1-D vector and the m-sequence is employed to obtained the results. Secondly, the 2-D quasi m-array is proposed and used for the code division multiplexing. It is showed that quasi m-array is faster when the image size is 256x256. The important features of the proposed technique are not only the image security but also the data compactness. The compression ratio depends on how many images are superimposed.

Experimental study of an optimized PSP-OSTBC scheme with m-PPM in ultraviolet scattering channel for optical MIMO system.

PubMed

Han, Dahai; Gu, Yanjie; Zhang, Min

2017-08-10

An optimized scheme of pulse symmetrical position-orthogonal space-time block codes (PSP-OSTBC) is proposed and applied with m-pulse positions modulation (m-PPM) without the use of a complex decoding algorithm in an optical multi-input multi-output (MIMO) ultraviolet (UV) communication system. The proposed scheme breaks through the limitation of the traditional Alamouti code and is suitable for high-order m-PPM in a UV scattering channel, verified by both simulation experiments and field tests with specific parameters. The performances of 1×1, 2×1, and 2×2 PSP-OSTBC systems with 4-PPM are compared experimentally as the optimal tradeoff between modification and coding in practical application. Meanwhile, the feasibility of the proposed scheme for 8-PPM is examined by a simulation experiment as well. The results suggest that the proposed scheme makes the system insensitive to the influence of path loss with a larger channel capacity, and a higher diversity gain and coding gain with a simple decoding algorithm will be achieved by employing the orthogonality of m-PPM in an optical-MIMO-based ultraviolet scattering channel.

mRNAs coding for neurotransmitter receptors and voltage-gated sodium channels in the adult rabbit visual cortex after monocular deafferentiation

PubMed Central

Nguyen, Quoc-Thang; Matute, Carlos; Miledi, Ricardo

1998-01-01

It has been postulated that, in the adult visual cortex, visual inputs modulate levels of mRNAs coding for neurotransmitter receptors in an activity-dependent manner. To investigate this possibility, we performed a monocular enucleation in adult rabbits and, 15 days later, collected their left and right visual cortices. Levels of mRNAs coding for voltage-activated sodium channels, and for receptors for kainate/α-amino-3-hydroxy-5-methylisoxazole-4-propionic acid (AMPA), N-methyl-d-aspartate (NMDA), γ-aminobutyric acid (GABA), and glycine were semiquantitatively estimated in the visual cortices ipsilateral and contralateral to the lesion by the Xenopus oocyte/voltage-clamp expression system. This technique also allowed us to study some of the pharmacological and physiological properties of the channels and receptors expressed in the oocytes. In cells injected with mRNA from left or right cortices of monocularly enucleated and control animals, the amplitudes of currents elicited by kainate or AMPA, which reflect the abundance of mRNAs coding for kainate and AMPA receptors, were similar. There was no difference in the sensitivity to kainate and in the voltage dependence of the kainate response. Responses mediated by NMDA, GABA, and glycine were unaffected by monocular enucleation. Sodium channel peak currents, activation, steady-state inactivation, and sensitivity to tetrodotoxin also remained unchanged after the enucleation. Our data show that mRNAs for major neurotransmitter receptors and ion channels in the adult rabbit visual cortex are not obviously modified by monocular deafferentiation. Thus, our results do not support the idea of a widespread dynamic modulation of mRNAs coding for receptors and ion channels by visual activity in the rabbit visual system. PMID:9501250

Computer code for analysing three-dimensional viscous flows in impeller passages and other duct geometries

NASA Technical Reports Server (NTRS)

Tatchell, D. G.

1979-01-01

A code, CATHY3/M, was prepared and demonstrated by application to a sample case. The preparation is reviewed, a summary of the capabilities and main features of the code is given, and the sample case results are discussed. Recommendations for future use and development of the code are provided.

Biosynthesis of reovirus-specified polypeptides: the reovirus s1 mRNA encodes two primary translation products

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

Jacobs, B.L.; Samuel, C.E.

1985-05-01

Reovirus serotypes 1 (Lang strain) and 3 (Dearing strain) code for a hitherto unrecognized low-molecular-weight polypeptide of Mr approximately 12,000. This polypeptide (p12) was synthesized in vitro in L-cell-free protein synthesizing systems programmed with either reovirus serotype 1 mRNA, reovirus serotype 3 mRNA, or with denatured reovirus genome double-stranded RNA, and in vivo in L-cell cultures infected with either reovirus serotype. Pulse-chase experiments in vivo, and the relative kinetics of synthesis of p12 in vitro, indicate that it is a primary translation product. Fractionation of reovirus mRNAs by velocity sedimentation and translation of separated mRNAs in vitro suggests that p12more » is coded for by the s1 mRNA, which also codes for the previously recognized sigma 1 polypeptide. Synthesis of both p12 and sigma 1 in vitro in L-cell-free protein synthesizing systems programmed with denatured reovirus genome double-stranded RNA also suggests that these two polypeptides can be coded by the same mRNA species. It is proposed that the Mr approximately 12,000 polypeptide encoded by the S1 genome segment be designated sigma 1bNS, and that the polypeptide previously designated sigma 1 be renamed sigma 1a.« less

Auto-Regulatory RNA Editing Fine-Tunes mRNA Re-Coding and Complex Behaviour in Drosophila

PubMed Central

Savva, Yiannis A.; Jepson, James E.C; Sahin, Asli; Sugden, Arthur U.; Dorsky, Jacquelyn S.; Alpert, Lauren; Lawrence, Charles; Reenan, Robert A.

2014-01-01

Auto-regulatory feedback loops are a common molecular strategy used to optimize protein function. In Drosophila many mRNAs involved in neuro-transmission are re-coded at the RNA level by the RNA editing enzyme dADAR, leading to the incorporation of amino acids that are not directly encoded by the genome. dADAR also re-codes its own transcript, but the consequences of this auto-regulation in vivo are unclear. Here we show that hard-wiring or abolishing endogenous dADAR auto-regulation dramatically remodels the landscape of re-coding events in a site-specific manner. These molecular phenotypes correlate with altered localization of dADAR within the nuclear compartment. Furthermore, auto-editing exhibits sexually dimorphic patterns of spatial regulation and can be modified by abiotic environmental factors. Finally, we demonstrate that modifying dAdar auto-editing affects adaptive complex behaviors. Our results reveal the in vivo relevance of auto-regulatory control over post-transcriptional mRNA re-coding events in fine-tuning brain function and organismal behavior. PMID:22531175

Detecting chronic kidney disease in population-based administrative databases using an algorithm of hospital encounter and physician claim codes.

PubMed

Fleet, Jamie L; Dixon, Stephanie N; Shariff, Salimah Z; Quinn, Robert R; Nash, Danielle M; Harel, Ziv; Garg, Amit X

2013-04-05

Large, population-based administrative healthcare databases can be used to identify patients with chronic kidney disease (CKD) when serum creatinine laboratory results are unavailable. We examined the validity of algorithms that used combined hospital encounter and physician claims database codes for the detection of CKD in Ontario, Canada. We accrued 123,499 patients over the age of 65 from 2007 to 2010. All patients had a baseline serum creatinine value to estimate glomerular filtration rate (eGFR). We developed an algorithm of physician claims and hospital encounter codes to search administrative databases for the presence of CKD. We determined the sensitivity, specificity, positive and negative predictive values of this algorithm to detect our primary threshold of CKD, an eGFR <45 mL/min per 1.73 m² (15.4% of patients). We also assessed serum creatinine and eGFR values in patients with and without CKD codes (algorithm positive and negative, respectively). Our algorithm required evidence of at least one of eleven CKD codes and 7.7% of patients were algorithm positive. The sensitivity was 32.7% [95% confidence interval: (95% CI): 32.0 to 33.3%]. Sensitivity was lower in women compared to men (25.7 vs. 43.7%; p <0.001) and in the oldest age category (over 80 vs. 66 to 80; 28.4 vs. 37.6 %; p < 0.001). All specificities were over 94%. The positive and negative predictive values were 65.4% (95% CI: 64.4 to 66.3%) and 88.8% (95% CI: 88.6 to 89.0%), respectively. In algorithm positive patients, the median [interquartile range (IQR)] baseline serum creatinine value was 135 μmol/L (106 to 179 μmol/L) compared to 82 μmol/L (69 to 98 μmol/L) for algorithm negative patients. Corresponding eGFR values were 38 mL/min per 1.73 m² (26 to 51 mL/min per 1.73 m²) vs. 69 mL/min per 1.73 m² (56 to 82 mL/min per 1.73 m²), respectively. Patients with CKD as identified by our database algorithm had distinctly higher baseline serum creatinine values and lower eGFR values than those without such codes. However, because of limited sensitivity, the prevalence of CKD was underestimated.

Detecting chronic kidney disease in population-based administrative databases using an algorithm of hospital encounter and physician claim codes

PubMed Central

2013-01-01

Background Large, population-based administrative healthcare databases can be used to identify patients with chronic kidney disease (CKD) when serum creatinine laboratory results are unavailable. We examined the validity of algorithms that used combined hospital encounter and physician claims database codes for the detection of CKD in Ontario, Canada. Methods We accrued 123,499 patients over the age of 65 from 2007 to 2010. All patients had a baseline serum creatinine value to estimate glomerular filtration rate (eGFR). We developed an algorithm of physician claims and hospital encounter codes to search administrative databases for the presence of CKD. We determined the sensitivity, specificity, positive and negative predictive values of this algorithm to detect our primary threshold of CKD, an eGFR <45 mL/min per 1.73 m2 (15.4% of patients). We also assessed serum creatinine and eGFR values in patients with and without CKD codes (algorithm positive and negative, respectively). Results Our algorithm required evidence of at least one of eleven CKD codes and 7.7% of patients were algorithm positive. The sensitivity was 32.7% [95% confidence interval: (95% CI): 32.0 to 33.3%]. Sensitivity was lower in women compared to men (25.7 vs. 43.7%; p <0.001) and in the oldest age category (over 80 vs. 66 to 80; 28.4 vs. 37.6 %; p < 0.001). All specificities were over 94%. The positive and negative predictive values were 65.4% (95% CI: 64.4 to 66.3%) and 88.8% (95% CI: 88.6 to 89.0%), respectively. In algorithm positive patients, the median [interquartile range (IQR)] baseline serum creatinine value was 135 μmol/L (106 to 179 μmol/L) compared to 82 μmol/L (69 to 98 μmol/L) for algorithm negative patients. Corresponding eGFR values were 38 mL/min per 1.73 m2 (26 to 51 mL/min per 1.73 m2) vs. 69 mL/min per 1.73 m2 (56 to 82 mL/min per 1.73 m2), respectively. Conclusions Patients with CKD as identified by our database algorithm had distinctly higher baseline serum creatinine values and lower eGFR values than those without such codes. However, because of limited sensitivity, the prevalence of CKD was underestimated. PMID:23560464

Beyond the Triplet Code: Context Cues Transform Translation.

PubMed

Brar, Gloria A

2016-12-15

The elucidation of the genetic code remains among the most influential discoveries in biology. While innumerable studies have validated the general universality of the code and its value in predicting and analyzing protein coding sequences, established and emerging work has also suggested that full genome decryption may benefit from a greater consideration of a codon's neighborhood within an mRNA than has been broadly applied. This Review examines the evidence for context cues in translation, with a focus on several recent studies that reveal broad roles for mRNA context in programming translation start sites, the rate of translation elongation, and stop codon identity. Copyright © 2016 Elsevier Inc. All rights reserved.

User's Manual for FEMOM3DS. Version 1.0

NASA Technical Reports Server (NTRS)

Reddy, C.J.; Deshpande, M. D.

1997-01-01

FEMOM3DS is a computer code written in FORTRAN 77 to compute electromagnetic(EM) scattering characteristics of a three dimensional object with complex materials using combined Finite Element Method (FEM)/Method of Moments (MoM) technique. This code uses the tetrahedral elements, with vector edge basis functions for FEM in the volume of the cavity and the triangular elements with the basis functions similar to that described for MoM at the outer boundary. By virtue of FEM, this code can handle any arbitrarily shaped three-dimensional cavities filled with inhomogeneous lossy materials. The User's Manual is written to make the user acquainted with the operation of the code. The user is assumed to be familiar with the FORTRAN 77 language and the operating environment of the computers on which the code is intended to run.

Multidimensional Trellis Coded Phase Modulation Using a Multilevel Concatenation Approach. Part 1; Code Design

NASA Technical Reports Server (NTRS)

Rajpal, Sandeep; Rhee, Do Jun; Lin, Shu

1997-01-01

The first part of this paper presents a simple and systematic technique for constructing multidimensional M-ary phase shift keying (MMK) trellis coded modulation (TCM) codes. The construction is based on a multilevel concatenation approach in which binary convolutional codes with good free branch distances are used as the outer codes and block MPSK modulation codes are used as the inner codes (or the signal spaces). Conditions on phase invariance of these codes are derived and a multistage decoding scheme for these codes is proposed. The proposed technique can be used to construct good codes for both the additive white Gaussian noise (AWGN) and fading channels as is shown in the second part of this paper.

A coding single-nucleotide polymorphism in lysine demethylase KDM4A associates with increased sensitivity to mTOR inhibitors.

PubMed

Van Rechem, Capucine; Black, Joshua C; Greninger, Patricia; Zhao, Yang; Donado, Carlos; Burrowes, Paul D; Ladd, Brendon; Christiani, David C; Benes, Cyril H; Whetstine, Johnathan R

2015-03-01

SNPs occur within chromatin-modulating factors; however, little is known about how these variants within the coding sequence affect cancer progression or treatment. Therefore, there is a need to establish their biochemical and/or molecular contribution, their use in subclassifying patients, and their impact on therapeutic response. In this report, we demonstrate that coding SNP-A482 within the lysine tridemethylase gene KDM4A/JMJD2A has different allelic frequencies across ethnic populations, associates with differential outcome in patients with non-small cell lung cancer (NSCLC), and promotes KDM4A protein turnover. Using an unbiased drug screen against 87 preclinical and clinical compounds, we demonstrate that homozygous SNP-A482 cells have increased mTOR inhibitor sensitivity. mTOR inhibitors significantly reduce SNP-A482 protein levels, which parallels the increased drug sensitivity observed with KDM4A depletion. Our data emphasize the importance of using variant status as candidate biomarkers and highlight the importance of studying SNPs in chromatin modifiers to achieve better targeted therapy. This report documents the first coding SNP within a lysine demethylase that associates with worse outcome in patients with NSCLC. We demonstrate that this coding SNP alters the protein turnover and associates with increased mTOR inhibitor sensitivity, which identifies a candidate biomarker for mTOR inhibitor therapy and a therapeutic target for combination therapy. ©2015 American Association for Cancer Research.

A Code Division Multiple Access Communication System for the Low Frequency Band.

DTIC Science & Technology

1983-04-01

frequency channels spread-spectrum communication / complex sequences, orthogonal codes impulsive noise 20. ABSTRACT (Continue an reverse side It...their transmissions with signature sequences. Our LF/CDMA scheme is different in that each user’s signature sequence set consists of M orthogonal ...signature sequences. Our LF/CDMA scheme is different in that each user’s signature sequence set consists of M orthogonal sequences and thus log 2 M

Coding Gains for Rank Decoding

DTIC Science & Technology

1990-02-01

PM PUB=C RERZASB DISThIDUnO UNLI M . U.S. ARMY LABORATORY COWMAND BALLISTIC RESEARCH LABORATORY ABERDEEN PROVING GROUND, MARYLAND 9o 03 is.032...Proving Ground, MD 21005-5066 ATITN: SLCBR-D Aberdeen Proving Ground, M 21005-5066 8a NAME OF FUNDING , SPONSORING 8b OFFICE SYMBOL 9 PROCUREMENT...Previouseditionsare obsolete. SECURITY CLASSIFILATION OF THIS PAGE mm m ini IIIIIIIIIIIIIII I Isn FI E Contents 1 Soft Decision Concepts 1 2 Coding Gain 2 3

On transform coding tools under development for VP10

NASA Astrophysics Data System (ADS)

Parker, Sarah; Chen, Yue; Han, Jingning; Liu, Zoe; Mukherjee, Debargha; Su, Hui; Wang, Yongzhe; Bankoski, Jim; Li, Shunyao

2016-09-01

Google started the WebM Project in 2010 to develop open source, royaltyfree video codecs designed specifically for media on the Web. The second generation codec released by the WebM project, VP9, is currently served by YouTube, and enjoys billions of views per day. Realizing the need for even greater compression efficiency to cope with the growing demand for video on the web, the WebM team embarked on an ambitious project to develop a next edition codec, VP10, that achieves at least a generational improvement in coding efficiency over VP9. Starting from VP9, a set of new experimental coding tools have already been added to VP10 to achieve decent coding gains. Subsequently, Google joined a consortium of major tech companies called the Alliance for Open Media to jointly develop a new codec AV1. As a result, the VP10 effort is largely expected to merge with AV1. In this paper, we focus primarily on new tools in VP10 that improve coding of the prediction residue using transform coding techniques. Specifically, we describe tools that increase the flexibility of available transforms, allowing the codec to handle a more diverse range or residue structures. Results are presented on a standard test set.

A Bioinformatics-Based Alternative mRNA Splicing Code that May Explain Some Disease Mutations Is Conserved in Animals.

PubMed

Qu, Wen; Cingolani, Pablo; Zeeberg, Barry R; Ruden, Douglas M

2017-01-01

Deep sequencing of cDNAs made from spliced mRNAs indicates that most coding genes in many animals and plants have pre-mRNA transcripts that are alternatively spliced. In pre-mRNAs, in addition to invariant exons that are present in almost all mature mRNA products, there are at least 6 additional types of exons, such as exons from alternative promoters or with alternative polyA sites, mutually exclusive exons, skipped exons, or exons with alternative 5' or 3' splice sites. Our bioinformatics-based hypothesis is that, in analogy to the genetic code, there is an "alternative-splicing code" in introns and flanking exon sequences, analogous to the genetic code, that directs alternative splicing of many of the 36 types of introns. In humans, we identified 42 different consensus sequences that are each present in at least 100 human introns. 37 of the 42 top consensus sequences are significantly enriched or depleted in at least one of the 36 types of introns. We further supported our hypothesis by showing that 96 out of 96 analyzed human disease mutations that affect RNA splicing, and change alternative splicing from one class to another, can be partially explained by a mutation altering a consensus sequence from one type of intron to that of another type of intron. Some of the alternative splicing consensus sequences, and presumably their small-RNA or protein targets, are evolutionarily conserved from 50 plant to animal species. We also noticed the set of introns within a gene usually share the same splicing codes, thus arguing that one sub-type of splicesosome might process all (or most) of the introns in a given gene. Our work sheds new light on a possible mechanism for generating the tremendous diversity in protein structure by alternative splicing of pre-mRNAs.

Cloning and expression of a cDNA coding for a human monocyte-derived plasminogen activator inhibitor.

PubMed

Antalis, T M; Clark, M A; Barnes, T; Lehrbach, P R; Devine, P L; Schevzov, G; Goss, N H; Stephens, R W; Tolstoshev, P

1988-02-01

Human monocyte-derived plasminogen activator inhibitor (mPAI-2) was purified to homogeneity from the U937 cell line and partially sequenced. Oligonucleotide probes derived from this sequence were used to screen a cDNA library prepared from U937 cells. One positive clone was sequenced and contained most of the coding sequence as well as a long incomplete 3' untranslated region (1112 base pairs). This cDNA sequence was shown to encode mPAI-2 by hybrid-select translation. A cDNA clone encoding the remainder of the mPAI-2 mRNA was obtained by primer extension of U937 poly(A)+ RNA using a probe complementary to the mPAI-2 coding region. The coding sequence for mPAI-2 was placed under the control of the lambda PL promoter, and the protein expressed in Escherichia coli formed a complex with urokinase that could be detected immunologically. By nucleotide sequence analysis, mPAI-2 cDNA encodes a protein containing 415 amino acids with a predicted unglycosylated Mr of 46,543. The predicted amino acid sequence of mPAI-2 is very similar to placental PAI-2 (3 amino acid differences) and shows extensive homology with members of the serine protease inhibitor (serpin) superfamily. mPAI-2 was found to be more homologous to ovalbumin (37%) than the endothelial plasminogen activator inhibitor, PAI-1 (26%). Like ovalbumin, mPAI-2 appears to have no typical amino-terminal signal sequence. The 3' untranslated region of the mPAI-2 cDNA contains a putative regulatory sequence that has been associated with the inflammatory mediators.

Cloning and expression of a cDNA coding for a human monocyte-derived plasminogen activator inhibitor.

PubMed Central

Antalis, T M; Clark, M A; Barnes, T; Lehrbach, P R; Devine, P L; Schevzov, G; Goss, N H; Stephens, R W; Tolstoshev, P

1988-01-01

Human monocyte-derived plasminogen activator inhibitor (mPAI-2) was purified to homogeneity from the U937 cell line and partially sequenced. Oligonucleotide probes derived from this sequence were used to screen a cDNA library prepared from U937 cells. One positive clone was sequenced and contained most of the coding sequence as well as a long incomplete 3' untranslated region (1112 base pairs). This cDNA sequence was shown to encode mPAI-2 by hybrid-select translation. A cDNA clone encoding the remainder of the mPAI-2 mRNA was obtained by primer extension of U937 poly(A)+ RNA using a probe complementary to the mPAI-2 coding region. The coding sequence for mPAI-2 was placed under the control of the lambda PL promoter, and the protein expressed in Escherichia coli formed a complex with urokinase that could be detected immunologically. By nucleotide sequence analysis, mPAI-2 cDNA encodes a protein containing 415 amino acids with a predicted unglycosylated Mr of 46,543. The predicted amino acid sequence of mPAI-2 is very similar to placental PAI-2 (3 amino acid differences) and shows extensive homology with members of the serine protease inhibitor (serpin) superfamily. mPAI-2 was found to be more homologous to ovalbumin (37%) than the endothelial plasminogen activator inhibitor, PAI-1 (26%). Like ovalbumin, mPAI-2 appears to have no typical amino-terminal signal sequence. The 3' untranslated region of the mPAI-2 cDNA contains a putative regulatory sequence that has been associated with the inflammatory mediators. Images PMID:3257578

A computer code for calculations in the algebraic collective model of the atomic nucleus

NASA Astrophysics Data System (ADS)

Welsh, T. A.; Rowe, D. J.

2016-03-01

A Maple code is presented for algebraic collective model (ACM) calculations. The ACM is an algebraic version of the Bohr model of the atomic nucleus, in which all required matrix elements are derived by exploiting the model's SU(1 , 1) × SO(5) dynamical group. This paper reviews the mathematical formulation of the ACM, and serves as a manual for the code. The code enables a wide range of model Hamiltonians to be analysed. This range includes essentially all Hamiltonians that are rational functions of the model's quadrupole moments qˆM and are at most quadratic in the corresponding conjugate momenta πˆN (- 2 ≤ M , N ≤ 2). The code makes use of expressions for matrix elements derived elsewhere and newly derived matrix elements of the operators [ π ˆ ⊗ q ˆ ⊗ π ˆ ] 0 and [ π ˆ ⊗ π ˆ ] LM. The code is made efficient by use of an analytical expression for the needed SO(5)-reduced matrix elements, and use of SO(5) ⊃ SO(3) Clebsch-Gordan coefficients obtained from precomputed data files provided with the code.

Simulated Assessment of Interference Effects in Direct Sequence Spread Spectrum (DSSS) QPSK Receiver

DTIC Science & Technology

2014-03-27

bit error rate BPSK binary phase shift keying CDMA code division multiple access CSI comb spectrum interference CW continuous wave DPSK differential... CDMA ) and GPS systems which is a Gold code. This code is generated by a modulo-2 operation between two different preferred m-sequences. The preferred m...10 SNR Sim (dB) S N R O ut ( dB ) SNR RF SNR DS Figure 3.26: Comparison of input S NRS im and S NROut of the band-pass RF filter (S NRRF) and

Research on coding and decoding method for digital levels.

PubMed

Tu, Li-fen; Zhong, Si-dong

2011-01-20

A new coding and decoding method for digital levels is proposed. It is based on an area-array CCD sensor and adopts mixed coding technology. By taking advantage of redundant information in a digital image signal, the contradiction that the field of view and image resolution restrict each other in a digital level measurement is overcome, and the geodetic leveling becomes easier. The experimental results demonstrate that the uncertainty of measurement is 1 mm when the measuring range is between 2 m and 100 m, which can meet practical needs.

The impact of three discharge coding methods on the accuracy of diagnostic coding and hospital reimbursement for inpatient medical care.

PubMed

Tsopra, Rosy; Peckham, Daniel; Beirne, Paul; Rodger, Kirsty; Callister, Matthew; White, Helen; Jais, Jean-Philippe; Ghosh, Dipansu; Whitaker, Paul; Clifton, Ian J; Wyatt, Jeremy C

2018-07-01

Coding of diagnoses is important for patient care, hospital management and research. However coding accuracy is often poor and may reflect methods of coding. This study investigates the impact of three alternative coding methods on the inaccuracy of diagnosis codes and hospital reimbursement. Comparisons of coding inaccuracy were made between a list of coded diagnoses obtained by a coder using (i)the discharge summary alone, (ii)case notes and discharge summary, and (iii)discharge summary with the addition of medical input. For each method, inaccuracy was determined for the primary, secondary diagnoses, Healthcare Resource Group (HRG) and estimated hospital reimbursement. These data were then compared with a gold standard derived by a consultant and coder. 107 consecutive patient discharges were analysed. Inaccuracy of diagnosis codes was highest when a coder used the discharge summary alone, and decreased significantly when the coder used the case notes (70% vs 58% respectively, p < 0.0001) or coded from the discharge summary with medical support (70% vs 60% respectively, p < 0.0001). When compared with the gold standard, the percentage of incorrect HRGs was 42% for discharge summary alone, 31% for coding with case notes, and 35% for coding with medical support. The three coding methods resulted in an annual estimated loss of hospital remuneration of between £1.8 M and £16.5 M. The accuracy of diagnosis codes and percentage of correct HRGs improved when coders used either case notes or medical support in addition to the discharge summary. Further emphasis needs to be placed on improving the standard of information recorded in discharge summaries. Copyright © 2018 Elsevier B.V. All rights reserved.

Results of comparative RBMK neutron computation using VNIIEF codes (cell computation, 3D statics, 3D kinetics). Final report

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

Grebennikov, A.N.; Zhitnik, A.K.; Zvenigorodskaya, O.A.

1995-12-31

In conformity with the protocol of the Workshop under Contract {open_quotes}Assessment of RBMK reactor safety using modern Western Codes{close_quotes} VNIIEF performed a neutronics computation series to compare western and VNIIEF codes and assess whether VNIIEF codes are suitable for RBMK type reactor safety assessment computation. The work was carried out in close collaboration with M.I. Rozhdestvensky and L.M. Podlazov, NIKIET employees. The effort involved: (1) cell computations with the WIMS, EKRAN codes (improved modification of the LOMA code) and the S-90 code (VNIIEF Monte Carlo). Cell, polycell, burnup computation; (2) 3D computation of static states with the KORAT-3D and NEUmore » codes and comparison with results of computation with the NESTLE code (USA). The computations were performed in the geometry and using the neutron constants presented by the American party; (3) 3D computation of neutron kinetics with the KORAT-3D and NEU codes. These computations were performed in two formulations, both being developed in collaboration with NIKIET. Formulation of the first problem maximally possibly agrees with one of NESTLE problems and imitates gas bubble travel through a core. The second problem is a model of the RBMK as a whole with imitation of control and protection system controls (CPS) movement in a core.« less

Developing a contributing factor classification scheme for Rasmussen's AcciMap: Reliability and validity evaluation.

PubMed

Goode, N; Salmon, P M; Taylor, N Z; Lenné, M G; Finch, C F

2017-10-01

One factor potentially limiting the uptake of Rasmussen's (1997) Accimap method by practitioners is the lack of a contributing factor classification scheme to guide accident analyses. This article evaluates the intra- and inter-rater reliability and criterion-referenced validity of a classification scheme developed to support the use of Accimap by led outdoor activity (LOA) practitioners. The classification scheme has two levels: the system level describes the actors, artefacts and activity context in terms of 14 codes; the descriptor level breaks the system level codes down into 107 specific contributing factors. The study involved 11 LOA practitioners using the scheme on two separate occasions to code a pre-determined list of contributing factors identified from four incident reports. Criterion-referenced validity was assessed by comparing the codes selected by LOA practitioners to those selected by the method creators. Mean intra-rater reliability scores at the system (M = 83.6%) and descriptor (M = 74%) levels were acceptable. Mean inter-rater reliability scores were not consistently acceptable for both coding attempts at the system level (M T1  = 68.8%; M T2  = 73.9%), and were poor at the descriptor level (M T1  = 58.5%; M T2  = 64.1%). Mean criterion referenced validity scores at the system level were acceptable (M T1  = 73.9%; M T2  = 75.3%). However, they were not consistently acceptable at the descriptor level (M T1  = 67.6%; M T2  = 70.8%). Overall, the results indicate that the classification scheme does not currently satisfy reliability and validity requirements, and that further work is required. The implications for the design and development of contributing factors classification schemes are discussed. Copyright © 2017 Elsevier Ltd. All rights reserved.

microRNA in Cerebral Spinal Fluid as Biomarkers of Alzheimer’s Disease Risk After Brain Injury

DTIC Science & Technology

2016-08-01

protein processing is a key feature of AD. MiRNAs are small non- coding RNA that regulate mRNA transcription, and may be a significant cause of protein...non- coding RNA that regulate mRNA transcription, and may be a significant cause of protein dysregulation. Our investigative team has generated

75 FR 76984 - Notice Regarding National Pollutant Discharge Elimination System (NPDES); General Permit for...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-12-10

... certification pursuant to section 401 of the Clean Water Act (CWA) from Hawaii and a final response on the... Robin Danesi at EPA Headquarters, Office of Water, Office of Wastewater Management, Mail Code 4203M... Headquarters, Office of Water, Office of Wastewater Management, Mail Code 4203M, 1200 Pennsylvania Ave., NW...

Comparing Turbulence Simulation with Experiment in DIII-D

NASA Astrophysics Data System (ADS)

Ross, D. W.; Bravenec, R. V.; Dorland, W.; Beer, M. A.; Hammett, G. W.; McKee, G. R.; Murakami, M.; Jackson, G. L.

2000-10-01

Gyrofluid simulations of DIII-D discharges with the GRYFFIN code(D. W. Ross et al.), Transport Task Force Workshop, Burlington, VT, (2000). are compared with transport and fluctuation measurements. The evolution of confinement-improved discharges(G. R. McKee et al.), Phys. Plasmas 7, 1870 (200) is studied at early times following impurity injection, when EXB rotational shear plays a small role. The ion thermal transport predicted by the code is consistent with the experimental values. Experimentally, changes in density profiles resulting from the injection of neon, lead to reduction in fluctuation levels and transport following the injection. This triggers subsequent changes in the shearing rate that further reduce the turbulence.(M. Murakami et al.), European Physical Society, Budapest (2000); M. Murakami et al., this meeting. Estimated uncertainties in the plasma profiles, however, make it difficult to simulate these reductions with the code. These cases will also be studied with the GS2 gyrokinetic code.

Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity

PubMed Central

Shabalina, Svetlana A.; Spiridonov, Nikolay A.; Kashina, Anna

2013-01-01

Messenger RNA is a key component of an intricate regulatory network of its own. It accommodates numerous nucleotide signals that overlap protein coding sequences and are responsible for multiple levels of regulation and generation of biological complexity. A wealth of structural and regulatory information, which mRNA carries in addition to the encoded amino acid sequence, raises the question of how these signals and overlapping codes are delineated along non-synonymous and synonymous positions in protein coding regions, especially in eukaryotes. Silent or synonymous codon positions, which do not determine amino acid sequences of the encoded proteins, define mRNA secondary structure and stability and affect the rate of translation, folding and post-translational modifications of nascent polypeptides. The RNA level selection is acting on synonymous sites in both prokaryotes and eukaryotes and is more common than previously thought. Selection pressure on the coding gene regions follows three-nucleotide periodic pattern of nucleotide base-pairing in mRNA, which is imposed by the genetic code. Synonymous positions of the coding regions have a higher level of hybridization potential relative to non-synonymous positions, and are multifunctional in their regulatory and structural roles. Recent experimental evidence and analysis of mRNA structure and interspecies conservation suggest that there is an evolutionary tradeoff between selective pressure acting at the RNA and protein levels. Here we provide a comprehensive overview of the studies that define the role of silent positions in regulating RNA structure and processing that exert downstream effects on proteins and their functions. PMID:23293005

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells

PubMed Central

Carlile, Thomas M.; Rojas-Duran, Maria F.; Zinshteyn, Boris; Shin, Hakyung; Bartoli, Kristen M.; Gilbert, Wendy V.

2014-01-01

Post-transcriptional modification of RNA nucleosides occurs in all living organisms. Pseudouridine, the most abundant modified nucleoside in non-coding RNAs1, enhances the function of transfer RNA and ribosomal RNA by stabilizing RNA structure2–8. mRNAs were not known to contain pseudouridine, but artificial pseudouridylation dramatically affects mRNA function – it changes the genetic code by facilitating non-canonical base pairing in the ribosome decoding center9,10. However, without evidence of naturally occurring mRNA pseudouridylation, its physiological was unclear. Here we present a comprehensive analysis of pseudouridylation in yeast and human RNAs using Pseudo-seq, a genome-wide, single-nucleotide-resolution method for pseudouridine identification. Pseudo-seq accurately identifies known modification sites as well as 100 novel sites in non-coding RNAs, and reveals hundreds of pseudouridylated sites in mRNAs. Genetic analysis allowed us to assign most of the new modification sites to one of seven conserved pseudouridine synthases, Pus1–4, 6, 7 and 9. Notably, the majority of pseudouridines in mRNA are regulated in response to environmental signals, such as nutrient deprivation in yeast and serum starvation in human cells. These results suggest a mechanism for the rapid and regulated rewiring of the genetic code through inducible mRNA modifications. Our findings reveal unanticipated roles for pseudouridylation and provide a resource for identifying the targets of pseudouridine synthases implicated in human disease11–13. PMID:25192136

mTOR referees memory and disease through mRNA repression and competition.

PubMed

Raab-Graham, Kimberly F; Niere, Farr

2017-06-01

Mammalian target of rapamycin (mTOR) activity is required for memory and is dysregulated in disease. Activation of mTOR promotes protein synthesis; however, new studies are demonstrating that mTOR activity also represses the translation of mRNAs. Almost three decades ago, Kandel and colleagues hypothesised that memory was due to the induction of positive regulators and removal of negative constraints. Are these negative constraints repressed mRNAs that code for proteins that block memory formation? Herein, we will discuss the mRNAs coded by putative memory suppressors, how activation/inactivation of mTOR repress protein expression at the synapse, how mTOR activity regulates RNA binding proteins, mRNA stability, and translation, and what the possible implications of mRNA repression are to memory and neurodegenerative disorders. © 2017 Federation of European Biochemical Societies.

miRNA-dependent gene silencing involving Ago2-mediated cleavage of a circular antisense RNA

PubMed Central

Hansen, Thomas B; Wiklund, Erik D; Bramsen, Jesper B; Villadsen, Sune B; Statham, Aaron L; Clark, Susan J; Kjems, Jørgen

2011-01-01

MicroRNAs (miRNAs) are ∼22 nt non-coding RNAs that typically bind to the 3′ UTR of target mRNAs in the cytoplasm, resulting in mRNA destabilization and translational repression. Here, we report that miRNAs can also regulate gene expression by targeting non-coding antisense transcripts in human cells. Specifically, we show that miR-671 directs cleavage of a circular antisense transcript of the Cerebellar Degeneration-Related protein 1 (CDR1) locus in an Ago2-slicer-dependent manner. The resulting downregulation of circular antisense has a concomitant decrease in CDR1 mRNA levels, independently of heterochromatin formation. This study provides the first evidence for non-coding antisense transcripts as functional miRNA targets, and a novel regulatory mechanism involving a positive correlation between mRNA and antisense circular RNA levels. PMID:21964070

Identification of the Operon for the Sorbitol (Glucitol) Phosphoenolpyruvate:Sugar Phosphotransferase System in Streptococcus mutans

PubMed Central

Boyd, David A.; Thevenot, Tracy; Gumbmann, Markus; Honeyman, Allen L.; Hamilton, Ian R.

2000-01-01

Transposon mutagenesis and marker rescue were used to isolate and identify an 8.5-kb contiguous region containing six open reading frames constituting the operon for the sorbitol P-enolpyruvate phosphotransferase transport system (PTS) of Streptococcus mutans LT11. The first gene, srlD, codes for sorbitol-6-phosphate dehydrogenase, followed downstream by srlR, coding for a transcriptional regulator; srlM, coding for a putative activator; and the srlA, srlE, and srlB genes, coding for the EIIC, EIIBC, and EIIA components of the sorbitol PTS, respectively. Among all sorbitol PTS operons characterized to date, the srlD gene is found after the genes coding for the EII components; thus, the location of the gene in S. mutans is unique. The SrlR protein is similar to several transcriptional regulators found in Bacillus spp. that contain PTS regulator domains (J. Stülke, M. Arnaud, G. Rapoport, and I. Martin-Verstraete, Mol. Microbiol. 28:865–874, 1998), and its gene overlaps the srlM gene by 1 bp. The arrangement of these two regulatory genes is unique, having not been reported for other bacteria. PMID:10639465

Processing of Visual--Action Codes by Deaf and Hearing Children: Coding Orientation or "M"-Capacity?

ERIC Educational Resources Information Center

Todman, John; Cowdy, Natascha

1993-01-01

Results from a study in which 25 deaf children and 25 hearing children completed a vocabulary test and a compound stimulus visual information task support the hypothesis that performance on cognitive tasks is dependent on compatibility of task demands with a coding orientation. (SLD)

Utilization of Patch/Triangular Target Description Data in BRL Parallel Ray Vulnerability Assessment Codes

DTIC Science & Technology

1979-09-01

KEY WORDS (Continue on revmrem elde It necmmemry and Identity by block number) Target Descriptions GIFT Code C0MGE0M Descriptions FASTGEN Code...which accepts the COMGEOM target description and 1 2 produces the shotline data is the GIFT ’ code. The GIFT code evolved 3 4 from and has...the COMGEOM/ GIFT methodology, while the Navy and Air Force use the PATCH/SHOTGEN-FASTGEN methodology. Lawrence W. Bain, Mathew J. Heisinger

Security Police Officer Utilization Field, AFSCs 8111, 8116, 8121, and 8124.

DTIC Science & Technology

1981-06-01

STATEMENT A M C Approved for public release 82 0 4 26Distribution Unlimited C=DCC=D= APS 8 1 X CECI I CODING INSTRUCTIONS -- -- -" Print the booklet copy...m == NAME (Last, First, Middle Initial) DATE OF BIRTH SEX YR NO DAY (MALE -"(11-34) (3s-5- rayo (41) PRESENT GRADE: SOCIAL SECURITY ACCOUNT NUMBER...Branch - 11. OIC Missile Support Branch - __m 12. OIC Weapons Systems Security , 4 8 CODE 99 X ~.t ! AFS 81XX -mmm -C - . .’ .9 - =, BACKGROUND

Finite Element Analysis of M15 and M19 Mines Under Wheeled Vehicle Load

DTIC Science & Technology

2008-03-01

the plate statically. An implicit finite element option in a code called LSDYNA was used to model the pressure generated in the explosive by the...figure 4 for the M19 mines. Maximum pressure in the explosive for each mine calculated by LSDYNA code shown for a variety of plate sizes and weights...Director U.S. Army TRADOC Analysis Center-WSMR ATTN: ATRC-WSS-R White Sands Missile Range, NM 88002 Chemical Propulsion Information Agency ATTN

Multiple Trellis Coded Modulation (MTCM): An MSAT-X report

NASA Technical Reports Server (NTRS)

Divsalar, D.; Simon, M. K.

1986-01-01

Conventional trellis coding outputs one channel symbol per trellis branch. The notion of multiple trellis coding is introduced wherein more than one channel symbol per trellis branch is transmitted. It is shown that the combination of multiple trellis coding with M-ary modulation yields a performance gain with symmetric signal set comparable to that previously achieved only with signal constellation asymmetry. The advantage of multiple trellis coding over the conventional trellis coded asymmetric modulation technique is that the potential for code catastrophe associated with the latter has been eliminated with no additional cost in complexity (as measured by the number of states in the trellis diagram).

Understanding and Writing G & M Code for CNC Machines

ERIC Educational Resources Information Center

Loveland, Thomas

2012-01-01

In modern CAD and CAM manufacturing companies, engineers design parts for machines and consumable goods. Many of these parts are cut on CNC machines. Whether using a CNC lathe, milling machine, or router, the ideas and designs of engineers must be translated into a machine-readable form called G & M Code that can be used to cut parts to precise…

Coding Instructions, Worksheets, and Keypunch Sheets for M.E.T.R.O.-APEX Simulation.

ERIC Educational Resources Information Center

Michigan Univ., Ann Arbor. Environmental Simulation Lab.

Compiled in this resource are coding instructions, worksheets, and keypunch sheets for use in the M.E.T.R.O.-APEX simulation, described in detail in documents ED 064 530 through ED 064 550. Air Pollution Exercise (APEX) is a computerized college and professional level "real world" simulation of a community with urban and rural problems, industrial…

Peptide code-on-a-microplate for protease activity analysis via MALDI-TOF mass spectrometric quantitation.

PubMed

Hu, Junjie; Liu, Fei; Ju, Huangxian

2015-04-21

A peptide-encoded microplate was proposed for MALDI-TOF mass spectrometric (MS) analysis of protease activity. The peptide codes were designed to contain a coding region and the substrate of protease for enzymatic cleavage, respectively, and an internal standard method was proposed for the MS quantitation of the cleavage products of these peptide codes. Upon the cleavage reaction in the presence of target proteases, the coding regions were released from the microplate, which were directly quantitated by using corresponding peptides with one-amino acid difference as the internal standards. The coding region could be used as the unique "Protease ID" for the identification of corresponding protease, and the amount of the cleavage product was used for protease activity analysis. Using trypsin and chymotrypsin as the model proteases to verify the multiplex protease assay, the designed "Trypsin ID" and "Chymotrypsin ID" occurred at m/z 761.6 and 711.6. The logarithm value of the intensity ratio of "Protease ID" to internal standard was proportional to trypsin and chymotrypsin concentration in a range from 5.0 to 500 and 10 to 500 nM, respectively. The detection limits for trypsin and chymotrypsin were 2.3 and 5.2 nM, respectively. The peptide-encoded microplate showed good selectivity. This proposed method provided a powerful tool for convenient identification and activity analysis of multiplex proteases.

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

Fu, Guoyong; Budny, Robert; Gorelenkov, Nikolai

We report here the work done for the FY14 OFES Theory Performance Target as given below: "Understanding alpha particle confinement in ITER, the world's first burning plasma experiment, is a key priority for the fusion program. In FY 2014, determine linear instability trends and thresholds of energetic particle-driven shear Alfven eigenmodes in ITER for a range of parameters and profiles using a set of complementary simulation models (gyrokinetic, hybrid, and gyrofluid). Carry out initial nonlinear simulations to assess the effects of the unstable modes on energetic particle transport". In the past year (FY14), a systematic study of the alpha-driven Alfvenmore » modes in ITER has been carried out jointly by researchers from six institutions involving seven codes including the transport simulation code TRANSP (R. Budny and F. Poli, PPPL), three gyrokinetic codes: GEM (Y. Chen, Univ. of Colorado), GTC (J. McClenaghan, Z. Lin, UCI), and GYRO (E. Bass, R. Waltz, UCSD/GA), the hybrid code M3D-K (G.Y. Fu, PPPL), the gyro-fluid code TAEFL (D. Spong, ORNL), and the linear kinetic stability code NOVA-K (N. Gorelenkov, PPPL). A range of ITER parameters and profiles are specified by TRANSP simulation of a hybrid scenario case and a steady-state scenario case. Based on the specified ITER equilibria linear stability calculations are done to determine the stability boundary of alpha-driven high-n TAEs using the five initial value codes (GEM, GTC, GYRO, M3D-K, and TAEFL) and the kinetic stability code (NOVA-K). Both the effects of alpha particles and beam ions have been considered. Finally, the effects of the unstable modes on energetic particle transport have been explored using GEM and M3D-K.« less

Gene and genon concept: coding versus regulation

PubMed Central

2007-01-01

We analyse here the definition of the gene in order to distinguish, on the basis of modern insight in molecular biology, what the gene is coding for, namely a specific polypeptide, and how its expression is realized and controlled. Before the coding role of the DNA was discovered, a gene was identified with a specific phenotypic trait, from Mendel through Morgan up to Benzer. Subsequently, however, molecular biologists ventured to define a gene at the level of the DNA sequence in terms of coding. As is becoming ever more evident, the relations between information stored at DNA level and functional products are very intricate, and the regulatory aspects are as important and essential as the information coding for products. This approach led, thus, to a conceptual hybrid that confused coding, regulation and functional aspects. In this essay, we develop a definition of the gene that once again starts from the functional aspect. A cellular function can be represented by a polypeptide or an RNA. In the case of the polypeptide, its biochemical identity is determined by the mRNA prior to translation, and that is where we locate the gene. The steps from specific, but possibly separated sequence fragments at DNA level to that final mRNA then can be analysed in terms of regulation. For that purpose, we coin the new term “genon”. In that manner, we can clearly separate product and regulative information while keeping the fundamental relation between coding and function without the need to introduce a conceptual hybrid. In mRNA, the program regulating the expression of a gene is superimposed onto and added to the coding sequence in cis - we call it the genon. The complementary external control of a given mRNA by trans-acting factors is incorporated in its transgenon. A consequence of this definition is that, in eukaryotes, the gene is, in most cases, not yet present at DNA level. Rather, it is assembled by RNA processing, including differential splicing, from various pieces, as steered by the genon. It emerges finally as an uninterrupted nucleic acid sequence at mRNA level just prior to translation, in faithful correspondence with the amino acid sequence to be produced as a polypeptide. After translation, the genon has fulfilled its role and expires. The distinction between the protein coding information as materialised in the final polypeptide and the processing information represented by the genon allows us to set up a new information theoretic scheme. The standard sequence information determined by the genetic code expresses the relation between coding sequence and product. Backward analysis asks from which coding region in the DNA a given polypeptide originates. The (more interesting) forward analysis asks in how many polypeptides of how many different types a given DNA segment is expressed. This concerns the control of the expression process for which we have introduced the genon concept. Thus, the information theoretic analysis can capture the complementary aspects of coding and regulation, of gene and genon. PMID:18087760

How do primary care doctors in England and Wales code and manage people with chronic kidney disease? Results from the National Chronic Kidney Disease Audit.

PubMed

Kim, Lois G; Cleary, Faye; Wheeler, David C; Caplin, Ben; Nitsch, Dorothea; Hull, Sally A

2017-10-16

In the UK, primary care records are electronic and require doctors to ascribe disease codes to direct care plans and facilitate safe prescribing. We investigated factors associated with coding of chronic kidney disease (CKD) in patients with reduced kidney function and the impact this has on patient management. We identified patients meeting biochemical criteria for CKD (two estimated glomerular filtration rates <60 mL/min/1.73 m2 taken >90 days apart) from 1039 general practitioner (GP) practices in a UK audit. Clustered logistic regression was used to identify factors associated with coding for CKD and improvement in coding as a result of the audit process. We investigated the relationship between coding and five interventions recommended for CKD: achieving blood pressure targets, proteinuria testing, statin prescription and flu and pneumococcal vaccination. Of 256 000 patients with biochemical CKD, 30% did not have a GP CKD code. Males, older patients, those with more severe CKD, diabetes or hypertension or those prescribed statins were more likely to have a CKD code. Among those with continued biochemical CKD following audit, these same characteristics increased the odds of improved coding. Patients without any kidney diagnosis were less likely to receive optimal care than those coded for CKD [e.g. odds ratio for meeting blood pressure target 0.78 (95% confidence interval 0.76-0.79)]. Older age, male sex, diabetes and hypertension are associated with coding for those with biochemical CKD. CKD coding is associated with receiving key primary care interventions recommended for CKD. Increased efforts to incentivize CKD coding may improve outcomes for CKD patients. © The Author 2017. Published by Oxford University Press on behalf of ERA-EDTA.

8D.07: GENE EXPRESSION ANALYSIS AND BIOINFORMATICS REVEALED POTENTIAL TRANSCRIPTION FACTORS ASSOCIATED WITH RENIN-ANGIOTENSIN-ALDOSTERONE SYSTEM IN ATHEROMA.

PubMed

Nehme, A; Zibara, K; Cerutti, C; Bricca, G

2015-06-01

The implication of the renin-angiotensin-aldosterone system (RAAS) in atheroma development is well described. However, a complete view of the local RAAS in atheroma is still missing. In this study we aimed to reveal the organization of RAAS in atheroma at the transcriptomic level and identify the transcriptional regulators behind it. Extended RAAS (extRAAS) was defined as the set of 37 genes coding for classical and novel RAAS participants (Figure 1). Five microarray datasets containing overall 590 samples representing carotid and peripheral atheroma were downloaded from the GEO database. Correlation-based hierarchical clustering (R software) of extRAAS genes within each dataset allowed the identification of modules of co-expressed genes. Reproducible co-expression modules across datasets were then extracted. Transcription factors (TFs) having common binding sites (TFBSs) in the promoters of coordinated genes were identified using the Genomatix database tools and analyzed for their correlation with extRAAS genes in the microarray datasets. Expression data revealed the expressed extRAAS components and their relative abundance displaying the favored pathways in atheroma. Three co-expression modules with more than 80% reproducibility across datasets were extracted. Two of them (M1 and M2) contained genes coding for angiotensin metabolizing enzymes involved in different pathways: M1 included ACE, MME, RNPEP, and DPP3, in addition to 7 other genes; and M2 included CMA1, CTSG, and CPA3. The third module (M3) contained genes coding for receptors known to be implicated in atheroma (AGTR1, MR, GR, LNPEP, EGFR and GPER). M1 and M3 were negatively correlated in 3 of 5 datasets. We identified 19 TFs that have enriched TFBSs in the promoters of genes of M1, and two for M3, but none was found for M2. Among the extracted TFs, ELF1, MAX, and IRF5 showed significant positive correlations with peptidase-coding genes from M1 and negative correlations with receptors-coding genes from M3 (p < 0.05). The identified co-expression modules display the transcriptional organization of local extRAAS in human carotid atheroma. The identification of several TFs potentially associated to extRAAS genes may provide a frame for the discovery of atheroma-specific modulators of extRAAS activity.(Figure is included in full-text article.).

New quantum codes derived from a family of antiprimitive BCH codes

NASA Astrophysics Data System (ADS)

Liu, Yang; Li, Ruihu; Lü, Liangdong; Guo, Luobin

The Bose-Chaudhuri-Hocquenghem (BCH) codes have been studied for more than 57 years and have found wide application in classical communication system and quantum information theory. In this paper, we study the construction of quantum codes from a family of q2-ary BCH codes with length n=q2m+1 (also called antiprimitive BCH codes in the literature), where q≥4 is a power of 2 and m≥2. By a detailed analysis of some useful properties about q2-ary cyclotomic cosets modulo n, Hermitian dual-containing conditions for a family of non-narrow-sense antiprimitive BCH codes are presented, which are similar to those of q2-ary primitive BCH codes. Consequently, via Hermitian Construction, a family of new quantum codes can be derived from these dual-containing BCH codes. Some of these new antiprimitive quantum BCH codes are comparable with those derived from primitive BCH codes.

The Generation of Field Sensitive Interface States in Commercial CMOS Devices.

DTIC Science & Technology

1984-05-31

R. Hevey ATTN: STEWS -TE-AN, A. De La Paz ATTN: Code 6816, R. Lambert ATTN: STEWS -TE-AN, J. Meason ATTN: STEWS -TE-AN, R. Dutchover Naval Surface...Weapons Center ATTN: STEWS -TE-AN, R. Hays ATTN: Code F30 ATTN: STEWS -TE-N, K. Cummings ATTN: Code F31 ATTN: STEWS -TE-N, T. Arellanes ATTN: Code F31, F...Warnock ATTN: STEWS -TE-NT, M. Squires ATTN: Code F31, K. Caudle ATTN: Code WA-52, R. Smith USA Missile Command ATTN: F31, J. Downs ATTN: AMSMI-SF, G

Problem-Based Test: An "In Vitro" Experiment to Analyze the Genetic Code

ERIC Educational Resources Information Center

Szeberenyi, Jozsef

2010-01-01

Terms to be familiar with before you start to solve the test: genetic code, translation, synthetic polynucleotide, leucine, serine, filter precipitation, radioactivity measurement, template, mRNA, tRNA, rRNA, aminoacyl-tRNA synthesis, ribosomes, degeneration of the code, wobble, initiation, and elongation of protein synthesis, initiation codon.…

Gravitational and Magnetic Anomaly Inversion Using a Tree-Based Geometry Representation

DTIC Science & Technology

2009-06-01

find successive mini- ized vectors. Throughout this paper, the term iteration refers to a ingle loop through a stage of the global scheme, not...BOX 12211 RESEARCH TRIANGLE PARK NC 27709-2211 5 NAVAL RESEARCH LAB E R FRANCHI CODE 7100 M H ORR CODE 7120 J A BUCARO CODE 7130

Shock Spectrum Calculation from Acceleration Time Histories

DTIC Science & Technology

1980-09-01

CLASSIFICATIONe OF THIS PAGE (Uh-e DOg ~ 9--t)____________________ REPORT DOCUMENTATION PAGE BEFORE COMPLETING FORM I. REPRT NU9911ACCUIISIO6 NO .3ASCCSPICHT’S...SCE. Oakland CA NAVSCOLCECOFF C35 Port Hueneme. CA,. CO, Code C44A Porn Hueneme. CA NAVSEASYSCOM Code 05M13 (Newhouse) Wash DC; Code 6212, Wash DC

Error Control Coding Techniques for Space and Satellite Communications

NASA Technical Reports Server (NTRS)

Costello, Daniel J., Jr.; Takeshita, Oscar Y.; Cabral, Hermano A.; He, Jiali; White, Gregory S.

1997-01-01

Turbo coding using iterative SOVA decoding and M-ary differentially coherent or non-coherent modulation can provide an effective coding modulation solution: (1) Energy efficient with relatively simple SOVA decoding and small packet lengths, depending on BEP required; (2) Low number of decoding iterations required; and (3) Robustness in fading with channel interleaving.

Improving coding accuracy in an academic practice.

PubMed

Nguyen, Dana; O'Mara, Heather; Powell, Robert

2017-01-01

Practice management has become an increasingly important component of graduate medical education. This applies to every practice environment; private, academic, and military. One of the most critical aspects of practice management is documentation and coding for physician services, as they directly affect the financial success of any practice. Our quality improvement project aimed to implement a new and innovative method for teaching billing and coding in a longitudinal fashion in a family medicine residency. We hypothesized that implementation of a new teaching strategy would increase coding accuracy rates among residents and faculty. Design: single group, pretest-posttest. military family medicine residency clinic. Study populations: 7 faculty physicians and 18 resident physicians participated as learners in the project. Educational intervention: monthly structured coding learning sessions in the academic curriculum that involved learner-presented cases, small group case review, and large group discussion. overall coding accuracy (compliance) percentage and coding accuracy per year group for the subjects that were able to participate longitudinally. Statistical tests used: average coding accuracy for population; paired t test to assess improvement between 2 intervention periods, both aggregate and by year group. Overall coding accuracy rates remained stable over the course of time regardless of the modality of the educational intervention. A paired t test was conducted to compare coding accuracy rates at baseline (mean (M)=26.4%, SD=10%) to accuracy rates after all educational interventions were complete (M=26.8%, SD=12%); t24=-0.127, P=.90. Didactic teaching and small group discussion sessions did not improve overall coding accuracy in a residency practice. Future interventions could focus on educating providers at the individual level.

East Asian mtDNA haplogroup determination in Koreans: haplogroup-level coding region SNP analysis and subhaplogroup-level control region sequence analysis.

PubMed

Lee, Hwan Young; Yoo, Ji-Eun; Park, Myung Jin; Chung, Ukhee; Kim, Chong-Youl; Shin, Kyoung-Jin

2006-11-01

The present study analyzed 21 coding region SNP markers and one deletion motif for the determination of East Asian mitochondrial DNA (mtDNA) haplogroups by designing three multiplex systems which apply single base extension methods. Using two multiplex systems, all 593 Korean mtDNAs were allocated into 15 haplogroups: M, D, D4, D5, G, M7, M8, M9, M10, M11, R, R9, B, A, and N9. As the D4 haplotypes occurred most frequently in Koreans, the third multiplex system was used to further define D4 subhaplogroups: D4a, D4b, D4e, D4g, D4h, and D4j. This method allowed the complementation of coding region information with control region mutation motifs and the resultant findings also suggest reliable control region mutation motifs for the assignment of East Asian mtDNA haplogroups. These three multiplex systems produce good results in degraded samples as they contain small PCR products (101-154 bp) for single base extension reactions. SNP scoring was performed in 101 old skeletal remains using these three systems to prove their utility in degraded samples. The sequence analysis of mtDNA control region with high incidence of haplogroup-specific mutations and the selective scoring of highly informative coding region SNPs using the three multiplex systems are useful tools for most applications involving East Asian mtDNA haplogroup determination and haplogroup-directed stringent quality control.

Verification and Validation of Monte Carlo n-Particle Code 6 (MCNP6) with Neutron Protection Factor Measurements of an Iron Box

DTIC Science & Technology

2014-03-27

VERIFICATION AND VALIDATION OF MONTE CARLO N- PARTICLE CODE 6 (MCNP6) WITH NEUTRON PROTECTION FACTOR... PARTICLE CODE 6 (MCNP6) WITH NEUTRON PROTECTION FACTOR MEASUREMENTS OF AN IRON BOX THESIS Presented to the Faculty Department of Engineering...STATEMENT A. APPROVED FOR PUBLIC RELEASE; DISTRIBUTION UNLIMITED iv AFIT-ENP-14-M-05 VERIFICATION AND VALIDATION OF MONTE CARLO N- PARTICLE CODE 6

Testing of Error-Correcting Sparse Permutation Channel Codes

NASA Technical Reports Server (NTRS)

Shcheglov, Kirill, V.; Orlov, Sergei S.

2008-01-01

A computer program performs Monte Carlo direct numerical simulations for testing sparse permutation channel codes, which offer strong error-correction capabilities at high code rates and are considered especially suitable for storage of digital data in holographic and volume memories. A word in a code of this type is characterized by, among other things, a sparseness parameter (M) and a fixed number (K) of 1 or "on" bits in a channel block length of N.

Protein structure and the sequential structure of mRNA: alpha-helix and beta-sheet signals at the nucleotide level.

PubMed

Brunak, S; Engelbrecht, J

1996-06-01

A direct comparison of experimentally determined protein structures and their corresponding protein coding mRNA sequences has been performed. We examine whether real world data support the hypothesis that clusters of rare codons correlate with the location of structural units in the resulting protein. The degeneracy of the genetic code allows for a biased selection of codons which may control the translational rate of the ribosome, and may thus in vivo have a catalyzing effect on the folding of the polypeptide chain. A complete search for GenBank nucleotide sequences coding for structural entries in the Brookhaven Protein Data Bank produced 719 protein chains with matching mRNA sequence, amino acid sequence, and secondary structure assignment. By neural network analysis, we found strong signals in mRNA sequence regions surrounding helices and sheets. These signals do not originate from the clustering of rare codons, but from the similarity of codons coding for very abundant amino acid residues at the N- and C-termini of helices and sheets. No correlation between the positioning of rare codons and the location of structural units was found. The mRNA signals were also compared with conserved nucleotide features of 16S-like ribosomal RNA sequences and related to mechanisms for maintaining the correct reading frame by the ribosome.

Investigation of CSRZ code in FSO communication

NASA Astrophysics Data System (ADS)

Zhang, Zhike; Chang, Mingchao; Zhu, Ninghua; Liu, Yu

2018-02-01

A cost-effective carrier-suppressed return-to-zero (CSRZ) code generation scheme is proposed by employing a directly modulated laser (DML) module operated at 1.5 μm wavelength. Furthermore, the performance of CSRZ code signal in free-space optical (FSO) link transmission is studied by simulation. It is found from the results that the atmospheric turbulence can deteriorate the transmission performance. However, due to have lower average transmit power and higher spectrum efficient, CSRZ code signal can obtain better amplitude suppression ratio compared to the Non-return-to-zero (NRZ) code.

Polymorphisms of 20 regulatory proteins between Mycobacterium tuberculosis and Mycobacterium bovis.

PubMed

Bigi, María M; Blanco, Federico Carlos; Araújo, Flabio R; Thacker, Tyler C; Zumárraga, Martín J; Cataldi, Angel A; Soria, Marcelo A; Bigi, Fabiana

2016-08-01

Mycobacterium tuberculosis and Mycobacterium bovis are responsible for tuberculosis in humans and animals, respectively. Both species are closely related and belong to the Mycobacterium tuberculosis complex (MTC). M. tuberculosis is the most ancient species from which M. bovis and other members of the MTC evolved. The genome of M. bovis is over >99.95% identical to that of M. tuberculosis but with seven deletions ranging in size from 1 to 12.7 kb. In addition, 1200 single nucleotide mutations in coding regions distinguish M. bovis from M. tuberculosis. In the present study, we assessed 75 M. tuberculosis genomes and 23 M. bovis genomes to identify non-synonymous mutations in 202 coding sequences of regulatory genes between both species. We identified species-specific variants in 20 regulatory proteins and confirmed differential expression of hypoxia-related genes between M. bovis and M. tuberculosis. © 2016 The Societies and John Wiley & Sons Australia, Ltd.

Toward a first-principles integrated simulation of tokamak edge plasmas

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

Chang, C S; Klasky, Scott A; Cummings, Julian

2008-01-01

Performance of the ITER is anticipated to be highly sensitive to the edge plasma condition. The edge pedestal in ITER needs to be predicted from an integrated simulation of the necessary firstprinciples, multi-scale physics codes. The mission of the SciDAC Fusion Simulation Project (FSP) Prototype Center for Plasma Edge Simulation (CPES) is to deliver such a code integration framework by (1) building new kinetic codes XGC0 and XGC1, which can simulate the edge pedestal buildup; (2) using and improving the existing MHD codes ELITE, M3D-OMP, M3D-MPP and NIMROD, for study of large-scale edge instabilities called Edge Localized Modes (ELMs); andmore » (3) integrating the codes into a framework using cutting-edge computer science technology. Collaborative effort among physics, computer science, and applied mathematics within CPES has created the first working version of the End-to-end Framework for Fusion Integrated Simulation (EFFIS), which can be used to study the pedestal-ELM cycles.« less

Combined actions of multiple hairpin loop structures and sites of rate-limiting endonucleolytic cleavage determine differential degradation rates of individual segments within polycistronic puf operon mRNA.

PubMed Central

Klug, G; Cohen, S N

1990-01-01

Differential expression of the genes within the puf operon of Rhodobacter capsulatus is accomplished in part by differences in the rate of degradation of different segments of the puf transcript. We report here that decay of puf mRNA sequences specifying the light-harvesting I (LHI) and reaction center (RC) photosynthetic membrane peptides is initiated endoribonucleolytically within a discrete 1.4-kilobase segment of the RC-coding region. Deletion of this segment increased the half-life of the RC-coding region from 8 to 20 min while not affecting decay of LHI-coding sequences upstream from an intercistronic hairpin loop structure shown previously to impede 3'-to-5' degradation. Prolongation of RC segment half-life was dependent on the presence of other hairpin structures 3' to the RC region. Inserting the endonuclease-sensitive sites into the LHI-coding segment markedly accelerated its degradation. Our results suggest that differential degradation of the RC- and LHI-coding segments of puf mRNA is accomplished at least in part by the combined actions of RC region-specific endonuclease(s), one or more exonucleases, and several strategically located exonuclease-impeding hairpins. Images PMID:2394682

The person within: memory codes for persons and traits using fMRI repetition suppression

PubMed Central

Heleven, Elien

2016-01-01

Neuroimaging studies on trait inference demonstrated that the ventral medial prefrontal cortex (mPFC) houses neural representations of memory codes for traits . In this study, we investigate the neural code not only of traits, but also of persons who exemplify these traits. We used repetition suppression, which is a rapid suppression of the neuroimaging signal upon repeated presentation of the same stimulus or core stimulus characteristics—in this case, the implied trait and person. Participants inferred familiar person’s traits. At each trial, a critical (target) sentence described a behavior that implied a trait, and was preceded by a (prime) sentence that implied the same trait and portrayed the same person, the same trait but portrayed a different person or did not imply a trait and portrayed a different person. As predicted, we found partly overlapping repetition suppression areas in the ventral mPFC when persons and traits were repeated, indicating that not only traits but also familiar persons have a neural code in the ventral mPFC. We also found a negative correlation between activation when reading about a new person and participants’ social network size, indicating that experience with larger social groups results in less recruitment of a person code. PMID:26371337

Development of the V4.2m5 and V5.0m0 Multigroup Cross Section Libraries for MPACT for PWR and BWR

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

Kim, Kang Seog; Clarno, Kevin T.; Gentry, Cole

2017-03-01

The MPACT neutronics module of the Consortium for Advanced Simulation of Light Water Reactors (CASL) core simulator is a 3-D whole core transport code being developed for the CASL toolset, Virtual Environment for Reactor Analysis (VERA). Key characteristics of the MPACT code include (1) a subgroup method for resonance selfshielding and (2) a whole-core transport solver with a 2-D/1-D synthesis method. The MPACT code requires a cross section library to support all the MPACT core simulation capabilities which would be the most influencing component for simulation accuracy.

Characterization of the complete mitochondrial genome of Marshallagia marshalli and phylogenetic implications for the superfamily Trichostrongyloidea.

PubMed

Sun, Miao-Miao; Han, Liang; Zhang, Fu-Kai; Zhou, Dong-Hui; Wang, Shu-Qing; Ma, Jun; Zhu, Xing-Quan; Liu, Guo-Hua

2018-01-01

Marshallagia marshalli (Nematoda: Trichostrongylidae) infection can lead to serious parasitic gastroenteritis in sheep, goat, and wild ruminant, causing significant socioeconomic losses worldwide. Up to now, the study concerning the molecular biology of M. marshalli is limited. Herein, we sequenced the complete mitochondrial (mt) genome of M. marshalli and examined its phylogenetic relationship with selected members of the superfamily Trichostrongyloidea using Bayesian inference (BI) based on concatenated mt amino acid sequence datasets. The complete mt genome sequence of M. marshalli is 13,891 bp, including 12 protein-coding genes, 22 transfer RNA genes, and 2 ribosomal RNA genes. All protein-coding genes are transcribed in the same direction. Phylogenetic analyses based on concatenated amino acid sequences of the 12 protein-coding genes supported the monophylies of the families Haemonchidae, Molineidae, and Dictyocaulidae with strong statistical support, but rejected the monophyly of the family Trichostrongylidae. The determination of the complete mt genome sequence of M. marshalli provides novel genetic markers for studying the systematics, population genetics, and molecular epidemiology of M. marshalli and its congeners.

Scalable Video Transmission Over Multi-Rate Multiple Access Channels

DTIC Science & Technology

2007-06-01

Rate - compatible punctured convolutional codes (RCPC codes ) and their ap- plications,” IEEE...source encoded using the MPEG-4 video codec. The source encoded bitstream is then channel encoded with Rate Compatible Punctured Convolutional (RCPC...Clark, and J. M. Geist, “ Punctured convolutional codes or rate (n-1)/n and simplified maximum likelihood decoding,” IEEE Transactions on

A Dancing Black Hole

NASA Astrophysics Data System (ADS)

Shoemaker, Deirdre; Smith, Kenneth; Schnetter, Erik; Fiske, David; Laguna, Pablo; Pullin, Jorge

2002-04-01

Recently, stationary black holes have been successfully simulated for up to times of approximately 600-1000M, where M is the mass of the black hole. Considering that the expected burst of gravitational radiation from a binary black hole merger would last approximately 200-500M, black hole codes are approaching the point where simulations of mergers may be feasible. We will present two types of simulations of single black holes obtained with a code based on the Baumgarte-Shapiro-Shibata-Nakamura formulation of the Einstein evolution equations. One type of simulations addresses the stability properties of stationary black hole evolutions. The second type of simulations demonstrates the ability of our code to move a black hole through the computational domain. This is accomplished by shifting the stationary black hole solution to a coordinate system in which the location of the black hole is time dependent.

Differential regulation of transcription through distinct Suppressor of Hairless DNA binding site architectures during Notch signaling in proneural clusters.

PubMed

Cave, John W; Xia, Li; Caudy, Michael

2011-01-01

In Drosophila melanogaster, achaete (ac) and m8 are model basic helix-loop-helix activator (bHLH A) and repressor genes, respectively, that have the opposite cell expression pattern in proneural clusters during Notch signaling. Previous studies have shown that activation of m8 transcription in specific cells within proneural clusters by Notch signaling is programmed by a "combinatorial" and "architectural" DNA transcription code containing binding sites for the Su(H) and proneural bHLH A proteins. Here we show the novel result that the ac promoter contains a similar combinatorial code of Su(H) and bHLH A binding sites but contains a different Su(H) site architectural code that does not mediate activation during Notch signaling, thus programming a cell expression pattern opposite that of m8 in proneural clusters.

MIMO Radar System for Respiratory Monitoring Using Tx and Rx Modulation with M-Sequence Codes

NASA Astrophysics Data System (ADS)

Miwa, Takashi; Ogiwara, Shun; Yamakoshi, Yoshiki

The importance of respiratory monitoring systems during sleep have increased due to early diagnosis of sleep apnea syndrome (SAS) in the home. This paper presents a simple respiratory monitoring system suitable for home use having 3D ranging of targets. The range resolution and azimuth resolution are obtained by a stepped frequency transmitting signal and MIMO arrays with preferred pair M-sequence codes doubly modulating in transmission and reception, respectively. Due to the use of these codes, Gold sequence codes corresponding to all the antenna combinations are equivalently modulated in receiver. The signal to interchannel interference ratio of the reconstructed image is evaluated by numerical simulations. The results of experiments on a developed prototype 3D-MIMO radar system show that this system can extract only the motion of respiration of a human subject 2m apart from a metallic rotatable reflector. Moreover, it is found that this system can successfully measure the respiration information of sleeping human subjects for 96.6 percent of the whole measurement time except for instances of large posture change.

Dual-channel-coded microbeads for multiplexed detection of biomolecules using assembling of quantum dots and element coding nanoparticles.

PubMed

Lu, Bangrong; He, Qinghua; He, Yonghong; Chen, Xuejing; Feng, Guangxia; Liu, Siyu; Ji, Yanhong

2018-09-18

To achieve the dual-channel (analog and digital) encoding, microbeads assembled with quantum dots (QDs) and element coding nanoparticles (ECNPs) have been prepared. Dual-spectra, including fluorescence generated from quantum dots (QDs) and laser induced breakdown spectrum obtained from the plasma of ECNPs, including AgO, MgO and ZnO nanoparticles, has been adopted to provide more encoding amounts and more accurate dual recognition for encoded microbeads in multiplexed utilization. The experimental results demonstrate that the single microbead can be decoded in two optical channels. Multiplexed analysis and contrast adsorption experiment of anti-IgG verified the availability and specificity of dual-channel-coded microbeads in bioanalysis. In gradient detection of anti-IgG, we obtained the linear concentration response to target biomolecules from 3.125 × 10 -10  M to 1 × 10 -8  M, and the limit of detection was calculated to be 2.91 × 10 -11  M. Copyright © 2018 Elsevier B.V. All rights reserved.

Bounds on Block Error Probability for Multilevel Concatenated Codes

NASA Technical Reports Server (NTRS)

Lin, Shu; Moorthy, Hari T.; Stojanovic, Diana

1996-01-01

Maximum likelihood decoding of long block codes is not feasable due to large complexity. Some classes of codes are shown to be decomposable into multilevel concatenated codes (MLCC). For these codes, multistage decoding provides good trade-off between performance and complexity. In this paper, we derive an upper bound on the probability of block error for MLCC. We use this bound to evaluate difference in performance for different decompositions of some codes. Examples given show that a significant reduction in complexity can be achieved when increasing number of stages of decoding. Resulting performance degradation varies for different decompositions. A guideline is given for finding good m-level decompositions.

MicroRNA-200c Modulates the Expression of MUC4 and MUC16 by Directly Targeting Their Coding Sequences in Human Pancreatic Cancer

PubMed Central

Radhakrishnan, Prakash; Mohr, Ashley M.; Grandgenett, Paul M.; Steele, Maria M.; Batra, Surinder K.; Hollingsworth, Michael A.

2013-01-01

Transmembrane mucins, MUC4 and MUC16 are associated with tumor progression and metastatic potential in human pancreatic adenocarcinoma. We discovered that miR-200c interacts with specific sequences within the coding sequence of MUC4 and MUC16 mRNAs, and evaluated the regulatory nature of this association. Pancreatic cancer cell lines S2.028 and T3M-4 transfected with miR-200c showed a 4.18 and 8.50 fold down regulation of MUC4 mRNA, and 4.68 and 4.82 fold down regulation of MUC16 mRNA compared to mock-transfected cells, respectively. A significant reduction of glycoprotein expression was also observed. These results indicate that miR-200c overexpression regulates MUC4 and MUC16 mucins in pancreatic cancer cells by directly targeting the mRNA coding sequence of each, resulting in reduced levels of MUC4 and MUC16 mRNA and protein. These data suggest that, in addition to regulating proteins that modulate EMT, miR-200c influences expression of cell surface mucins in pancreatic cancer. PMID:24204560

MicroRNA-200c modulates the expression of MUC4 and MUC16 by directly targeting their coding sequences in human pancreatic cancer.

PubMed

Radhakrishnan, Prakash; Mohr, Ashley M; Grandgenett, Paul M; Steele, Maria M; Batra, Surinder K; Hollingsworth, Michael A

2013-01-01

Transmembrane mucins, MUC4 and MUC16 are associated with tumor progression and metastatic potential in human pancreatic adenocarcinoma. We discovered that miR-200c interacts with specific sequences within the coding sequence of MUC4 and MUC16 mRNAs, and evaluated the regulatory nature of this association. Pancreatic cancer cell lines S2.028 and T3M-4 transfected with miR-200c showed a 4.18 and 8.50 fold down regulation of MUC4 mRNA, and 4.68 and 4.82 fold down regulation of MUC16 mRNA compared to mock-transfected cells, respectively. A significant reduction of glycoprotein expression was also observed. These results indicate that miR-200c overexpression regulates MUC4 and MUC16 mucins in pancreatic cancer cells by directly targeting the mRNA coding sequence of each, resulting in reduced levels of MUC4 and MUC16 mRNA and protein. These data suggest that, in addition to regulating proteins that modulate EMT, miR-200c influences expression of cell surface mucins in pancreatic cancer.

Glutamate cysteine ligase (GCL) in the freshwater bivalve Unio tumidus: impact of storage conditions and seasons on activity and identification of partial coding sequence of the catalytic subunit.

PubMed

Coffinet, Stéphanie; Cossu-Leguille, Carole; Rodius, François; Vasseur, Paule

2008-09-01

Glutamate cysteine ligase (GCL; EC 6.3.2.2) is the first enzyme involved in the synthesis of glutathione. A HPLC method with fluorimetric detection was used to measure GCL activity in the gills and the digestive gland of the freshwater bivalve, Unio tumidus. Storage conditions were optimized in order to prevent decrease of GCL activity and consisted in freezing the cytosolic fraction in the presence of protease (1 mM phenylmethylsulfonic fluoric acid) and gamma-glutamyltranspeptidase (1 mM L-serine borate mixture and 0.5 mM acivicin) inhibitors. Seasonal variations of activity in the digestive gland and to a lesser extent in the gills were found with activity increasing in spring compared to winter. No sex differences were revealed. The GCL coding sequence was identified using degenerated primers designed in the highly conserved regions of the catalytic subunit of GCL. The partial sequence identified encoded for 121 amino acids. The comparison of the identified partial coding sequence of U. tumidus with those available from vertebrates and invertebrates indicated that GCL sequence was highly conserved.

Overview of long non-coding RNA and mRNA expression in response to methamphetamine treatment in vitro.

PubMed

Xiong, Kun; Long, Lingling; Zhang, Xudong; Qu, Hongke; Deng, Haixiao; Ding, Yanjun; Cai, Jifeng; Wang, Shuchao; Wang, Mi; Liao, Lvshuang; Huang, Jufang; Yi, Chun-Xia; Yan, Jie

2017-10-01

Long non-coding RNAs (lncRNAs) display multiple functions including regulation of neuronal injury. However, their impact in methamphetamine (METH)-induced neurotoxicity has rarely been reported. Here, using microarray analysis, we investigated the expression profiling of lncRNAs and mRNAs in primary cultured prefrontal cortical neurons after METH treatment. We observed a difference in lncRNA and mRNA expression between the experimental and sham control groups. Using bioinformatics, we analyzed the highest enriched gene ontology (GO) terms of biological process, cellular component, and molecular function, and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and pathway network analysis. Furthermore, an lncRNA-mRNA co-expression sub-network for aberrantly expressed terms revealed possible interactions of lncRNA NR_110713 and NR_027943 with their related genes. Afterwards, three lncRNAs (NR_110713, NR_027943, GAS5) and two mRNAs (Ddit3, Casp12) were targeted to validate the microarray data by qRT-PCR. This presented an overview of lncRNA and mRNA expression profiling and indicated that lncRNA might participate in METH-induced neuronal apoptosis by regulating the coding genes of neurons. Copyright © 2017 Elsevier Ltd. All rights reserved.

Identification of Novel Long Non-coding and Circular RNAs in Human Papillomavirus-Mediated Cervical Cancer

PubMed Central

Wang, Hongbo; Zhao, Yingchao; Chen, Mingyue; Cui, Jie

2017-01-01

Cervical cancer is the third most common cancer worldwide and the fourth leading cause of cancer-associated mortality in women. Accumulating evidence indicates that long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) may play key roles in the carcinogenesis of different cancers; however, little is known about the mechanisms of lncRNAs and circRNAs in the progression and metastasis of cervical cancer. In this study, we explored the expression profiles of lncRNAs, circRNAs, miRNAs, and mRNAs in HPV16 (human papillomavirus genotype 16) mediated cervical squamous cell carcinoma and matched adjacent non-tumor (ATN) tissues from three patients with high-throughput RNA sequencing (RNA-seq). In total, we identified 19 lncRNAs, 99 circRNAs, 28 miRNAs, and 304 mRNAs that were commonly differentially expressed (DE) in different patients. Among the non-coding RNAs, 3 lncRNAs and 44 circRNAs are novel to our knowledge. Functional enrichment analysis showed that DE lncRNAs, miRNAs, and mRNAs were enriched in pathways crucial to cancer as well as other gene ontology (GO) terms. Furthermore, the co-expression network and function prediction suggested that all 19 DE lncRNAs could play different roles in the carcinogenesis and development of cervical cancer. The competing endogenous RNA (ceRNA) network based on DE coding and non-coding RNAs showed that each miRNA targeted a number of lncRNAs and circRNAs. The link between part of the miRNAs in the network and cervical cancer has been validated in previous studies, and these miRNAs targeted the majority of the novel non-coding RNAs, thus suggesting that these novel non-coding RNAs may be involved in cervical cancer. Taken together, our study shows that DE non-coding RNAs could be further developed as diagnostic and therapeutic biomarkers of cervical cancer. The complex ceRNA network also lays the foundation for future research of the roles of coding and non-coding RNAs in cervical cancer. PMID:28970820

Designing an efficient LT-code with unequal error protection for image transmission

NASA Astrophysics Data System (ADS)

S. Marques, F.; Schwartz, C.; Pinho, M. S.; Finamore, W. A.

2015-10-01

The use of images from earth observation satellites is spread over different applications, such as a car navigation systems and a disaster monitoring. In general, those images are captured by on board imaging devices and must be transmitted to the Earth using a communication system. Even though a high resolution image can produce a better Quality of Service, it leads to transmitters with high bit rate which require a large bandwidth and expend a large amount of energy. Therefore, it is very important to design efficient communication systems. From communication theory, it is well known that a source encoder is crucial in an efficient system. In a remote sensing satellite image transmission, this efficiency is achieved by using an image compressor, to reduce the amount of data which must be transmitted. The Consultative Committee for Space Data Systems (CCSDS), a multinational forum for the development of communications and data system standards for space flight, establishes a recommended standard for a data compression algorithm for images from space systems. Unfortunately, in the satellite communication channel, the transmitted signal is corrupted by the presence of noise, interference signals, etc. Therefore, the receiver of a digital communication system may fail to recover the transmitted bit. Actually, a channel code can be used to reduce the effect of this failure. In 2002, the Luby Transform code (LT-code) was introduced and it was shown that it was very efficient when the binary erasure channel model was used. Since the effect of the bit recovery failure depends on the position of the bit in the compressed image stream, in the last decade many e orts have been made to develop LT-code with unequal error protection. In 2012, Arslan et al. showed improvements when LT-codes with unequal error protection were used in images compressed by SPIHT algorithm. The techniques presented by Arslan et al. can be adapted to work with the algorithm for image compression recommended by CCSDS. In fact, to design a LT-code with an unequal error protection, the bit stream produced by the algorithm recommended by CCSDS must be partitioned in M disjoint sets of bits. Using the weighted approach, the LT-code produces M different failure probabilities for each set of bits, p1, ..., pM leading to a total probability of failure, p which is an average of p1, ..., pM. In general, the parameters of the LT-code with unequal error protection is chosen using a heuristic procedure. In this work, we analyze the problem of choosing the LT-code parameters to optimize two figure of merits: (a) the probability of achieving a minimum acceptable PSNR, and (b) the mean of PSNR, given that the minimum acceptable PSNR has been achieved. Given the rate-distortion curve achieved by CCSDS recommended algorithm, this work establishes a closed form of the mean of PSNR (given that the minimum acceptable PSNR has been achieved) as a function of p1, ..., pM. The main contribution of this work is the study of a criteria to select the parameters p1, ..., pM to optimize the performance of image transmission.

mGrid: A load-balanced distributed computing environment for the remote execution of the user-defined Matlab code

PubMed Central

Karpievitch, Yuliya V; Almeida, Jonas S

2006-01-01

Background Matlab, a powerful and productive language that allows for rapid prototyping, modeling and simulation, is widely used in computational biology. Modeling and simulation of large biological systems often require more computational resources then are available on a single computer. Existing distributed computing environments like the Distributed Computing Toolbox, MatlabMPI, Matlab*G and others allow for the remote (and possibly parallel) execution of Matlab commands with varying support for features like an easy-to-use application programming interface, load-balanced utilization of resources, extensibility over the wide area network, and minimal system administration skill requirements. However, all of these environments require some level of access to participating machines to manually distribute the user-defined libraries that the remote call may invoke. Results mGrid augments the usual process distribution seen in other similar distributed systems by adding facilities for user code distribution. mGrid's client-side interface is an easy-to-use native Matlab toolbox that transparently executes user-defined code on remote machines (i.e. the user is unaware that the code is executing somewhere else). Run-time variables are automatically packed and distributed with the user-defined code and automated load-balancing of remote resources enables smooth concurrent execution. mGrid is an open source environment. Apart from the programming language itself, all other components are also open source, freely available tools: light-weight PHP scripts and the Apache web server. Conclusion Transparent, load-balanced distribution of user-defined Matlab toolboxes and rapid prototyping of many simple parallel applications can now be done with a single easy-to-use Matlab command. Because mGrid utilizes only Matlab, light-weight PHP scripts and the Apache web server, installation and configuration are very simple. Moreover, the web-based infrastructure of mGrid allows for it to be easily extensible over the Internet. PMID:16539707

mGrid: a load-balanced distributed computing environment for the remote execution of the user-defined Matlab code.

PubMed

Karpievitch, Yuliya V; Almeida, Jonas S

2006-03-15

Matlab, a powerful and productive language that allows for rapid prototyping, modeling and simulation, is widely used in computational biology. Modeling and simulation of large biological systems often require more computational resources then are available on a single computer. Existing distributed computing environments like the Distributed Computing Toolbox, MatlabMPI, Matlab*G and others allow for the remote (and possibly parallel) execution of Matlab commands with varying support for features like an easy-to-use application programming interface, load-balanced utilization of resources, extensibility over the wide area network, and minimal system administration skill requirements. However, all of these environments require some level of access to participating machines to manually distribute the user-defined libraries that the remote call may invoke. mGrid augments the usual process distribution seen in other similar distributed systems by adding facilities for user code distribution. mGrid's client-side interface is an easy-to-use native Matlab toolbox that transparently executes user-defined code on remote machines (i.e. the user is unaware that the code is executing somewhere else). Run-time variables are automatically packed and distributed with the user-defined code and automated load-balancing of remote resources enables smooth concurrent execution. mGrid is an open source environment. Apart from the programming language itself, all other components are also open source, freely available tools: light-weight PHP scripts and the Apache web server. Transparent, load-balanced distribution of user-defined Matlab toolboxes and rapid prototyping of many simple parallel applications can now be done with a single easy-to-use Matlab command. Because mGrid utilizes only Matlab, light-weight PHP scripts and the Apache web server, installation and configuration are very simple. Moreover, the web-based infrastructure of mGrid allows for it to be easily extensible over the Internet.

Analysis of Champus Per Capita Mental Health Expenditures and Utilization for Beneficiaries Less Than Eighteen Years

DTIC Science & Technology

1991-04-01

and (If applicable) Clinical Investigation Icty HSAD -A HQ HSC/HSCL-M 6c. ADDRESS (City, State, and ZIP Code) 7b. ADDRESS (City, State, and ZIP Code...NAME OF RESPONSIBLE INDIVIDUAL 22b. TELEPHONE (Include Area Code) 22c. OFFICE SYMBOL Dr. Scott A. Optenberg, GM-14 (512) 221-5880 HSAD -A DD Form

Radial Maze Analog for Pigeons: Evidence for Flexible Coding Strategies May Result from Faulty Assumptions

ERIC Educational Resources Information Center

Gipson, Cassandra D.; DiGian, Kelly A.; Miller, Holly C.; Zentall, Thomas R.

2008-01-01

Previous research with the radial maze has found evidence that rats can remember both places that they have already been (retrospective coding) and places they have yet to visit (prospective coding; Cook, R. G., Brown, M. F., & Riley, D. A. (1985). Flexible memory processing by rats: Use of prospective and retrospective information in the radial…

X-Ray, EUV, UV and Optical Emissivities of Astrophysical Plasmas

NASA Technical Reports Server (NTRS)

Raymond, John C.; West, Donald (Technical Monitor)

2000-01-01

This grant primarily covered the development of the thermal X-ray emission model code called APEC, which is meant to replace the Raymond and Smith (1977) code. The new code contains far more spectral lines and a great deal of updated atomic data. The code is now available (http://hea-www.harvard.edu/APEC), though new atomic data is still being added, particularly at longer wavelengths. While initial development of the code was funded by this grant, current work is carried on by N. Brickhouse, R. Smith and D. Liedahl under separate funding. Over the last five years, the grant has provided salary support for N. Brickhouse, R. Smith, a summer student (L. McAllister), an SAO predoctoral fellow (A. Vasquez), and visits by T. Kallman, D. Liedahl, P. Ghavamian, J.M. Laming, J. Li, P. Okeke, and M. Martos. In addition to the code development, the grant supported investigations into X-ray and UV spectral diagnostics as applied to shock waves in the ISM, accreting black holes and white dwarfs, and stellar coronae. Many of these efforts are continuing. Closely related work on the shock waves and coronal mass ejections in the solar corona has grown out of the efforts supported by the grant.

High-dimensional structured light coding/decoding for free-space optical communications free of obstructions.

PubMed

Du, Jing; Wang, Jian

2015-11-01

Bessel beams carrying orbital angular momentum (OAM) with helical phase fronts exp(ilφ)(l=0;±1;±2;…), where φ is the azimuthal angle and l corresponds to the topological number, are orthogonal with each other. This feature of Bessel beams provides a new dimension to code/decode data information on the OAM state of light, and the theoretical infinity of topological number enables possible high-dimensional structured light coding/decoding for free-space optical communications. Moreover, Bessel beams are nondiffracting beams having the ability to recover by themselves in the face of obstructions, which is important for free-space optical communications relying on line-of-sight operation. By utilizing the OAM and nondiffracting characteristics of Bessel beams, we experimentally demonstrate 12 m distance obstruction-free optical m-ary coding/decoding using visible Bessel beams in a free-space optical communication system. We also study the bit error rate (BER) performance of hexadecimal and 32-ary coding/decoding based on Bessel beams with different topological numbers. After receiving 500 symbols at the receiver side, a zero BER of hexadecimal coding/decoding is observed when the obstruction is placed along the propagation path of light.

Combined chirp coded tissue harmonic and fundamental ultrasound imaging for intravascular ultrasound: 20–60 MHz phantom and ex vivo results

PubMed Central

Park, Jinhyoung; Li, Xiang; Zhou, Qifa; Shung, K. Kirk

2013-01-01

The application of chirp coded excitation to pulse inversion tissue harmonic imaging can increase signal to noise ratio. On the other hand, the elevation of range side lobe level, caused by leakages of the fundamental signal, has been problematic in mechanical scanners which are still the most prevalent in high frequency intravascular ultrasound imaging. Fundamental chirp coded excitation imaging can achieve range side lobe levels lower than –60 dB with Hanning window, but it yields higher side lobes level than pulse inversion chirp coded tissue harmonic imaging (PI-CTHI). Therefore, in this paper a combined pulse inversion chirp coded tissue harmonic and fundamental imaging mode (CPI-CTHI) is proposed to retain the advantages of both chirp coded harmonic and fundamental imaging modes by demonstrating 20–60 MHz phantom and ex vivo results. A simulation study shows that the range side lobe level of CPI-CTHI is 16 dB lower than PI-CTHI, assuming that the transducer translates incident positions by 50 μm when two beamlines of pulse inversion pair are acquired. CPI-CTHI is implemented for a proto-typed intravascular ultrasound scanner capable of combined data acquisition in real-time. A wire phantom study shows that CPI-CTHI has a 12 dB lower range side lobe level and a 7 dB higher echo signal to noise ratio than PI-CTHI, while the lateral resolution and side lobe level are 50 μm finer and –3 dB less than fundamental chirp coded excitation imaging respectively. Ex vivo scanning of a rabbit trachea demonstrates that CPI-CTHI is capable of visualizing blood vessels as small as 200 μm in diameter with 6 dB better tissue contrast than either PI-CTHI or fundamental chirp coded excitation imaging. These results clearly indicate that CPI-CTHI may enhance tissue contrast with less range side lobe level than PI-CTHI. PMID:22871273

Protein functional features are reflected in the patterns of mRNA translation speed.

PubMed

López, Daniel; Pazos, Florencio

2015-07-09

The degeneracy of the genetic code makes it possible for the same amino acid string to be coded by different messenger RNA (mRNA) sequences. These "synonymous mRNAs" may differ largely in a number of aspects related to their overall translational efficiency, such as secondary structure content and availability of the encoded transfer RNAs (tRNAs). Consequently, they may render different yields of the translated polypeptides. These mRNA features related to translation efficiency are also playing a role locally, resulting in a non-uniform translation speed along the mRNA, which has been previously related to some protein structural features and also used to explain some dramatic effects of "silent" single-nucleotide-polymorphisms (SNPs). In this work we perform the first large scale analysis of the relationship between three experimental proxies of mRNA local translation efficiency and the local features of the corresponding encoded proteins. We found that a number of protein functional and structural features are reflected in the patterns of ribosome occupancy, secondary structure and tRNA availability along the mRNA. One or more of these proxies of translation speed have distinctive patterns around the mRNA regions coding for certain protein local features. In some cases the three patterns follow a similar trend. We also show specific examples where these patterns of translation speed point to the protein's important structural and functional features. This support the idea that the genome not only codes the protein functional features as sequences of amino acids, but also as subtle patterns of mRNA properties which, probably through local effects on the translation speed, have some consequence on the final polypeptide. These results open the possibility of predicting a protein's functional regions based on a single genomic sequence, and have implications for heterologous protein expression and fine-tuning protein function.

Transcriptional landscapes of Axolotl (Ambystoma mexicanum).

PubMed

Caballero-Pérez, Juan; Espinal-Centeno, Annie; Falcon, Francisco; García-Ortega, Luis F; Curiel-Quesada, Everardo; Cruz-Hernández, Andrés; Bako, Laszlo; Chen, Xuemei; Martínez, Octavio; Alberto Arteaga-Vázquez, Mario; Herrera-Estrella, Luis; Cruz-Ramírez, Alfredo

2018-01-15

The axolotl (Ambystoma mexicanum) is the vertebrate model system with the highest regeneration capacity. Experimental tools established over the past 100 years have been fundamental to start unraveling the cellular and molecular basis of tissue and limb regeneration. In the absence of a reference genome for the Axolotl, transcriptomic analysis become fundamental to understand the genetic basis of regeneration. Here we present one of the most diverse transcriptomic data sets for Axolotl by profiling coding and non-coding RNAs from diverse tissues. We reconstructed a population of 115,906 putative protein coding mRNAs as full ORFs (including isoforms). We also identified 352 conserved miRNAs and 297 novel putative mature miRNAs. Systematic enrichment analysis of gene expression allowed us to identify tissue-specific protein-coding transcripts. We also found putative novel and conserved microRNAs which potentially target mRNAs which are reported as important disease candidates in heart and liver. Copyright © 2017 Elsevier Inc. All rights reserved.

Error probability for RFID SAW tags with pulse position coding and peak-pulse detection.

PubMed

Shmaliy, Yuriy S; Plessky, Victor; Cerda-Villafaña, Gustavo; Ibarra-Manzano, Oscar

2012-11-01

This paper addresses the code reading error probability (EP) in radio-frequency identification (RFID) SAW tags with pulse position coding (PPC) and peak-pulse detection. EP is found in a most general form, assuming M groups of codes with N slots each and allowing individual SNRs in each slot. The basic case of zero signal in all off-pulses and equal signals in all on-pulses is investigated in detail. We show that if a SAW-tag with PPC is designed such that the spurious responses are attenuated by more than 20 dB below on-pulses, then EP can be achieved at the level of 10(-8) (one false read per 108 readings) with SNR >17 dB for any reasonable M and N. The tag reader range is estimated as a function of the transmitted power and EP.

Potts glass reflection of the decoding threshold for qudit quantum error correcting codes

NASA Astrophysics Data System (ADS)

Jiang, Yi; Kovalev, Alexey A.; Pryadko, Leonid P.

We map the maximum likelihood decoding threshold for qudit quantum error correcting codes to the multicritical point in generalized Potts gauge glass models, extending the map constructed previously for qubit codes. An n-qudit quantum LDPC code, where a qudit can be involved in up to m stabilizer generators, corresponds to a ℤd Potts model with n interaction terms which can couple up to m spins each. We analyze general properties of the phase diagram of the constructed model, give several bounds on the location of the transitions, bounds on the energy density of extended defects (non-local analogs of domain walls), and discuss the correlation functions which can be used to distinguish different phases in the original and the dual models. This research was supported in part by the Grants: NSF PHY-1415600 (AAK), NSF PHY-1416578 (LPP), and ARO W911NF-14-1-0272 (LPP).

The Dental Health of Army Family Members: 1987-1988. Volume 1. Introduction and Methods/Characteristics of Study Sample/Dental Treatment Needs

DTIC Science & Technology

1990-05-07

No (31). HSC Form 539 (OT) (HCSCIA) 1 MAY 87 Page 1 of 4 Pages 43 Use Pencil Only To Record On This Form DMFS PERIO SURFACES N C MEASUREMENTS PERIOTX...USE SURFACES, NEEDS, AND CLASS CODES) NEEDS Rads Used Codes PERIO C 1 = PAX D L 2 = BWX D S s A 3 = PANX M C U ARasF A R S Rads Tooth # SURFACES s L...G S DMFS Needs Codes - To -thd M 0 1 D2. F I L (587- 598) ADD: E = Endo - (599- 610) (611-622) (623-634) (635- 646) (647- 658) IMPORTANT - IF

The person within: memory codes for persons and traits using fMRI repetition suppression.

PubMed

Heleven, Elien; Van Overwalle, Frank

2016-01-01

Neuroimaging studies on trait inference demonstrated that the ventral medial prefrontal cortex (mPFC) houses neural representations of memory codes for traits . In this study, we investigate the neural code not only of traits, but also of persons who exemplify these traits. We used repetition suppression, which is a rapid suppression of the neuroimaging signal upon repeated presentation of the same stimulus or core stimulus characteristics-in this case, the implied trait and person. Participants inferred familiar person's traits. At each trial, a critical (target) sentence described a behavior that implied a trait, and was preceded by a (prime) sentence that implied the same trait and portrayed the same person, the same trait but portrayed a different person or did not imply a trait and portrayed a different person. As predicted, we found partly overlapping repetition suppression areas in the ventral mPFC when persons and traits were repeated, indicating that not only traits but also familiar persons have a neural code in the ventral mPFC. We also found a negative correlation between activation when reading about a new person and participants' social network size, indicating that experience with larger social groups results in less recruitment of a person code. © The Author (2015). Published by Oxford University Press. For Permissions, please email: journals.permissions@oup.com.

Multiplexed Detection of Cytokines Based on Dual Bar-Code Strategy and Single-Molecule Counting.

PubMed

Li, Wei; Jiang, Wei; Dai, Shuang; Wang, Lei

2016-02-02

Cytokines play important roles in the immune system and have been regarded as biomarkers. While single cytokine is not specific and accurate enough to meet the strict diagnosis in practice, in this work, we constructed a multiplexed detection method for cytokines based on dual bar-code strategy and single-molecule counting. Taking interferon-γ (IFN-γ) and tumor necrosis factor-α (TNF-α) as model analytes, first, the magnetic nanobead was functionalized with the second antibody and primary bar-code strands, forming a magnetic nanoprobe. Then, through the specific reaction of the second antibody and the antigen that fixed by the primary antibody, sandwich-type immunocomplex was formed on the substrate. Next, the primary bar-code strands as amplification units triggered multibranched hybridization chain reaction (mHCR), producing nicked double-stranded polymers with multiple branched arms, which were served as secondary bar-code strands. Finally, the secondary bar-code strands hybridized with the multimolecule labeled fluorescence probes, generating enhanced fluorescence signals. The numbers of fluorescence dots were counted one by one for quantification with epi-fluorescence microscope. By integrating the primary and secondary bar-code-based amplification strategy and the multimolecule labeled fluorescence probes, this method displayed an excellent sensitivity with the detection limits were both 5 fM. Unlike the typical bar-code assay that the bar-code strands should be released and identified on a microarray, this method is more direct. Moreover, because of the selective immune reaction and the dual bar-code mechanism, the resulting method could detect the two targets simultaneously. Multiple analysis in human serum was also performed, suggesting that our strategy was reliable and had a great potential application in early clinical diagnosis.

48 CFR 52.212-1 - Instructions to Offerors-Commercial Items.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Classification System (NAICS) code and small business size standard. The NAICS code and small business size... Government infrastructure not later than 5:00 p.m. one working day prior to the date specified for receipt of...

Personnel-General: Army Substance Abuse Program Civilian Services

DTIC Science & Technology

2001-10-15

destroyed. Additional reproduction and distribution of completed records is prohibited. c. SECTION I. IDENTIFICATION. (1) Block I. Date of Report. Enter...AMPHETAMINE B BARBITUATES C COCAINE H HALLUCINOGENS (LSD) M METHAQUALONE, SEDATIVE, HYPNOTIC , OR ANXIOLYTIC O OPIATES P PHENCYCLIDINE (PCP) T CANNABIS...Table 5–6 Codes for TABLE F (T-DIAG-CODE) Code Rejection Reason 30390 ALCOHOL DEPENDENCE 30400 OPIOID DEPENDENCE 30410 SEDATIVE, HYPNOTIC , OR ANXIOLYTIC

Non-coding, mRNA-like RNAs database Y2K.

PubMed

Erdmann, V A; Szymanski, M; Hochberg, A; Groot, N; Barciszewski, J

2000-01-01

In last few years much data has accumulated on various non-translatable RNA transcripts that are synthesised in different cells. They are lacking in protein coding capacity and it seems that they work mainly or exclusively at the RNA level. All known non-coding RNA transcripts are collected in the database: http://www. man.poznan.pl/5SData/ncRNA/index.html

Non-coding, mRNA-like RNAs database Y2K

PubMed Central

Erdmann, Volker A.; Szymanski, Maciej; Hochberg, Abraham; Groot, Nathan de; Barciszewski, Jan

2000-01-01

In last few years much data has accumulated on various non-translatable RNA transcripts that are synthesised in different cells. They are lacking in protein coding capacity and it seems that they work mainly or exclusively at the RNA level. All known non-coding RNA transcripts are collected in the database: http://www.man.poznan.pl/5SData/ncRNA/index.html PMID:10592224

PMD compensation in multilevel coded-modulation schemes with coherent detection using BLAST algorithm and iterative polarization cancellation.

PubMed

Djordjevic, Ivan B; Xu, Lei; Wang, Ting

2008-09-15

We present two PMD compensation schemes suitable for use in multilevel (M>or=2) block-coded modulation schemes with coherent detection. The first scheme is based on a BLAST-type polarization-interference cancellation scheme, and the second scheme is based on iterative polarization cancellation. Both schemes use the LDPC codes as channel codes. The proposed PMD compensations schemes are evaluated by employing coded-OFDM and coherent detection. When used in combination with girth-10 LDPC codes those schemes outperform polarization-time coding based OFDM by 1 dB at BER of 10(-9), and provide two times higher spectral efficiency. The proposed schemes perform comparable and are able to compensate even 1200 ps of differential group delay with negligible penalty.

Short, unit-memory, Byte-oriented, binary convolutional codes having maximal free distance

NASA Technical Reports Server (NTRS)

Lee, L. N.

1975-01-01

It is shown that (n sub 0, k sub 0) convolutional codes with unit memory always achieve the largest free distance among all codes of the same rate k sub 0/n sub 0 and same number 2MK sub 0 of encoder states, where M is the encoder memory. A unit-memory code with maximal free distance is given at each place where this free distance exceeds that of the best code with k sub 0 and n sub 0 relatively prime, for all Mk sub 0 less than or equal to 6 and for R = 1/2, 1/3, 1/4, 2/3. It is shown that the unit-memory codes are byte-oriented in such a way as to be attractive for use in concatenated coding systems.

Coupled Kinetic-MHD Simulations of Divertor Heat Load with ELM Perturbations

NASA Astrophysics Data System (ADS)

Cummings, Julian; Chang, C. S.; Park, Gunyoung; Sugiyama, Linda; Pankin, Alexei; Klasky, Scott; Podhorszki, Norbert; Docan, Ciprian; Parashar, Manish

2010-11-01

The effect of Type-I ELM activity on divertor plate heat load is a key component of the DOE OFES Joint Research Target milestones for this year. In this talk, we present simulations of kinetic edge physics, ELM activity, and the associated divertor heat loads in which we couple the discrete guiding-center neoclassical transport code XGC0 with the nonlinear extended MHD code M3D using the End-to-end Framework for Fusion Integrated Simulations, or EFFIS. In these coupled simulations, the kinetic code and the MHD code run concurrently on the same massively parallel platform and periodic data exchanges are performed using a memory-to-memory coupling technology provided by EFFIS. The M3D code models the fast ELM event and sends frequent updates of the magnetic field perturbations and electrostatic potential to XGC0, which in turn tracks particle dynamics under the influence of these perturbations and collects divertor particle and energy flux statistics. We describe here how EFFIS technologies facilitate these coupled simulations and discuss results for DIII-D, NSTX and Alcator C-Mod tokamak discharges.

Genomic analysis suggests that mRNA destabilization by the microprocessor is specialized for the auto-regulation of Dgcr8.

PubMed

Shenoy, Archana; Blelloch, Robert

2009-09-11

The Microprocessor, containing the RNA binding protein Dgcr8 and RNase III enzyme Drosha, is responsible for processing primary microRNAs to precursor microRNAs. The Microprocessor regulates its own levels by cleaving hairpins in the 5'UTR and coding region of the Dgcr8 mRNA, thereby destabilizing the mature transcript. To determine whether the Microprocessor has a broader role in directly regulating other coding mRNA levels, we integrated results from expression profiling and ultra high-throughput deep sequencing of small RNAs. Expression analysis of mRNAs in wild-type, Dgcr8 knockout, and Dicer knockout mouse embryonic stem (ES) cells uncovered mRNAs that were specifically upregulated in the Dgcr8 null background. A number of these transcripts had evolutionarily conserved predicted hairpin targets for the Microprocessor. However, analysis of deep sequencing data of 18 to 200nt small RNAs in mouse ES, HeLa, and HepG2 indicates that exonic sequence reads that map in a pattern consistent with Microprocessor activity are unique to Dgcr8. We conclude that the Microprocessor's role in directly destabilizing coding mRNAs is likely specifically targeted to Dgcr8 itself, suggesting a specialized cellular mechanism for gene auto-regulation.

Comparison of Space Shuttle Hot Gas Manifold analysis to air flow data

NASA Technical Reports Server (NTRS)

Mcconnaughey, P. K.

1988-01-01

This paper summarizes several recent analyses of the Space Shuttle Main Engine Hot Gas Manifold and compares predicted flow environments to air flow data. Codes used in these analyses include INS3D, PAGE, PHOENICS, and VAST. Both laminar (Re = 250, M = 0.30) and turbulent (Re = 1.9 million, M = 0.30) results are discussed, with the latter being compared to data for system losses, outer wall static pressures, and manifold exit Mach number profiles. Comparison of predicted results for the turbulent case to air flow data shows that the analysis using INS3D predicted system losses within 1 percent error, while the PHOENICS, PAGE, and VAST codes erred by 31, 35, and 47 percent, respectively. The INS3D, PHOENICS, and PAGE codes did a reasonable job of predicting outer wall static pressure, while the PHOENICS code predicted exit Mach number profiles with acceptable accuracy. INS3D was approximately an order of magnitude more efficient than the other codes in terms of code speed and memory requirements. In general, it is seen that complex internal flows in manifold-like geometries can be predicted with a limited degree of confidence, and further development is necessary to improve both efficiency and accuracy of codes if they are to be used as design tools for complex three-dimensional geometries.

Evaluating the benefits of commercial building energy codes and improving federal incentives for code adoption.

PubMed

Gilbraith, Nathaniel; Azevedo, Inês L; Jaramillo, Paulina

2014-12-16

The federal government has the goal of decreasing commercial building energy consumption and pollutant emissions by incentivizing the adoption of commercial building energy codes. Quantitative estimates of code benefits at the state level that can inform the size and allocation of these incentives are not available. We estimate the state-level climate, environmental, and health benefits (i.e., social benefits) and reductions in energy bills (private benefits) of a more stringent code (ASHRAE 90.1-2010) relative to a baseline code (ASHRAE 90.1-2007). We find that reductions in site energy use intensity range from 93 MJ/m(2) of new construction per year (California) to 270 MJ/m(2) of new construction per year (North Dakota). Total annual benefits from more stringent codes total $506 million for all states, where $372 million are from reductions in energy bills, and $134 million are from social benefits. These total benefits range from $0.6 million in Wyoming to $49 million in Texas. Private benefits range from $0.38 per square meter in Washington State to $1.06 per square meter in New Hampshire. Social benefits range from $0.2 per square meter annually in California to $2.5 per square meter in Ohio. Reductions in human/environmental damages and future climate damages account for nearly equal shares of social benefits.

The application of coded excitation technology in medical ultrasonic Doppler imaging

NASA Astrophysics Data System (ADS)

Li, Weifeng; Chen, Xiaodong; Bao, Jing; Yu, Daoyin

2008-03-01

Medical ultrasonic Doppler imaging is one of the most important domains of modern medical imaging technology. The application of coded excitation technology in medical ultrasonic Doppler imaging system has the potential of higher SNR and deeper penetration depth than conventional pulse-echo imaging system, it also improves the image quality, and enhances the sensitivity of feeble signal, furthermore, proper coded excitation is beneficial to received spectrum of Doppler signal. Firstly, this paper analyzes the application of coded excitation technology in medical ultrasonic Doppler imaging system abstractly, showing the advantage and bright future of coded excitation technology, then introduces the principle and the theory of coded excitation. Secondly, we compare some coded serials (including Chirp and fake Chirp signal, Barker codes, Golay's complementary serial, M-sequence, etc). Considering Mainlobe Width, Range Sidelobe Level, Signal-to-Noise Ratio and sensitivity of Doppler signal, we choose Barker codes as coded serial. At last, we design the coded excitation circuit. The result in B-mode imaging and Doppler flow measurement coincided with our expectation, which incarnated the advantage of application of coded excitation technology in Digital Medical Ultrasonic Doppler Endoscope Imaging System.

The Complete Mitochondrial Genome of Mindarus keteleerifoliae (Insecta: Hemiptera: Aphididae) and Comparison with Other Aphididae Insects.

PubMed

Wang, Yuan; Chen, Jing; Jiang, Li-Yun; Qiao, Ge-Xia

2015-12-17

The mitogenome of Mindarus keteleerifoliae Zhang (Hemiptera: Aphididae) is a 15,199 bp circular molecule. The gene order and orientation of M. keteleerifoliae is similarly arranged to that of the ancestral insect of other aphid mitogenomes, and, a tRNA isomerism event maybe identified in the mitogenome of M. keteleerifoliae. The tRNA-Trp gene is coded in the J-strand and the same sequence in the N-strand codes for the tRNA-Ser gene. A similar phenomenon was also found in the mitogenome of Eriosoma lanigerum. However, whether tRNA isomers in aphids exist requires further study. Phylogenetic analyses, using all available protein-coding genes, support Mindarinae as the basal position of Aphididae. Two tribes of Aphidinae were recovered with high statistical significance. Characteristics of the M. keteleerifoliae mitogenome revealed distinct mitogenome structures and provided abundant phylogenetic signals, thus advancing our understanding of insect mitogenomic architecture and evolution. But, because only eight complete aphid mitogenomes, including M. keteleerifoliae, were published, future studies with larger taxon sampling sizes are necessary.

Constrained coding for the deep-spaced optical channel

NASA Technical Reports Server (NTRS)

Moision, B.; Hamkins, J.

2002-01-01

In this paper, we demonstrate a class of low-complexity modulation codes satisfying the (d,k) constraint that offer throughput gains over M-PPM on the order of 10-15%, which translate into SNR gains of .4 - .6 dB.

The algebraic decoding of the (41, 21, 9) quadratic residue code

NASA Technical Reports Server (NTRS)

Reed, Irving S.; Truong, T. K.; Chen, Xuemin; Yin, Xiaowei

1992-01-01

A new algebraic approach for decoding the quadratic residue (QR) codes, in particular the (41, 21, 9) QR code is presented. The key ideas behind this decoding technique are a systematic application of the Sylvester resultant method to the Newton identities associated with the code syndromes to find the error-locator polynomial, and next a method for determining error locations by solving certain quadratic, cubic and quartic equations over GF(2 exp m) in a new way which uses Zech's logarithms for the arithmetic. The algorithms developed here are suitable for implementation in a programmable microprocessor or special-purpose VLSI chip. It is expected that the algebraic methods developed here can apply generally to other codes such as the BCH and Reed-Solomon codes.

Future Research Needs for Dredgeability of Rock: Rock Dredging Workshop Held in Jacksonville, Florida on 25-26 July 1985.

DTIC Science & Technology

1986-09-01

ORGANIZATION Gjeoteehnical Laborator WESGR-M 6c ADDRESS (City, Slate, and ZIP Code ) 7b ADDRESS(City, State. and ZIP Code ) PO Box 631 Vicksburg, MS 39180...of Engineers 8< ADDRESS(City, State, and ZIP Code ) 10 SOURCE OF FUNDING NUMBERS PROGRAM PROJECT TASK WORK UNIT.. ", 1 :, • ; I, - u It ., " ’ ~f...Springfield, VA 22161 17 COSATI CODES 18 SUBJECT TERMS (Continue-On revprse of necessary and identify by block number) " FIELD GROUP SUB GROUP

SEQassembly: A Practical Tools Program for Coding Sequences Splicing

NASA Astrophysics Data System (ADS)

Lee, Hongbin; Yang, Hang; Fu, Lei; Qin, Long; Li, Huili; He, Feng; Wang, Bo; Wu, Xiaoming

CDS (Coding Sequences) is a portion of mRNA sequences, which are composed by a number of exon sequence segments. The construction of CDS sequence is important for profound genetic analysis such as genotyping. A program in MATLAB environment is presented, which can process batch of samples sequences into code segments under the guide of reference exon models, and splice these code segments of same sample source into CDS according to the exon order in queue file. This program is useful in transcriptional polymorphism detection and gene function study.

PAR-CLIP data indicate that Nrd1-Nab3-dependent transcription termination regulates expression of hundreds of protein coding genes in yeast

PubMed Central

2014-01-01

Background Nrd1 and Nab3 are essential sequence-specific yeast RNA binding proteins that function as a heterodimer in the processing and degradation of diverse classes of RNAs. These proteins also regulate several mRNA coding genes; however, it remains unclear exactly what percentage of the mRNA component of the transcriptome these proteins control. To address this question, we used the pyCRAC software package developed in our laboratory to analyze CRAC and PAR-CLIP data for Nrd1-Nab3-RNA interactions. Results We generated high-resolution maps of Nrd1-Nab3-RNA interactions, from which we have uncovered hundreds of new Nrd1-Nab3 mRNA targets, representing between 20 and 30% of protein-coding transcripts. Although Nrd1 and Nab3 showed a preference for binding near 5′ ends of relatively short transcripts, they bound transcripts throughout coding sequences and 3′ UTRs. Moreover, our data for Nrd1-Nab3 binding to 3′ UTRs was consistent with a role for these proteins in the termination of transcription. Our data also support a tight integration of Nrd1-Nab3 with the nutrient response pathway. Finally, we provide experimental evidence for some of our predictions, using northern blot and RT-PCR assays. Conclusions Collectively, our data support the notion that Nrd1 and Nab3 function is tightly integrated with the nutrient response and indicate a role for these proteins in the regulation of many mRNA coding genes. Further, we provide evidence to support the hypothesis that Nrd1-Nab3 represents a failsafe termination mechanism in instances of readthrough transcription. PMID:24393166

Test Particle Simulations of Electron Injection by the Bursty Bulk Flows (BBFs) using High Resolution Lyon-Feddor-Mobarry (LFM) Code

NASA Astrophysics Data System (ADS)

Eshetu, W. W.; Lyon, J.; Wiltberger, M. J.; Hudson, M. K.

2017-12-01

Test particle simulations of electron injection by the bursty bulk flows (BBFs) have been done using a test particle tracer code [1], and the output fields of the Lyon-Feddor-Mobarry global magnetohydro- dynamics (MHD) code[2]. The MHD code was run with high resolu- tion (oct resolution), and with specified solar wind conditions so as to reproduce the observed qualitative picture of the BBFs [3]. Test par- ticles were injected so that they interact with earthward propagating BBFs. The result of the simulation shows that electrons are pushed ahead of the BBFs and accelerated into the inner magnetosphere. Once electrons are in the inner magnetosphere they are further energized by drift resonance with the azimuthal electric field. In addition pitch angle scattering of electrons resulting in the violation conservation of the first adiabatic invariant has been observed. The violation of the first adiabatic invariant occurs as electrons cross a weak magnetic field region with a strong gradient of the field perturbed by the BBFs. References 1. Kress, B. T., Hudson,M. K., Looper, M. D. , Albert, J., Lyon, J. G., and Goodrich, C. C. (2007), Global MHD test particle simulations of ¿ 10 MeV radiation belt electrons during storm sudden commencement, J. Geophys. Res., 112, A09215, doi:10.1029/2006JA012218. Lyon,J. G., Fedder, J. A., and Mobarry, C.M., The Lyon- Fedder-Mobarry (LFM) Global MHD Magnetospheric Simulation Code (2004), J. Atm. And Solar-Terrestrial Phys., 66, Issue 15-16, 1333- 1350,doi:10.1016/j.jastp. Wiltberger, Merkin, M., Lyon, J. G., and Ohtani, S. (2015), High-resolution global magnetohydrodynamic simulation of bursty bulk flows, J. Geophys. Res. Space Physics, 120, 45554566, doi:10.1002/2015JA021080.

Low-dose exposure to bisphenols A, F and S of human primary adipocyte impacts coding and non-coding RNA profiles

PubMed Central

Leloire, Audrey; Dhennin, Véronique; Coumoul, Xavier; Yengo, Loïc; Froguel, Philippe

2017-01-01

Bisphenol A (BPA) exposure has been suspected to be associated with deleterious effects on health including obesity and metabolically-linked diseases. Although bisphenols F (BPF) and S (BPS) are BPA structural analogs commonly used in many marketed products as a replacement for BPA, only sparse toxicological data are available yet. Our objective was to comprehensively characterize bisphenols gene targets in a human primary adipocyte model, in order to determine whether they may induce cellular dysfunction, using chronic exposure at two concentrations: a “low-dose” similar to the dose usually encountered in human biological fluids and a higher dose. Therefore, BPA, BPF and BPS have been added at 10 nM or 10 μM during the differentiation of human primary adipocytes from subcutaneous fat of three non-diabetic Caucasian female patients. Gene expression (mRNA/lncRNA) arrays and microRNA arrays, have been used to assess coding and non-coding RNA changes. We detected significantly deregulated mRNA/lncRNA and miRNA at low and high doses. Enrichment in “cancer” and “organismal injury and abnormalities” related pathways was found in response to the three products. Some long intergenic non-coding RNAs and small nucleolar RNAs were differentially expressed suggesting that bisphenols may also activate multiple cellular processes and epigenetic modifications. The analysis of upstream regulators of deregulated genes highlighted hormones or hormone-like chemicals suggesting that BPS and BPF can be suspected to interfere, just like BPA, with hormonal regulation and have to be considered as endocrine disruptors. All these results suggest that as BPA, its substitutes BPS and BPF should be used with the same restrictions. PMID:28628672

Delineation of the Caffeine C-8 Oxidation Pathway in Pseudomonas sp. Strain CBB1 via Characterization of a New Trimethyluric Acid Monooxygenase and Genes Involved in Trimethyluric Acid Metabolism

PubMed Central

Mohanty, Sujit Kumar; Yu, Chi-Li; Das, Shuvendu; Louie, Tai Man; Gakhar, Lokesh

2012-01-01

The molecular basis of the ability of bacteria to live on caffeine via the C-8 oxidation pathway is unknown. The first step of this pathway, caffeine to trimethyluric acid (TMU), has been attributed to poorly characterized caffeine oxidases and a novel quinone-dependent caffeine dehydrogenase. Here, we report the detailed characterization of the second enzyme, a novel NADH-dependent trimethyluric acid monooxygenase (TmuM), a flavoprotein that catalyzes the conversion of TMU to 1,3,7-trimethyl-5-hydroxyisourate (TM-HIU). This product spontaneously decomposes to racemic 3,6,8-trimethylallantoin (TMA). TmuM prefers trimethyluric acids and, to a lesser extent, dimethyluric acids as substrates, but it exhibits no activity on uric acid. Homology models of TmuM against uric acid oxidase HpxO (which catalyzes uric acid to 5-hydroxyisourate) reveal a much bigger and hydrophobic cavity to accommodate the larger substrates. Genes involved in the caffeine C-8 oxidation pathway are located in a 25.2-kb genomic DNA fragment of CBB1, including cdhABC (coding for caffeine dehydrogenase) and tmuM (coding for TmuM). Comparison of this gene cluster to the uric acid-metabolizing gene cluster and pathway of Klebsiella pneumoniae revealed two major open reading frames coding for the conversion of TM-HIU to S-(+)-trimethylallantoin [S-(+)-TMA]. The first one, designated tmuH, codes for a putative TM-HIU hydrolase, which catalyzes the conversion of TM-HIU to 3,6,8-trimethyl-2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (TM-OHCU). The second one, designated tmuD, codes for a putative TM-OHCU decarboxylase which catalyzes the conversion of TM-OHCU to S-(+)-TMA. Based on a combination of enzymology and gene-analysis, a new degradative pathway for caffeine has been proposed via TMU, TM-HIU, TM-OHCU to S-(+)-TMA. PMID:22609920

Development of a three-dimensional Navier-Stokes code on CDC star-100 computer

NASA Technical Reports Server (NTRS)

Vatsa, V. N.; Goglia, G. L.

1978-01-01

A three-dimensional code in body-fitted coordinates was developed using MacCormack's algorithm. The code is structured to be compatible with any general configuration, provided that the metric coefficients for the transformation are available. The governing equations are developed in primitive variables in order to facilitate the incorporation of physical boundary conditions and turbulence-closure models. MacCormack's two-step, unsplit, time-marching algorithm is used to solve the unsteady Navier-Stokes equations until steady-state solution is achieved. Cases discussed include (1) flat plate in supersonic free stream; (2) supersonic flow along an axial corner; (3) subsonic flow in an axial corner at M infinity = 0.95; and (4) supersonic flow in an axial corner at M infinity 1.5.

cncRNAs: Bi-functional RNAs with protein coding and non-coding functions

PubMed Central

Kumari, Pooja; Sampath, Karuna

2015-01-01

For many decades, the major function of mRNA was thought to be to provide protein-coding information embedded in the genome. The advent of high-throughput sequencing has led to the discovery of pervasive transcription of eukaryotic genomes and opened the world of RNA-mediated gene regulation. Many regulatory RNAs have been found to be incapable of protein coding and are hence termed as non-coding RNAs (ncRNAs). However, studies in recent years have shown that several previously annotated non-coding RNAs have the potential to encode proteins, and conversely, some coding RNAs have regulatory functions independent of the protein they encode. Such bi-functional RNAs, with both protein coding and non-coding functions, which we term as ‘cncRNAs’, have emerged as new players in cellular systems. Here, we describe the functions of some cncRNAs identified from bacteria to humans. Because the functions of many RNAs across genomes remains unclear, we propose that RNAs be classified as coding, non-coding or both only after careful analysis of their functions. PMID:26498036

Computational Fluid Dynamics Requirements at the Naval Postgraduate School.

DTIC Science & Technology

1986-10-01

FIELD ANALYSIS OF WING-FUSELAGE .1?CONFIGURATION r 13. PROFILE- THE EPPLER PROGRAM FOR THE DESIGN AND ANALYSIS OF LOW-SPEED AIRFOILS 14. AERODYNAMIC...POSTORRDUATE SCHOOL(U) VI IJE UNIV MAUSSELS (ELGIUM) C HIRSCH 61 OCT 96 NPS-67-S6-007CR M62271-06-M-0242 UNCLSSIFIED F/0 26/4 NE"I ChE’i...codes Under this group ons can list the codes KELLER BOX METHOD FOR BOUNDARY LAYERS VISCID-INVISCID INTERACTION ON AIRFOIL FLOW OVER WING-BODY JUNCTION

JPEG 2000 Encoding with Perceptual Distortion Control

NASA Technical Reports Server (NTRS)

Watson, Andrew B.; Liu, Zhen; Karam, Lina J.

2008-01-01

An alternative approach has been devised for encoding image data in compliance with JPEG 2000, the most recent still-image data-compression standard of the Joint Photographic Experts Group. Heretofore, JPEG 2000 encoding has been implemented by several related schemes classified as rate-based distortion-minimization encoding. In each of these schemes, the end user specifies a desired bit rate and the encoding algorithm strives to attain that rate while minimizing a mean squared error (MSE). While rate-based distortion minimization is appropriate for transmitting data over a limited-bandwidth channel, it is not the best approach for applications in which the perceptual quality of reconstructed images is a major consideration. A better approach for such applications is the present alternative one, denoted perceptual distortion control, in which the encoding algorithm strives to compress data to the lowest bit rate that yields at least a specified level of perceptual image quality. Some additional background information on JPEG 2000 is prerequisite to a meaningful summary of JPEG encoding with perceptual distortion control. The JPEG 2000 encoding process includes two subprocesses known as tier-1 and tier-2 coding. In order to minimize the MSE for the desired bit rate, a rate-distortion- optimization subprocess is introduced between the tier-1 and tier-2 subprocesses. In tier-1 coding, each coding block is independently bit-plane coded from the most-significant-bit (MSB) plane to the least-significant-bit (LSB) plane, using three coding passes (except for the MSB plane, which is coded using only one "clean up" coding pass). For M bit planes, this subprocess involves a total number of (3M - 2) coding passes. An embedded bit stream is then generated for each coding block. Information on the reduction in distortion and the increase in the bit rate associated with each coding pass is collected. This information is then used in a rate-control procedure to determine the contribution of each coding block to the output compressed bit stream.

Accounting for overdispersion when determining primary care outliers for the identification of chronic kidney disease: learning from the National Chronic Kidney Disease Audit.

PubMed

Kim, Lois G; Caplin, Ben; Cleary, Faye; Hull, Sally A; Griffith, Kathryn; Wheeler, David C; Nitsch, Dorothea

2017-04-01

Early diagnosis of chronic kidney disease (CKD) facilitates best management in primary care. Testing coverage of those at risk and translation into subsequent diagnostic coding will impact on observed CKD prevalence. Using initial data from 915 general practitioner (GP) practices taking part in a UK national audit, we seek to apply appropriate methods to identify outlying practices in terms of CKD stages 3-5 prevalence and diagnostic coding. We estimate expected numbers of CKD stages 3-5 cases in each practice, adjusted for key practice characteristics, and further inflate the control limits to account for overdispersion related to unobserved factors (including unobserved risk factors for CKD, and between-practice differences in coding and testing). GP practice prevalence of coded CKD stages 3-5 ranges from 0.04 to 7.8%. Practices differ considerably in coding of CKD in individuals where CKD is indicated following testing (ranging from 0 to 97% of those with and glomerular filtration rate  <60 mL/min/1.73 m 2 ). After adjusting for risk factors and overdispersion, the number of  'extreme' practices is reduced from 29 to 2.6% for the low-coded CKD prevalence outcome, from 21 to 1% for high-uncoded CKD stage and from 22 to 2.4% for low total (coded and uncoded) CKD prevalence. Thirty-one practices are identified as outliers for at least one of these outcomes. These can then be categorized into practices needing to address testing, coding or data storage/transfer issues. GP practice prevalence of coded CKD shows wide variation. Accounting for overdispersion is crucial in providing useful information about outlying practices for CKD prevalence. © The Author 2017. Published by Oxford University Press on behalf of ERA-EDTA. All rights reserved.

Parallel-Processing CMOS Circuitry for M-QAM and 8PSK TCM

NASA Technical Reports Server (NTRS)

Gray, Andrew; Lee, Dennis; Hoy, Scott; Fisher, Dave; Fong, Wai; Ghuman, Parminder

2009-01-01

There has been some additional development of parts reported in "Multi-Modulator for Bandwidth-Efficient Communication" (NPO-40807), NASA Tech Briefs, Vol. 32, No. 6 (June 2009), page 34. The focus was on 1) The generation of M-order quadrature amplitude modulation (M-QAM) and octonary-phase-shift-keying, trellis-coded modulation (8PSK TCM), 2) The use of square-root raised-cosine pulse-shaping filters, 3) A parallel-processing architecture that enables low-speed [complementary metal oxide/semiconductor (CMOS)] circuitry to perform the coding, modulation, and pulse-shaping computations at a high rate; and 4) Implementation of the architecture in a CMOS field-programmable gate array.

48 CFR 204.7202-1 - CAGE codes.

Code of Federal Regulations, 2014 CFR

2014-10-01

... issued by DLA Logistics Information Service. (Their address is: Customer Service, Federal Center, 74... Logistics Information Service assigns or records and maintains CAGE codes to identify commercial and... Volume 7 of DoD 4100.39-M, Federal Logistics Information System (FLIS) Procedures Manual, prescribe use...

48 CFR 204.7202-1 - CAGE codes.

Code of Federal Regulations, 2011 CFR

2011-10-01

... issued by DLA Logistics Information Service. (Their address is: Customer Service, Federal Center, 74... Logistics Information Service assigns or records and maintains CAGE codes to identify commercial and... Volume 7 of DoD 4100.39-M, Federal Logistics Information System (FLIS) Procedures Manual, prescribe use...

48 CFR 204.7202-1 - CAGE codes.

Code of Federal Regulations, 2013 CFR

2013-10-01

... issued by DLA Logistics Information Service. (Their address is: Customer Service, Federal Center, 74... Logistics Information Service assigns or records and maintains CAGE codes to identify commercial and... Volume 7 of DoD 4100.39-M, Federal Logistics Information System (FLIS) Procedures Manual, prescribe use...

48 CFR 204.7202-1 - CAGE codes.

Code of Federal Regulations, 2012 CFR

2012-10-01

... issued by DLA Logistics Information Service. (Their address is: Customer Service, Federal Center, 74... Logistics Information Service assigns or records and maintains CAGE codes to identify commercial and... Volume 7 of DoD 4100.39-M, Federal Logistics Information System (FLIS) Procedures Manual, prescribe use...

Deepak Condenser Model (DeCoM)

NASA Technical Reports Server (NTRS)

Patel, Deepak

2013-01-01

Development of the DeCoM comes from the requirement of analyzing the performance of a condenser. A component of a loop heat pipe (LHP), the condenser, is interfaced with the radiator in order to reject heat. DeCoM simulates the condenser, with certain input parameters. Systems Improved Numerical Differencing Analyzer (SINDA), a thermal analysis software, calculates the adjoining component temperatures, based on the DeCoM parameters and interface temperatures to the radiator. Application of DeCoM is (at the time of this reporting) restricted to small-scale analysis, without the need for in-depth LHP component integrations. To efficiently develop a model to simulate the LHP condenser, DeCoM was developed to meet this purpose with least complexity. DeCoM is a single-condenser, single-pass simulator for analyzing its behavior. The analysis is done based on the interactions between condenser fluid, the wall, and the interface between the wall and the radiator. DeCoM is based on conservation of energy, two-phase equations, and flow equations. For two-phase, the Lockhart- Martinelli correlation has been used in order to calculate the convection value between fluid and wall. Software such as SINDA (for thermal analysis analysis) and Thermal Desktop (for modeling) are required. DeCoM also includes the ability to implement a condenser into a thermal model with the capability of understanding the code process and being edited to user-specific needs. DeCoM requires no license, and is an open-source code. Advantages to DeCoM include time dependency, reliability, and the ability for the user to view the code process and edit to their needs.

Short-lived non-coding transcripts (SLiTs): Clues to regulatory long non-coding RNA.

PubMed

Tani, Hidenori

2017-03-22

Whole transcriptome analyses have revealed a large number of novel long non-coding RNAs (lncRNAs). Although the importance of lncRNAs has been documented in previous reports, the biological and physiological functions of lncRNAs remain largely unknown. The role of lncRNAs seems an elusive problem. Here, I propose a clue to the identification of regulatory lncRNAs. The key point is RNA half-life. RNAs with a long half-life (t 1/2 > 4 h) contain a significant proportion of ncRNAs, as well as mRNAs involved in housekeeping functions, whereas RNAs with a short half-life (t 1/2 < 4 h) include known regulatory ncRNAs and regulatory mRNAs. This novel class of ncRNAs with a short half-life can be categorized as Short-Lived non-coding Transcripts (SLiTs). I consider that SLiTs are likely to be rich in functionally uncharacterized regulatory RNAs. This review describes recent progress in research into SLiTs.

Spectroscopic diagnostics of tungsten-doped CH plasmas

NASA Astrophysics Data System (ADS)

Klapisch, M.; Colombant, D.; Lehecka, T.

1998-11-01

Spectra of CH with different concentrations of W dopant and laser intensities ( 2.5-10 x10^12 W/cm^2 ) were obtained at NRL with the Nike Laser. They were recorded in the 100-500 eV range with an XUV grating spectrometer. The hydrodynamic simulations are performed with the 1D code FAST1D(J. H. Gardner et al., Phys. Plasmas, 5, May (1998).) where non LTE effects are introduced by Busquet's model( M. Busquet, Phys. Fluids B, 5, 4191 (1993); M. Klapisch, A. Bar-Shalom, J. Oreg and D. Colombant, Phys. Plasmas, 5, May (1998).). They are then post-processed with TRANSPEC( O. Peyrusse, J. Quant. Spectrosc. Radiat. Transfer, 51, 281 (1994)), a time dependent collisional radiative code with radiation coupling. The necessary atomic data are obtained from the HULLAC code( M. Klapisch and A. Bar-Shalom, J. Quant. Spectrosc. Radiat. Transfer, 58, 687 (1997).). The post processing and diagnostics were performed on carbon lines and the results are compared with the experimental data.

Novel inter and intra prediction tools under consideration for the emerging AV1 video codec

NASA Astrophysics Data System (ADS)

Joshi, Urvang; Mukherjee, Debargha; Han, Jingning; Chen, Yue; Parker, Sarah; Su, Hui; Chiang, Angie; Xu, Yaowu; Liu, Zoe; Wang, Yunqing; Bankoski, Jim; Wang, Chen; Keyder, Emil

2017-09-01

Google started the WebM Project in 2010 to develop open source, royalty- free video codecs designed specifically for media on the Web. The second generation codec released by the WebM project, VP9, is currently served by YouTube, and enjoys billions of views per day. Realizing the need for even greater compression efficiency to cope with the growing demand for video on the web, the WebM team embarked on an ambitious project to develop a next edition codec AV1, in a consortium of major tech companies called the Alliance for Open Media, that achieves at least a generational improvement in coding efficiency over VP9. In this paper, we focus primarily on new tools in AV1 that improve the prediction of pixel blocks before transforms, quantization and entropy coding are invoked. Specifically, we describe tools and coding modes that improve intra, inter and combined inter-intra prediction. Results are presented on standard test sets.

Computer Description of the Field Artillery Ammunition Supply Vehicle

DTIC Science & Technology

1983-04-01

Combinatorial Geometry (COM-GEOM) GIFT Computer Code Computer Target Description 2& AfTNACT (Cmne M feerve shb N ,neemssalyan ify by block number) A...input to the GIFT computer code to generate target vulnerability data. F.a- 4 ono OF I NOV 5S OLETE UNCLASSIFIED SECUOITY CLASSIFICATION OF THIS PAGE...Combinatorial Geometry (COM-GEOM) desrription. The "Geometric Information for Tarqets" ( GIFT ) computer code accepts the CO!-GEOM description and

Extensions and Adjuncts to the BRL-COMGEOM Program

DTIC Science & Technology

1974-08-01

m MAGIC Code, GIFT Code, Computer Simulation, Target Description, Geometric Modeling Techniques, Vulnerability Analysis 20...Arbitrary Quadric Surf ace.. 0Oo „<>. 7 III. BRITL: A GEOMETRY PREPROCESSOR PROGRAM FOR INPUT TO THE GIFT SYSTEM „ 0 18 A. Introduction <, „. ° 18 B...the BRL- GIFT code. The tasks completed under this contract and described in the report are: Ao The addition to the list of available body types

Anisotropic Effective Moduli of Microcrack Damaged Media

DTIC Science & Technology

2010-01-01

18) vanish. In this case applying the L’Hospital’s rule to Eq. (18) when h2 ? h1 yields the following:C44 l2 ¼ 1 C55 þ pg lðlþ C44Þ ðl þ C44Þ½1...RESEARCH TRIANGLE PARK NC 27709-2211 5 NAVAL RESEARCH LAB E R FRANCHI CODE 7100 M H ORR CODE 7120 J A BUCARO CODE 7130 J S PERKINS

Cognitive Code-Division Channelization

DTIC Science & Technology

2011-04-01

22] G. N. Karystinos and D. A. Pados, “New bounds on the total squared correlation and optimum design of DS - CDMA binary signature sets,” IEEE Trans...Commun., vol. 51, pp. 48-51, Jan. 2003. [23] C. Ding, M. Golin, and T. Klve, “Meeting the Welch and Karystinos- Pados bounds on DS - CDMA binary...receiver pair coexisting with a primary code-division multiple-access ( CDMA ) system. Our objective is to find the optimum transmitting power and code

Possibilities for the evolution of the genetic code from a preceding form

NASA Technical Reports Server (NTRS)

Jukes, T. H.

1973-01-01

Analysis of the interaction between mRNA codons and tRNA anticodons suggests a model for the evolution of the genetic code. Modification of the nucleic acid following the anticodon is at present essential in both eukaryotes and prokaryotes to ensure fidelity of translation of codons starting with A, and the amino acids which could be coded for before the evolution of the modifying enzymes can be deduced.

Multi-zonal Navier-Stokes code with the LU-SGS scheme

NASA Technical Reports Server (NTRS)

Klopfer, G. H.; Yoon, S.

1993-01-01

The LU-SGS (lower upper symmetric Gauss Seidel) algorithm has been implemented into the Compressible Navier-Stokes, Finite Volume (CNSFV) code and validated with a multizonal Navier-Stokes simulation of a transonic turbulent flow around an Onera M6 transport wing. The convergence rate and robustness of the code have been improved and the computational cost has been reduced by at least a factor of 2 over the diagonal Beam-Warming scheme.

Development of an occupational airborne chemical exposure matrix

PubMed Central

Kurmi, O. P.; Chambers, H.; Lam, K. B. H.; Fishwick, D.

2016-01-01

Background Population-based studies of the occupational contribution to chronic obstructive pulmonary disease generally rely on self-reported exposures to vapours, gases, dusts and fumes (VGDF), which are susceptible to misclassification. Aims To develop an airborne chemical job exposure matrix (ACE JEM) for use with the UK Standard Occupational Classification (SOC 2000) system. Methods We developed the ACE JEM in stages: (i) agreement of definitions, (ii) a binary assignation of exposed/not exposed to VGDF, fibres or mists (VGDFFiM), for each of the individual 353 SOC codes and (iii) assignation of levels of exposure (L; low, medium and high) and (iv) the proportion of workers (P) likely to be exposed in each code. We then expanded the estimated exposures to include biological dusts, mineral dusts, metals, diesel fumes and asthmagens. Results We assigned 186 (53%) of all SOC codes as exposed to at least one category of VGDFFiM, with 23% assigned as having medium or high exposure. We assigned over 68% of all codes as not being exposed to fibres, gases or mists. The most common exposure was to dusts (22% of codes with >50% exposed); 12% of codes were assigned exposure to fibres. We assigned higher percentages of the codes as exposed to diesel fumes (14%) compared with metals (8%). Conclusions We developed an expert-derived JEM, using a strict set of a priori defined rules. The ACE JEM could also be applied to studies to assess risks of diseases where the main route of occupational exposure is via inhalation. PMID:27067914

Development of an occupational airborne chemical exposure matrix.

PubMed

Sadhra, S S; Kurmi, O P; Chambers, H; Lam, K B H; Fishwick, D

2016-07-01

Population-based studies of the occupational contribution to chronic obstructive pulmonary disease generally rely on self-reported exposures to vapours, gases, dusts and fumes (VGDF), which are susceptible to misclassification. To develop an airborne chemical job exposure matrix (ACE JEM) for use with the UK Standard Occupational Classification (SOC 2000) system. We developed the ACE JEM in stages: (i) agreement of definitions, (ii) a binary assignation of exposed/not exposed to VGDF, fibres or mists (VGDFFiM), for each of the individual 353 SOC codes and (iii) assignation of levels of exposure (L; low, medium and high) and (iv) the proportion of workers (P) likely to be exposed in each code. We then expanded the estimated exposures to include biological dusts, mineral dusts, metals, diesel fumes and asthmagens. We assigned 186 (53%) of all SOC codes as exposed to at least one category of VGDFFiM, with 23% assigned as having medium or high exposure. We assigned over 68% of all codes as not being exposed to fibres, gases or mists. The most common exposure was to dusts (22% of codes with >50% exposed); 12% of codes were assigned exposure to fibres. We assigned higher percentages of the codes as exposed to diesel fumes (14%) compared with metals (8%). We developed an expert-derived JEM, using a strict set of a priori defined rules. The ACE JEM could also be applied to studies to assess risks of diseases where the main route of occupational exposure is via inhalation. © Crown copyright 2016.

A genome-wide survey of maternal and embryonic transcripts during Xenopus tropicalis development.

PubMed

Paranjpe, Sarita S; Jacobi, Ulrike G; van Heeringen, Simon J; Veenstra, Gert Jan C

2013-11-06

Dynamics of polyadenylation vs. deadenylation determine the fate of several developmentally regulated genes. Decay of a subset of maternal mRNAs and new transcription define the maternal-to-zygotic transition, but the full complement of polyadenylated and deadenylated coding and non-coding transcripts has not yet been assessed in Xenopus embryos. To analyze the dynamics and diversity of coding and non-coding transcripts during development, both polyadenylated mRNA and ribosomal RNA-depleted total RNA were harvested across six developmental stages and subjected to high throughput sequencing. The maternally loaded transcriptome is highly diverse and consists of both polyadenylated and deadenylated transcripts. Many maternal genes show peak expression in the oocyte and include genes which are known to be the key regulators of events like oocyte maturation and fertilization. Of all the transcripts that increase in abundance between early blastula and larval stages, about 30% of the embryonic genes are induced by fourfold or more by the late blastula stage and another 35% by late gastrulation. Using a gene model validation and discovery pipeline, we identified novel transcripts and putative long non-coding RNAs (lncRNA). These lncRNA transcripts were stringently selected as spliced transcripts generated from independent promoters, with limited coding potential and a codon bias characteristic of noncoding sequences. Many lncRNAs are conserved and expressed in a developmental stage-specific fashion. These data reveal dynamics of transcriptome polyadenylation and abundance and provides a high-confidence catalogue of novel and long non-coding RNAs.

Improvement of absolute positioning of precision stage based on cooperation the zero position pulse signal and incremental displacement signal

NASA Astrophysics Data System (ADS)

Wang, H. H.; Shi, Y. P.; Li, X. H.; Ni, K.; Zhou, Q.; Wang, X. H.

2018-03-01

In this paper, a scheme to measure the position of precision stages, with a high precision, is presented. The encoder is composed of a scale grating and a compact two-probe reading head, to read the zero position pulse signal and continuous incremental displacement signal. The scale grating contains different codes, multiple reference codes with different spacing superimposed onto the incremental grooves with an equal spacing structure. The codes of reference mask in the reading head is the same with the reference codes on the scale grating, and generate pulse signal to locate the reference position primarily when the reading head moves along the scale grating. After locating the reference position in a section by means of the pulse signal, the reference position can be located precisely with the amplitude of the incremental displacement signal. A kind of reference codes and scale grating were designed, and experimental results show that the primary precision of the design achieved is 1 μ m. The period of the incremental signal is 1μ m, and 1000/N nm precision can be achieved by subdivide the incremental signal in N times.

Nuclear Energy Advanced Modeling and Simulation Waste Integrated Performance and Safety Codes (NEAMS Waste IPSC).

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

Schultz, Peter Andrew

The objective of the U.S. Department of Energy Office of Nuclear Energy Advanced Modeling and Simulation Waste Integrated Performance and Safety Codes (NEAMS Waste IPSC) is to provide an integrated suite of computational modeling and simulation (M&S) capabilities to quantitatively assess the long-term performance of waste forms in the engineered and geologic environments of a radioactive-waste storage facility or disposal repository. Achieving the objective of modeling the performance of a disposal scenario requires describing processes involved in waste form degradation and radionuclide release at the subcontinuum scale, beginning with mechanistic descriptions of chemical reactions and chemical kinetics at the atomicmore » scale, and upscaling into effective, validated constitutive models for input to high-fidelity continuum scale codes for coupled multiphysics simulations of release and transport. Verification and validation (V&V) is required throughout the system to establish evidence-based metrics for the level of confidence in M&S codes and capabilities, including at the subcontiunuum scale and the constitutive models they inform or generate. This Report outlines the nature of the V&V challenge at the subcontinuum scale, an approach to incorporate V&V concepts into subcontinuum scale modeling and simulation (M&S), and a plan to incrementally incorporate effective V&V into subcontinuum scale M&S destined for use in the NEAMS Waste IPSC work flow to meet requirements of quantitative confidence in the constitutive models informed by subcontinuum scale phenomena.« less

Both coding exons of the c-myc gene contribute to its posttranscriptional regulation in the quiescent liver and regenerating liver and after protein synthesis inhibition.

PubMed Central

Lavenu, A; Pistoi, S; Pournin, S; Babinet, C; Morello, D

1995-01-01

In vivo, the steady-state level of c-myc mRNA is mainly controlled by posttranscriptional mechanisms. Using a panel of transgenic mice in which various versions of the human c-myc proto-oncogene were under the control of major histocompatibility complex H-2Kb class I regulatory sequences, we have shown that the 5' and the 3' noncoding sequences are dispensable for obtaining a regulated expression of the transgene in adult quiescent tissues, at the start of liver regeneration, and after inhibition of protein synthesis. These results indicated that the coding sequences were sufficient to ensure a regulated c-myc expression. In the present study, we have pursued this analysis with transgenes containing one or the other of the two c-myc coding exons either alone or in association with the c-myc 3' untranslated region. We demonstrate that each of the exons contains determinants which control c-myc mRNA expression. Moreover, we show that in the liver, c-myc exon 2 sequences are able to down-regulate an otherwise stable H-2K mRNA when embedded within it and to induce its transient accumulation after cycloheximide treatment and soon after liver ablation. Finally, the use of transgenes with different coding capacities has allowed us to postulate that the primary mRNA sequence itself and not c-Myc peptides is an important component of c-myc posttranscriptional regulation. PMID:7623834

Reactor Dosimetry Applications Using RAPTOR-M3G:. a New Parallel 3-D Radiation Transport Code

NASA Astrophysics Data System (ADS)

Longoni, Gianluca; Anderson, Stanwood L.

2009-08-01

The numerical solution of the Linearized Boltzmann Equation (LBE) via the Discrete Ordinates method (SN) requires extensive computational resources for large 3-D neutron and gamma transport applications due to the concurrent discretization of the angular, spatial, and energy domains. This paper will discuss the development RAPTOR-M3G (RApid Parallel Transport Of Radiation - Multiple 3D Geometries), a new 3-D parallel radiation transport code, and its application to the calculation of ex-vessel neutron dosimetry responses in the cavity of a commercial 2-loop Pressurized Water Reactor (PWR). RAPTOR-M3G is based domain decomposition algorithms, where the spatial and angular domains are allocated and processed on multi-processor computer architectures. As compared to traditional single-processor applications, this approach reduces the computational load as well as the memory requirement per processor, yielding an efficient solution methodology for large 3-D problems. Measured neutron dosimetry responses in the reactor cavity air gap will be compared to the RAPTOR-M3G predictions. This paper is organized as follows: Section 1 discusses the RAPTOR-M3G methodology; Section 2 describes the 2-loop PWR model and the numerical results obtained. Section 3 addresses the parallel performance of the code, and Section 4 concludes this paper with final remarks and future work.

Genome Analysis Reveals Interplay between 5′UTR Introns and Nuclear mRNA Export for Secretory and Mitochondrial Genes

PubMed Central

Cenik, Can; Chua, Hon Nian; Zhang, Hui; Tarnawsky, Stefan P.; Akef, Abdalla; Derti, Adnan; Tasan, Murat; Moore, Melissa J.; Palazzo, Alexander F.; Roth, Frederick P.

2011-01-01

In higher eukaryotes, messenger RNAs (mRNAs) are exported from the nucleus to the cytoplasm via factors deposited near the 5′ end of the transcript during splicing. The signal sequence coding region (SSCR) can support an alternative mRNA export (ALREX) pathway that does not require splicing. However, most SSCR–containing genes also have introns, so the interplay between these export mechanisms remains unclear. Here we support a model in which the furthest upstream element in a given transcript, be it an intron or an ALREX–promoting SSCR, dictates the mRNA export pathway used. We also experimentally demonstrate that nuclear-encoded mitochondrial genes can use the ALREX pathway. Thus, ALREX can also be supported by nucleotide signals within mitochondrial-targeting sequence coding regions (MSCRs). Finally, we identified and experimentally verified novel motifs associated with the ALREX pathway that are shared by both SSCRs and MSCRs. Our results show strong correlation between 5′ untranslated region (5′UTR) intron presence/absence and sequence features at the beginning of the coding region. They also suggest that genes encoding secretory and mitochondrial proteins share a common regulatory mechanism at the level of mRNA export. PMID:21533221

Connection anonymity analysis in coded-WDM PONs

NASA Astrophysics Data System (ADS)

Sue, Chuan-Ching

2008-04-01

A coded wavelength division multiplexing passive optical network (WDM PON) is presented for fiber to the home (FTTH) systems to protect against eavesdropping. The proposed scheme applies spectral amplitude coding (SAC) with a unipolar maximal-length sequence (M-sequence) code matrix to generate a specific signature address (coding) and to retrieve its matching address codeword (decoding) by exploiting the cyclic properties inherent in array waveguide grating (AWG) routers. In addition to ensuring the confidentiality of user data, the proposed coded-WDM scheme is also a suitable candidate for the physical layer with connection anonymity. Under the assumption that the eavesdropper applies a photo-detection strategy, it is shown that the coded WDM PON outperforms the conventional TDM PON and WDM PON schemes in terms of a higher degree of connection anonymity. Additionally, the proposed scheme allows the system operator to partition the optical network units (ONUs) into appropriate groups so as to achieve a better degree of anonymity.

The next-generation ESL continuum gyrokinetic edge code

NASA Astrophysics Data System (ADS)

Cohen, R.; Dorr, M.; Hittinger, J.; Rognlien, T.; Collela, P.; Martin, D.

2009-05-01

The Edge Simulation Laboratory (ESL) project is developing continuum-based approaches to kinetic simulation of edge plasmas. A new code is being developed, based on a conservative formulation and fourth-order discretization of full-f gyrokinetic equations in parallel-velocity, magnetic-moment coordinates. The code exploits mapped multiblock grids to deal with the geometric complexities of the edge region, and utilizes a new flux limiter [P. Colella and M.D. Sekora, JCP 227, 7069 (2008)] to suppress unphysical oscillations about discontinuities while maintaining high-order accuracy elsewhere. The code is just becoming operational; we will report initial tests for neoclassical orbit calculations in closed-flux surface and limiter (closed plus open flux surfaces) geometry. It is anticipated that the algorithmic refinements in the new code will address the slow numerical instability that was observed in some long simulations with the existing TEMPEST code. We will also discuss the status and plans for physics enhancements to the new code.

Dnmt2 mediates intergenerational transmission of paternally acquired metabolic disorders through sperm small non-coding RNAs.

PubMed

Zhang, Yunfang; Zhang, Xudong; Shi, Junchao; Tuorto, Francesca; Li, Xin; Liu, Yusheng; Liebers, Reinhard; Zhang, Liwen; Qu, Yongcun; Qian, Jingjing; Pahima, Maya; Liu, Ying; Yan, Menghong; Cao, Zhonghong; Lei, Xiaohua; Cao, Yujing; Peng, Hongying; Liu, Shichao; Wang, Yue; Zheng, Huili; Woolsey, Rebekah; Quilici, David; Zhai, Qiwei; Li, Lei; Zhou, Tong; Yan, Wei; Lyko, Frank; Zhang, Ying; Zhou, Qi; Duan, Enkui; Chen, Qi

2018-05-01

The discovery of RNAs (for example, messenger RNAs, non-coding RNAs) in sperm has opened the possibility that sperm may function by delivering additional paternal information aside from solely providing the DNA 1 . Increasing evidence now suggests that sperm small non-coding RNAs (sncRNAs) can mediate intergenerational transmission of paternally acquired phenotypes, including mental stress 2,3 and metabolic disorders 4-6 . How sperm sncRNAs encode paternal information remains unclear, but the mechanism may involve RNA modifications. Here we show that deletion of a mouse tRNA methyltransferase, DNMT2, abolished sperm sncRNA-mediated transmission of high-fat-diet-induced metabolic disorders to offspring. Dnmt2 deletion prevented the elevation of RNA modifications (m 5 C, m 2 G) in sperm 30-40 nt RNA fractions that are induced by a high-fat diet. Also, Dnmt2 deletion altered the sperm small RNA expression profile, including levels of tRNA-derived small RNAs and rRNA-derived small RNAs, which might be essential in composing a sperm RNA 'coding signature' that is needed for paternal epigenetic memory. Finally, we show that Dnmt2-mediated m 5 C contributes to the secondary structure and biological properties of sncRNAs, implicating sperm RNA modifications as an additional layer of paternal hereditary information.

Building an open-source robotic stereotaxic instrument.

PubMed

Coffey, Kevin R; Barker, David J; Ma, Sisi; West, Mark O

2013-10-29

This protocol includes the designs and software necessary to upgrade an existing stereotaxic instrument to a robotic (CNC) stereotaxic instrument for around $1,000 (excluding a drill), using industry standard stepper motors and CNC controlling software. Each axis has variable speed control and may be operated simultaneously or independently. The robot's flexibility and open coding system (g-code) make it capable of performing custom tasks that are not supported by commercial systems. Its applications include, but are not limited to, drilling holes, sharp edge craniotomies, skull thinning, and lowering electrodes or cannula. In order to expedite the writing of g-coding for simple surgeries, we have developed custom scripts that allow individuals to design a surgery with no knowledge of programming. However, for users to get the most out of the motorized stereotax, it would be beneficial to be knowledgeable in mathematical programming and G-Coding (simple programming for CNC machining). The recommended drill speed is greater than 40,000 rpm. The stepper motor resolution is 1.8°/Step, geared to 0.346°/Step. A standard stereotax has a resolution of 2.88 μm/step. The maximum recommended cutting speed is 500 μm/sec. The maximum recommended jogging speed is 3,500 μm/sec. The maximum recommended drill bit size is HP 2.

Collaborative Research: Simulation of Beam-Electron Cloud Interactions in Circular Accelerators Using Plasma Models

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

Katsouleas, Thomas; Decyk, Viktor

Final Report for grant DE-FG02-06ER54888, "Simulation of Beam-Electron Cloud Interactions in Circular Accelerators Using Plasma Models" Viktor K. Decyk, University of California, Los Angeles Los Angeles, CA 90095-1547 The primary goal of this collaborative proposal was to modify the code QuickPIC and apply it to study the long-time stability of beam propagation in low density electron clouds present in circular accelerators. The UCLA contribution to this collaborative proposal was in supporting the development of the pipelining scheme for the QuickPIC code, which extended the parallel scaling of this code by two orders of magnitude. The USC work was as describedmore » here the PhD research for Ms. Bing Feng, lead author in reference 2 below, who performed the research at USC under the guidance of the PI Tom Katsouleas and the collaboration of Dr. Decyk The QuickPIC code [1] is a multi-scale Particle-in-Cell (PIC) code. The outer 3D code contains a beam which propagates through a long region of plasma and evolves slowly. The plasma response to this beam is modeled by slices of a 2D plasma code. This plasma response then is fed back to the beam code, and the process repeats. The pipelining is based on the observation that once the beam has passed a 2D slice, its response can be fed back to the beam immediately without waiting for the beam to pass all the other slices. Thus independent blocks of 2D slices from different time steps can be running simultaneously. The major difficulty was when particles at the edges needed to communicate with other blocks. Two versions of the pipelining scheme were developed, for the the full quasi-static code and the other for the basic quasi-static code used by this e-cloud proposal. Details of the pipelining scheme were published in [2]. The new version of QuickPIC was able to run with more than 1,000 processors, and was successfully applied in modeling e-clouds by our collaborators in this proposal [3-8]. Jean-Luc Vay at Lawrence Berkeley National Lab later implemented a similar basic quasistatic scheme including pipelining in the code WARP [9] and found good to very good quantitative agreement between the two codes in modeling e-clouds. References [1] C. Huang, V. K. Decyk, C. Ren, M. Zhou, W. Lu, W. B. Mori, J. H. Cooley, T. M. Antonsen, Jr., and T. Katsouleas, "QUICKPIC: A highly efficient particle-in-cell code for modeling wakefield acceleration in plasmas," J. Computational Phys. 217, 658 (2006). [2] B. Feng, C. Huang, V. K. Decyk, W. B. Mori, P. Muggli, and T. Katsouleas, "Enhancing parallel quasi-static particle-in-cell simulations with a pipelining algorithm," J. Computational Phys, 228, 5430 (2009). [3] C. Huang, V. K. Decyk, M. Zhou, W. Lu, W. B. Mori, J. H. Cooley, T. M. Antonsen, Jr., and B. Feng, T. Katsouleas, J. Vieira, and L. O. Silva, "QUICKPIC: A highly efficient fully parallelized PIC code for plasma-based acceleration," Proc. of the SciDAC 2006 Conf., Denver, Colorado, June, 2006 [Journal of Physics: Conference Series, W. M. Tang, Editor, vol. 46, Institute of Physics, Bristol and Philadelphia, 2006], p. 190. [4] B. Feng, C. Huang, V. Decyk, W. B. Mori, T. Katsouleas, P. Muggli, "Enhancing Plasma Wakefield and E-cloud Simulation Performance Using a Pipelining Algorithm," Proc. 12th Workshop on Advanced Accelerator Concepts, Lake Geneva, WI, July, 2006, p. 201 [AIP Conf. Proceedings, vol. 877, Melville, NY, 2006]. [5] B. Feng, P. Muggli, T. Katsouleas, V. Decyk, C. Huang, and W. Mori, "Long Time Electron Cloud Instability Simulation Using QuickPIC with Pipelining Algorithm," Proc. of the 2007 Particle Accelerator Conference, Albuquerque, NM, June, 2007, p. 3615. [6] B. Feng, C. Huang, V. Decyk, W. B. Mori, G. H. Hoffstaetter, P. Muggli, T. Katsouleas, "Simulation of Electron Cloud Effects on Electron Beam at ERL with Pipelined QuickPIC," Proc. 13th Workshop on Advanced Accelerator Concepts, Santa Cruz, CA, July-August, 2008, p. 340 [AIP Conf. Proceedings, vol. 1086, Melville, NY, 2008]. [7] B. Feng, C. Huang, V. K. Decyk, W. B. Mori, P. Muggli, and T. Katsouleas, "Enhancing parallel quasi-static particle-in-cell simulations with a pipelining algorithm," J. Computational Phys, 228, 5430 (2009). [8] C. Huang, W. An, V. K. Decyk, W. Lu, W. B. Mori, F. S. Tsung, M. Tzoufras, S. Morshed, T. Antonsen, B. Feng, T. Katsouleas, R., A. Fonseca, S. F. Martins, J. Vieira, L. O. Silva, E. Esarey, C. G. R. Geddes, W. P. Leemans, E. Cormier-Michel, J.-L. Vay, D. L. Bruhwiler, B. Cowan, J. R. Cary, and K. Paul, "Recent results and future challenges for large scale particleion- cell simulations of plasma-based accelerator concepts," Proc. of the SciDAC 2009 Conf., San Diego, CA, June, 2009 [Journal of Physics: Conference Series, vol. 180, Institute of Physics, Bristol and Philadelphia, 2009], p. 012005. [9] J.-L. Vay, C. M. Celata, M. A. Furman, G. Penn, M. Venturini, D. P. Grote, and K. G. Sonnad, ?Update on Electron-Cloud Simulations Using the Package WARP-POSINST.? Proc. of the 2009 Particle Accelerator Conference PAC09, Vancouver, Canada, June, 2009, paper FR5RFP078.« less

Author Correction: Recognition of RNA N6-methyladenosine by IGF2BP proteins enhances mRNA stability and translation.

PubMed

Huang, Huilin; Weng, Hengyou; Sun, Wenju; Qin, Xi; Shi, Hailing; Wu, Huizhe; Zhao, Boxuan Simen; Mesquita, Ana; Liu, Chang; Yuan, Celvie L; Hu, Yueh-Chiang; Hüttelmaier, Stefan; Skibbe, Jennifer R; Su, Rui; Deng, Xiaolan; Dong, Lei; Sun, Miao; Li, Chenying; Nachtergaele, Sigrid; Wang, Yungui; Hu, Chao; Ferchen, Kyle; Greis, Kenneth D; Jiang, Xi; Wei, Minjie; Qu, Lianghu; Guan, Jun-Lin; He, Chuan; Yang, Jianhua; Chen, Jianjun

2018-06-07

In the version of this Article originally published, the authors incorrectly listed an accession code as GES90642. The correct code is GSE90642 . This has now been amended in all online versions of the Article.

mPUMA: a computational approach to microbiota analysis by de novo assembly of operational taxonomic units based on protein-coding barcode sequences.

PubMed

Links, Matthew G; Chaban, Bonnie; Hemmingsen, Sean M; Muirhead, Kevin; Hill, Janet E

2013-08-15

Formation of operational taxonomic units (OTU) is a common approach to data aggregation in microbial ecology studies based on amplification and sequencing of individual gene targets. The de novo assembly of OTU sequences has been recently demonstrated as an alternative to widely used clustering methods, providing robust information from experimental data alone, without any reliance on an external reference database. Here we introduce mPUMA (microbial Profiling Using Metagenomic Assembly, http://mpuma.sourceforge.net), a software package for identification and analysis of protein-coding barcode sequence data. It was developed originally for Cpn60 universal target sequences (also known as GroEL or Hsp60). Using an unattended process that is independent of external reference sequences, mPUMA forms OTUs by DNA sequence assembly and is capable of tracking OTU abundance. mPUMA processes microbial profiles both in terms of the direct DNA sequence as well as in the translated amino acid sequence for protein coding barcodes. By forming OTUs and calculating abundance through an assembly approach, mPUMA is capable of generating inputs for several popular microbiota analysis tools. Using SFF data from sequencing of a synthetic community of Cpn60 sequences derived from the human vaginal microbiome, we demonstrate that mPUMA can faithfully reconstruct all expected OTU sequences and produce compositional profiles consistent with actual community structure. mPUMA enables analysis of microbial communities while empowering the discovery of novel organisms through OTU assembly.

Defragged Binary I Ching Genetic Code Chromosomes Compared to Nirenberg’s and Transformed into Rotating 2D Circles and Squares and into a 3D 100% Symmetrical Tetrahedron Coupled to a Functional One to Discern Start From Non-Start Methionines through a Stella Octangula

PubMed Central

Castro-Chavez, Fernando

2012-01-01

Background Three binary representations of the genetic code according to the ancient I Ching of Fu-Xi will be presented, depending on their defragging capabilities by pairing based on three biochemical properties of the nucleic acids: H-bonds, Purine/Pyrimidine rings, and the Keto-enol/Amino-imino tautomerism, yielding the last pair a 32/32 single-strand self-annealed genetic code and I Ching tables. Methods Our working tool is the ancient binary I Ching's resulting genetic code chromosomes defragged by vertical and by horizontal pairing, reverse engineered into non-binaries of 2D rotating 4×4×4 circles and 8×8 squares and into one 3D 100% symmetrical 16×4 tetrahedron coupled to a functional tetrahedron with apical signaling and central hydrophobicity (codon formula: 4[1(1)+1(3)+1(4)+4(2)]; 5:5, 6:6 in man) forming a stella octangula, and compared to Nirenberg's 16×4 codon table (1965) pairing the first two nucleotides of the 64 codons in axis y. Results One horizontal and one vertical defragging had the start Met at the center. Two, both horizontal and vertical pairings produced two pairs of 2×8×4 genetic code chromosomes naturally arranged (M and I), rearranged by semi-introversion of central purines or pyrimidines (M' and I') and by clustering hydrophobic amino acids; their quasi-identity was disrupted by amino acids with odd codons (Met and Tyr pairing to Ile and TGA Stop); in all instances, the 64-grid 90° rotational ability was restored. Conclusions We defragged three I Ching representations of the genetic code while emphasizing Nirenberg's historical finding. The synthetic genetic code chromosomes obtained reflect the protective strategy of enzymes with a similar function, having both humans and mammals a biased G-C dominance of three H-bonds in the third nucleotide of their most used codons per amino acid, as seen in one chromosome of the i, M and M' genetic codes, while a two H-bond A-T dominance was found in their complementary chromosome, as seen in invertebrates and plants. The reverse engineering of chromosome I' into 2D rotating circles and squares was undertaken, yielding a 100% symmetrical 3D geometry which was coupled to a previously obtained genetic code tetrahedron in order to differentiate the start methionine from the methionine that is acting as a codifying non-start codon. PMID:23431415

[Long non-coding RNAs in the pathophysiology of atherosclerosis].

PubMed

Novak, Jan; Vašků, Julie Bienertová; Souček, Miroslav

2018-01-01

The human genome contains about 22 000 protein-coding genes that are transcribed to an even larger amount of messenger RNAs (mRNA). Interestingly, the results of the project ENCODE from 2012 show, that despite up to 90 % of our genome being actively transcribed, protein-coding mRNAs make up only 2-3 % of the total amount of the transcribed RNA. The rest of RNA transcripts is not translated to proteins and that is why they are referred to as "non-coding RNAs". Earlier the non-coding RNA was considered "the dark matter of genome", or "the junk", whose genes has accumulated in our DNA during the course of evolution. Today we already know that non-coding RNAs fulfil a variety of regulatory functions in our body - they intervene into epigenetic processes from chromatin remodelling to histone methylation, or into the transcription process itself, or even post-transcription processes. Long non-coding RNAs (lncRNA) are one of the classes of non-coding RNAs that have more than 200 nucleotides in length (non-coding RNAs with less than 200 nucleotides in length are called small non-coding RNAs). lncRNAs represent a widely varied and large group of molecules with diverse regulatory functions. We can identify them in all thinkable cell types or tissues, or even in an extracellular space, which includes blood, specifically plasma. Their levels change during the course of organogenesis, they are specific to different tissues and their changes also occur along with the development of different illnesses, including atherosclerosis. This review article aims to present lncRNAs problematics in general and then focuses on some of their specific representatives in relation to the process of atherosclerosis (i.e. we describe lncRNA involvement in the biology of endothelial cells, vascular smooth muscle cells or immune cells), and we further describe possible clinical potential of lncRNA, whether in diagnostics or therapy of atherosclerosis and its clinical manifestations.Key words: atherosclerosis - lincRNA - lncRNA - MALAT - MIAT.

75 FR 3197 - Tri-County Advisory Committee Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2010-01-20

..., 2010, from 5 p.m. until 8 p.m. ADDRESSES: The meeting will be held at the USDA building located 1002.... Myers, Designated Federal Official. [FR Doc. 2010-812 Filed 1-19-10; 8:45 am] BILLING CODE 3410-11-M ...

Orbit determination using real tracking data from FY3C-GNOS

NASA Astrophysics Data System (ADS)

Xiong, Chao; Lu, Chuanfang; Zhu, Jun; Ding, Huoping

2017-08-01

China is currently developing the BeiDou Navigation Satellite System, also known as BDS. The nominal constellation of BDS (regional), which had been able to provide preliminary regional positioning and navigation functions, was composed of fourteen satellites, including 5 GEO, 5 IGSO and 4 MEO satellites, and was realized by the end of 2013. Global navigation satellite system occultation sounder (GNOS) on board the Fengyun3C (FY3C) satellite, which is the first BDS/GPS compatible radio occultation (RO) sounder in the world, was launched on 23 September 2013. The GNOS instrument is capable of tracking up to 6 BeiDou satellites and more than 8 GPS satellites. We first present a quality analysis using 1-week onboard BDS/GPS measurements collected by GNOS. Satellite visibility, multipath combination and the ratio of cycle slips are analyzed. The analysis of satellite visibility shows that for one week the BDS receiver can track up to 6 healthy satellites. The analysis of multipath combinations (MPC) suggests more multipath present for BDS than GPS for the CA code (B1 MPC is 0.597 m, L1 MPC is 0.326 m), but less multipath for the P code (B2 MPC is 0.421 m, L2 MPC is 0.673 m). More cycle slips occur for the BDS than for the GPS receiver as shown by the ratio of total satellites/cycle slips observed over a 24 h period. Both the maximum value and average of the ratio of cycle slips based on BDS measurements is 72/50.29, which is smaller than 368/278.71 based on GPS measurements. Second, the results of reduced dynamic orbit determination using BDS/GPS code and phase measurements, standalone BDS SPP (Single Point Positioning) kinematic solution and real-time orbit determination using BDS/GPS code measurements are presented and analyzed. Using an overlap analysis, the orbit consistency of FY3C-GNOS is about 3.80 cm. The precision of BDS only solutions is about 22 cm. The precision of FY3C-GNOS orbit with the Helmert variance component estimation are improved slightly after the BDS observations are added for one week (October 10-16, 2013). In the three-dimensional direction, the orbit precision is respectively improved by 0.31 cm. BDS code observations already allow a standalone positioning with RMS accuracy of at least 22 m using BDS broadcast ephemeris, while the accuracy is at least 5 m using BDS precise ephemeris. The standard deviations of differences of real-time orbit determination with the Dynamic Model Compensation using BDS/GPS, GPS, and BDS code measurements are 1.24 m, 1.27 m and 6.67 m in three-dimensional direction, respectively. It can slightly improve convergence time for real-time orbit determination by 17 s after the BDS observations are added. And it can also slightly improve the accuracy of real-time orbit determination by 0.03 m. The results obtained in this paper are already rather promising.

Localization of the mRNA for the dopamine D sub 2 receptor in the rat brain by in situ hybridization histochemistry

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

Mengod, G.; Martinez-Mir, M.I.; Vilaro, M.T.

1989-11-01

{sup 32}P-labeled oligonucleotides derived from the coding region of rat dopamine D{sub 2} receptor cDNA were used as probes to localize cells in the rat brain that contain the mRNA coding for this receptor by using in situ hybridization histochemistry. The highest level of hybridization was found in the intermediate lobe of the pituitary gland. High mRNA content was observed in the anterior lobe of the pituitary gland, the nuclei caudate-putamen and accumbens, and the olfactory tubercle. Lower levels were seen in the substantia nigra pars compacta and the ventral tegmental area, as well as in the lateral mammillary body.more » In these areas the distribution was comparable to that of the dopamine D{sub 2} receptor binding sites as visualized by autoradiography using ({sup 3}H)SDZ 205-502 as a ligand. However, in some areas such as the olfactory bulb, neocortex, hippocampus, superior colliculus, and cerebellum, D{sub 2} receptors have been visualized but no significant hybridization signal could be detected. The mRNA coding for these receptors in these areas could be contained in cells outside those brain regions, be different from the one recognized by our probes, or be present at levels below the detection limits of our procedure. The possibility of visualizing and quantifying the mRNA coding for dopamine D{sub 2} receptor at the microscopic level will yield more information about the in vivo regulation of the synthesis of these receptor and their alteration following selective lesions or drug treatments.« less

Implementation of generalized quantum measurements: Superadditive quantum coding, accessible information extraction, and classical capacity limit

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

Takeoka, Masahiro; Fujiwara, Mikio; Mizuno, Jun

2004-05-01

Quantum-information theory predicts that when the transmission resource is doubled in quantum channels, the amount of information transmitted can be increased more than twice by quantum-channel coding technique, whereas the increase is at most twice in classical information theory. This remarkable feature, the superadditive quantum-coding gain, can be implemented by appropriate choices of code words and corresponding quantum decoding which requires a collective quantum measurement. Recently, an experimental demonstration was reported [M. Fujiwara et al., Phys. Rev. Lett. 90, 167906 (2003)]. The purpose of this paper is to describe our experiment in detail. Particularly, a design strategy of quantum-collective decodingmore » in physical quantum circuits is emphasized. We also address the practical implication of the gain on communication performance by introducing the quantum-classical hybrid coding scheme. We show how the superadditive quantum-coding gain, even in a small code length, can boost the communication performance of conventional coding techniques.« less

Exploiting the cannibalistic traits of Reed-Solomon codes

NASA Technical Reports Server (NTRS)

Collins, O.

1993-01-01

In Reed-Solomon codes and all other maximum distance separable codes, there is an intrinsic relationship between the size of the symbols in a codeword and the length of the codeword. Increasing the number of symbols in a codeword to improve the efficiency of the coding system thus requires using a larger set of symbols. However, long Reed-Solomon codes are difficult to implement and many communications or storage systems cannot easily accommodate an increased symbol size, e.g., M-ary frequency shift keying (FSK) and photon-counting pulse-position modulation demand a fixed symbol size. A technique for sharing redundancy among many different Reed-Solomon codewords to achieve the efficiency attainable in long Reed-Solomon codes without increasing the symbol size is described. Techniques both for calculating the performance of these new codes and for determining their encoder and decoder complexities is presented. These complexities are usually found to be substantially lower than conventional Reed-Solomon codes of similar performance.

New RADIOM algorithm using inverse EOS

NASA Astrophysics Data System (ADS)

Busquet, Michel; Sokolov, Igor; Klapisch, Marcel

2012-10-01

The RADIOM model, [1-2], allows one to implement non-LTE atomic physics with a very low extra CPU cost. Although originally heuristic, RADIOM has been physically justified [3] and some accounting for auto-ionization has been included [2]. RADIOM defines an ionization temperature Tz derived from electronic density and actual electronic temperature Te. LTE databases are then queried for properties at Tz and NLTE values are derived from them. Some hydro-codes (like FAST at NRL, Ramis' MULTI, or the CRASH code at U.Mich) use inverse EOS starting from the total internal energy Etot and returning the temperature. In the NLTE case, inverse EOS requires to solve implicit relations between Te, Tz, and Etot. We shall describe these relations and an efficient solver successively implemented in some of our codes. [4pt] [1] M. Busquet, Radiation dependent ionization model for laser-created plasmas, Ph. Fluids B 5, 4191 (1993).[0pt] [2] M. Busquet, D. Colombant, M. Klapisch, D. Fyfe, J. Gardner. Improvements to the RADIOM non-LTE model, HEDP 5, 270 (2009).[0pt] [3] M.Busquet, Onset of pseudo-thermal equilibrium within configurations and super-configurations, JQSRT 99, 131 (2006)

A Combinatorial Geometry Computer Description of the XR311 Vehicle

DTIC Science & Technology

1978-04-01

cards or magnetic tape. The shot line output of the GRID subroutine of the GIFT code is also stored on magnetic tape for future vulnera- bility...descriptions as processed by the Geometric Information For Targets ( GIFT )2 computer code. This report documents the COM-GEOM target description for all...72, March 1974. ’L.W. Bains and M.J. Reisinger, "The GIFT Code User Manual, VOL 1, Introduction and Input Requirements, " Ballistic Research

Computer Description of the M561 Utility Truck

DTIC Science & Technology

1984-10-01

GIFT Computer Code Sustainabi1ity Predictions for Army Spare Components Requirements for Combat (SPARC) 20. ABSTRACT (Caotfmia «a NWM eitim ft...used as input to the GIFT computer code to generate target vulnerability data. DO FORM V JAM 73 1473 EDITION OF I NOV 65 IS OBSOLETE Unclass i f ied...anaLyiis requires input from the Geometric Information for Targets ( GIFT ) ’ computer code. This report documents the combina- torial geometry (Com-Geom

An NTP Stratum-One Server Farm Fed By IEEE-1588

DTIC Science & Technology

2010-01-01

Serial Time Code Formats,” U.S. Army White Sands Missile Range, N.M. [11] J. Eidson , 2005, “IEEE-1588 Standard for a Precision Clock Synchronization ... synchronized to its Master Clocks via IRIG-B time code on a low- frequency RF distribution system. The availability of Precise Time Protocol (PTP, IEEE...forwarding back to the requestor. The farm NTP servers are synchronized to the USNO Master Clocks using IRIG-B time code. The current standard NTP

Flow Instability Tests for a Particle Bed Reactor Nuclear Thermal Rocket Fuel Element

DTIC Science & Technology

1993-05-01

2.0 with GWBASIC or higher (DOS 5.0 was installed on the machine). Since the source code was written in BASIC, it was easy to make modifications...8217 AVAILABILITY STATEMENT 12b. DISTRIBUTION CODE Approved for Public Release IAW 190-1 Distribution Unlimited MICHAEL M. BRICKER, SMSgt, USAF Chief...Administration 13. ABSTRACT (Maximum 200 words) i.14. SUBJECT TERMS 15. NUMBER OF PAGES 339 16. PRICE CODE 󈧕. SECURITY CLASSIFICATION 18. SECURITY

TacSat-4 COMMx, Advanced SATCOM Experiment

DTIC Science & Technology

2009-01-01

Schein, M. T. Marley, C. T. Apland, R. E. Lee, B. D . Williams, E. D . Schaefer, S. R. Vernon, P . D . Schwartz , B. L. Kantsiper, E. J. Finnegan;The...Lee, B. D . Williams, E. D . Schaefer, P . D . Schwartz, R. Denissen, B. Kantsiper, E. J. Finnegan; The Johns Hopkins University Applied Physics...Mission Ops Lead, NRL Code 8233 Bob Kuzma, TacSat-4 Payload Controller, NRL Code 8242 Bob Skalitzky, TacSat-4 Power Systems, NRL Code 8244 Doug Bentz

Decoding the function of nuclear long non-coding RNAs.

PubMed

Chen, Ling-Ling; Carmichael, Gordon G

2010-06-01

Long non-coding RNAs (lncRNAs) are mRNA-like, non-protein-coding RNAs that are pervasively transcribed throughout eukaryotic genomes. Rather than silently accumulating in the nucleus, many of these are now known or suspected to play important roles in nuclear architecture or in the regulation of gene expression. In this review, we highlight some recent progress in how lncRNAs regulate these important nuclear processes at the molecular level. Copyright 2010 Elsevier Ltd. All rights reserved.

Long non-coding RNA expression patterns in lung tissues of chronic cigarette smoke induced COPD mouse model.

PubMed

Zhang, Haiyun; Sun, Dejun; Li, Defu; Zheng, Zeguang; Xu, Jingyi; Liang, Xue; Zhang, Chenting; Wang, Sheng; Wang, Jian; Lu, Wenju

2018-05-15

Long non-coding RNAs (lncRNAs) have critical regulatory roles in protein-coding gene expression. Aberrant expression profiles of lncRNAs have been observed in various human diseases. In this study, we investigated transcriptome profiles in lung tissues of chronic cigarette smoke (CS)-induced COPD mouse model. We found that 109 lncRNAs and 260 mRNAs were significantly differential expressed in lungs of chronic CS-induced COPD mouse model compared with control animals. GO and KEGG analyses indicated that differentially expressed lncRNAs associated protein-coding genes were mainly involved in protein processing of endoplasmic reticulum pathway, and taurine and hypotaurine metabolism pathway. The combination of high throughput data analysis and the results of qRT-PCR validation in lungs of chronic CS-induced COPD mouse model, 16HBE cells with CSE treatment and PBMC from patients with COPD revealed that NR_102714 and its associated protein-coding gene UCHL1 might be involved in the development of COPD both in mouse and human. In conclusion, our study demonstrated that aberrant expression profiles of lncRNAs and mRNAs existed in lungs of chronic CS-induced COPD mouse model. From animal models perspective, these results might provide further clues to investigate biological functions of lncRNAs and their potential target protein-coding genes in the pathogenesis of COPD.

Variations in the non-coding transcriptome as a driver of inter-strain divergence and physiological adaptation in bacteria.

PubMed

Kopf, Matthias; Klähn, Stephan; Scholz, Ingeborg; Hess, Wolfgang R; Voß, Björn

2015-04-22

In all studied organisms, a substantial portion of the transcriptome consists of non-coding RNAs that frequently execute regulatory functions. Here, we have compared the primary transcriptomes of the cyanobacteria Synechocystis sp. PCC 6714 and PCC 6803 under 10 different conditions. These strains share 2854 protein-coding genes and a 16S rRNA identity of 99.4%, indicating their close relatedness. Conserved major transcriptional start sites (TSSs) give rise to non-coding transcripts within the sigB gene, from the 5'UTRs of cmpA and isiA, and 168 loci in antisense orientation. Distinct differences include single nucleotide polymorphisms rendering promoters inactive in one of the strains, e.g., for cmpR and for the asRNA PsbA2R. Based on the genome-wide mapped location, regulation and classification of TSSs, non-coding transcripts were identified as the most dynamic component of the transcriptome. We identified a class of mRNAs that originate by read-through from an sRNA that accumulates as a discrete and abundant transcript while also serving as the 5'UTR. Such an sRNA/mRNA structure, which we name 'actuaton', represents another way for bacteria to remodel their transcriptional network. Our findings support the hypothesis that variations in the non-coding transcriptome constitute a major evolutionary element of inter-strain divergence and capability for physiological adaptation.

Mechanisms and consequences of alternative polyadenylation

PubMed Central

Di Giammartino, Dafne Campigli; Nishida, Kensei; Manley, James L.

2011-01-01

Summary Alternative polyadenylation (APA) is emerging as a widespread mechanism used to control gene expression. Like alternative splicing, usage of alternative poly(A) sites allows a single gene to encode multiple mRNA transcripts. In some cases, this changes the mRNA coding potential; in other cases, the code remains unchanged but the 3’UTR length is altered, influencing the fate of mRNAs in several ways, for example, by altering the availability of RNA binding protein sites and microRNA binding sites. The mechansims governing both global and gene-specific APA are only starting to be deciphered. Here we review what is known about these mechanisms and the functional consequences of alternative polyadenlyation. PMID:21925375

A Tale of Two RNAs during Viral Infection: How Viruses Antagonize mRNAs and Small Non-Coding RNAs in The Host Cell

PubMed Central

Herbert, Kristina M.; Nag, Anita

2016-01-01

Viral infection initiates an array of changes in host gene expression. Many viruses dampen host protein expression and attempt to evade the host anti-viral defense machinery. Host gene expression is suppressed at several stages of host messenger RNA (mRNA) formation including selective degradation of translationally competent messenger RNAs. Besides mRNAs, host cells also express a variety of noncoding RNAs, including small RNAs, that may also be subject to inhibition upon viral infection. In this review we focused on different ways viruses antagonize coding and noncoding RNAs in the host cell to its advantage. PMID:27271653

48 CFR 204.7202-1 - CAGE codes.

Code of Federal Regulations, 2010 CFR

2010-10-01

....39-M, Federal Logistics Information System (FLIS) Procedures Manual, prescribe use of CAGE codes. (b..., Federal Center, 74 Washington Avenue, North, Battle Creek, MI 49017-3084. Their telephone number is: toll-free 1-888-352-9333); (B) The on-line access to the CAGE file through the Defense Logistics Information...

Method for measuring the focal spot size of an x-ray tube using a coded aperture mask and a digital detector.

PubMed

Russo, Paolo; Mettivier, Giovanni

2011-04-01

The goal of this study is to evaluate a new method based on a coded aperture mask combined with a digital x-ray imaging detector for measurements of the focal spot sizes of diagnostic x-ray tubes. Common techniques for focal spot size measurements employ a pinhole camera, a slit camera, or a star resolution pattern. The coded aperture mask is a radiation collimator consisting of a large number of apertures disposed on a predetermined grid in an array, through which the radiation source is imaged onto a digital x-ray detector. The method of the coded mask camera allows one to obtain a one-shot accurate and direct measurement of the two dimensions of the focal spot (like that for a pinhole camera) but at a low tube loading (like that for a slit camera). A large number of small apertures in the coded mask operate as a "multipinhole" with greater efficiency than a single pinhole, but keeping the resolution of a single pinhole. X-ray images result from the multiplexed output on the detector image plane of such a multiple aperture array, and the image of the source is digitally reconstructed with a deconvolution algorithm. Images of the focal spot of a laboratory x-ray tube (W anode: 35-80 kVp; focal spot size of 0.04 mm) were acquired at different geometrical magnifications with two different types of digital detector (a photon counting hybrid silicon pixel detector with 0.055 mm pitch and a flat panel CMOS digital detector with 0.05 mm pitch) using a high resolution coded mask (type no-two-holes-touching modified uniformly redundant array) with 480 0.07 mm apertures, designed for imaging at energies below 35 keV. Measurements with a slit camera were performed for comparison. A test with a pinhole camera and with the coded mask on a computed radiography mammography unit with 0.3 mm focal spot was also carried out. The full width at half maximum focal spot sizes were obtained from the line profiles of the decoded images, showing a focal spot of 0.120 mm x 0.105 mm at 35 kVp and M = 6.1, with a detector entrance exposure as low as 1.82 mR (0.125 mA s tube load). The slit camera indicated a focal spot of 0.112 mm x 0.104 mm at 35 kVp and M = 3.15, with an exposure at the detector of 72 mR. Focal spot measurements with the coded mask could be performed up to 80 kVp. Tolerance to angular misalignment with the reference beam up to 7 degrees in in-plane rotations and 1 degrees deg in out-of-plane rotations was observed. The axial distance of the focal spot from the coded mask could also be determined. It is possible to determine the beam intensity via measurement of the intensity of the decoded image of the focal spot and via a calibration procedure. Coded aperture masks coupled to a digital area detector produce precise determinations of the focal spot of an x-ray tube with reduced tube loading and measurement time, coupled to a large tolerance in the alignment of the mask.

SU-F-BRD-02: Application of ARCHERRT-- A GPU-Based Monte Carlo Dose Engine for Radiation Therapy -- to Tomotherapy and Patient-Independent IMRT

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

Su, L; Du, X; Liu, T

Purpose: As a module of ARCHER -- Accelerated Radiation-transport Computations in Heterogeneous EnviRonments, ARCHER{sub RT} is designed for RadioTherapy (RT) dose calculation. This paper describes the application of ARCHERRT on patient-dependent TomoTherapy and patient-independent IMRT. It also conducts a 'fair' comparison of different GPUs and multicore CPU. Methods: The source input used for patient-dependent TomoTherapy is phase space file (PSF) generated from optimized plan. For patient-independent IMRT, the open filed PSF is used for different cases. The intensity modulation is simulated by fluence map. The GEANT4 code is used as benchmark. DVH and gamma index test are employed to evaluatemore » the accuracy of ARCHER{sub RT} code. Some previous studies reported misleading speedups by comparing GPU code with serial CPU code. To perform a fairer comparison, we write multi-thread code with OpenMP to fully exploit computing potential of CPU. The hardware involved in this study are a 6-core Intel E5-2620 CPU and 6 NVIDIA M2090 GPUs, a K20 GPU and a K40 GPU. Results: Dosimetric results from ARCHER{sub RT} and GEANT4 show good agreement. The 2%/2mm gamma test pass rates for different clinical cases are 97.2% to 99.7%. A single M2090 GPU needs 50~79 seconds for the simulation to achieve a statistical error of 1% in the PTV. The K40 card is about 1.7∼1.8 times faster than M2090 card. Using 6 M2090 card, the simulation can be finished in about 10 seconds. For comparison, Intel E5-2620 needs 507∼879 seconds for the same simulation. Conclusion: We successfully applied ARCHER{sub RT} to Tomotherapy and patient-independent IMRT, and conducted a fair comparison between GPU and CPU performance. The ARCHER{sub RT} code is both accurate and efficient and may be used towards clinical applications.« less

Axisymmetric Tandem Mirrors: Stabilization and Confinement Studies

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

Post, R.F.; Fowler, T.K.; Bulmer, R.

2005-01-15

The 'Kinetic Stabilizer' has been proposed as a means of MHD stabilizing an axisymmetric tandem mirror system. The K-S concept is based on theoretical studies by Ryutov, confirmed experimentally in the Gas Dynamic Trap experiment in Novosibirsk. In the K-S beams of ions are directed into the end of an 'expander' region outside the outer mirror of a tandem mirror. These ions, slowed, stagnated, and reflected as they move up the magnetic gradient, produce a low-density stabilizing plasma.At the Lawrence Livermore National Laboratory we have been conducting theoretical and computational studies of the K-S Tandem Mirror. These studies have employedmore » a low-beta code written especially to analyze the beam injection/stabilization process,and a new code SYMTRAN (by Hua and Fowler)that solves the coupled radial and axial particle and energy transport in a K-S T-M. Also, a 'legacy' MHD stability code, FLORA, has been upgraded and employed to benchmark the injection/stabilization code and to extend its results to high beta values.The FLORA code studies so far have confirmed the effectiveness of the K-S in stabilizing high-beta (40%) plasmas with stabilizer plasmas the peak pressures of which are several orders of magnitude smaller than those of the confined plasma.Also the SYMTRAN code has shown D-T plasma ignition from alpha particle energy deposition in T-M regimes with strong end plugging.Our studies have confirmed the viability of the K-S T-M concept with respect to MHD stability and radial and axial confinement. We are continuing these studies in order to optimize the parameters and to examine means for the stabilization of possible residual instability modes, such as drift modes and 'trapped-particle' modes. These modes may in principle be controlled by tailoring the stabilizer plasma distribution and/or the radial potential distribution.In the paper the results to date of our studies are summarized and projected to scope out possible fusion-power versions of the K-S T-M.« less

Error control techniques for satellite and space communications

NASA Technical Reports Server (NTRS)

Costello, Daniel J., Jr.

1989-01-01

Two aspects of the work for NASA are examined: the construction of multi-dimensional phase modulation trellis codes and a performance analysis of these codes. A complete list is contained of all the best trellis codes for use with phase modulation. LxMPSK signal constellations are included for M = 4, 8, and 16 and L = 1, 2, 3, and 4. Spectral efficiencies range from 1 bit/channel symbol (equivalent to rate 1/2 coded QPSK) to 3.75 bits/channel symbol (equivalent to 15/16 coded 16-PSK). The parity check polynomials, rotational invariance properties, free distance, path multiplicities, and coding gains are given for all codes. These codes are considered to be the best candidates for implementation of a high speed decoder for satellite transmission. The design of a hardware decoder for one of these codes, viz., the 16-state 3x8-PSK code with free distance 4.0 and coding gain 3.75 dB is discussed. An exhaustive simulation study of the multi-dimensional phase modulation trellis codes is contained. This study was motivated by the fact that coding gains quoted for almost all codes found in literature are in fact only asymptotic coding gains, i.e., the coding gain at very high signal to noise ratios (SNRs) or very low BER. These asymptotic coding gains can be obtained directly from a knowledge of the free distance of the code. On the other hand, real coding gains at BERs in the range of 10(exp -2) to 10(exp -6), where these codes are most likely to operate in a concatenated system, must be done by simulation.

A&M. Plot plan of administration and A&M areas. Shows relationships ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. Plot plan of administration and A&M areas. Shows relationships among administration buildings and to A&M building (TAN-607), railroad turntable. Ralph M. Parsons 902-2&3-ANP-U 3. Date: December 1952. INEEL index code no. 032-0100-00-693-106690 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

A-to-I editing of coding and non-coding RNAs by ADARs

PubMed Central

Nishikura, Kazuko

2016-01-01

Adenosine deaminases acting on RNA (ADARs) convert adenosine to inosine in double-stranded RNA. This A-to-I editing occurs not only in protein-coding regions of mRNAs, but also frequently in non-coding regions that contain inverted Alu repeats. Editing of coding sequences can result in the expression of functionally altered proteins that are not encoded in the genome, whereas the significance of Alu editing remains largely unknown. Certain microRNA (miRNA) precursors are also edited, leading to reduced expression or altered function of mature miRNAs. Conversely, recent studies indicate that ADAR1 forms a complex with Dicer to promote miRNA processing, revealing a new function of ADAR1 in the regulation of RNA interference. PMID:26648264

The "periodic table" of the genetic code: A new way to look at the code and the decoding process.

PubMed

Komar, Anton A

2016-01-01

Henri Grosjean and Eric Westhof recently presented an information-rich, alternative view of the genetic code, which takes into account current knowledge of the decoding process, including the complex nature of interactions between mRNA, tRNA and rRNA that take place during protein synthesis on the ribosome, and it also better reflects the evolution of the code. The new asymmetrical circular genetic code has a number of advantages over the traditional codon table and the previous circular diagrams (with a symmetrical/clockwise arrangement of the U, C, A, G bases). Most importantly, all sequence co-variances can be visualized and explained based on the internal logic of the thermodynamics of codon-anticodon interactions.

Interleukin-1 homologues IL-1F7b and IL-18 contain functional mRNA instability elements within the coding region responsive to lipopolysaccharide

PubMed Central

2004-01-01

IL-1F7b, a novel homologue of the IL-1 (interleukin 1) family, was discovered by computational cloning. We demonstrated that IL-1F7b shares critical amino acid residues with IL-18 and binds to the IL-18-binding protein enhancing its ability to inhibit IL-18-induced interferon-γ. We also showed that low levels of IL-1F7b are constitutively present intracellularly in human blood monocytes. In this study, we demonstrate that similar to IL-18, both mRNA and intracellular protein expression of IL-1F7b are up-regulated by LPS (lipopolysaccharide) in human monocytes. In stable transfectants of murine RAW264.7 macrophage cells, there was no IL-1F7b protein expression despite a highly active CMV promoter. We found that IL-1F7b-specific mRNA was rapidly degraded in transfected cells, via a 3′-UTR (untranslated region)-independent control of IL-1F7b transcript stability. After LPS stimulation, there was a rapid transient increase in IL-1F7b-specific mRNA and concomitant protein levels. Using sequence alignment, we found a conserved ten-nucleotide homology box within the open reading frame of IL-F7b, which is flanking the coding region instability elements of some selective genes. In-frame deletion of downstream exon 5 from the full-length IL-1F7b cDNA markedly increased the levels of IL-1F7b mRNA. A similar coding region element is located in IL-18. When transfected into RAW264.7 macrophages, IL-18 mRNA was also unstable unless treated with LPS. These results indicate that both IL-1F7b and IL-18 mRNA contain functional instability determinants within their coding region, which influence mRNA decay as a novel mechanism to regulate the expression of IL-1 family members. PMID:15046617

Role of a Dual Splicing and Amino Acid Code in Myopia, Cone Dysfunction and Cone Dystrophy Associated with L/M Opsin Interchange Mutations

PubMed Central

Greenwald, Scott H.; Kuchenbecker, James A.; Rowlan, Jessica S.; Neitz, Jay; Neitz, Maureen

2017-01-01

Purpose Human long (L) and middle (M) wavelength cone opsin genes are highly variable due to intermixing. Two L/M cone opsin interchange mutants, designated LIAVA and LVAVA, are associated with clinical diagnoses, including red-green color vision deficiency, blue cone monochromacy, cone degeneration, myopia, and Bornholm Eye Disease. Because the protein and splicing codes are carried by the same nucleotides, intermixing L and M genes can cause disease by affecting protein structure and splicing. Methods Genetically engineered mice were created to allow investigation of the consequences of altered protein structure alone, and the effects on cone morphology were examined using immunohistochemistry. In humans and mice, cone function was evaluated using the electroretinogram (ERG) under L/M- or short (S) wavelength cone isolating conditions. Effects of LIAVA and LVAVA genes on splicing were evaluated using a minigene assay. Results ERGs and histology in mice revealed protein toxicity for the LVAVA but not for the LIAVA opsin. Minigene assays showed that the dominant messenger RNA (mRNA) was aberrantly spliced for both variants; however, the LVAVA gene produced a small but significant amount of full-length mRNA and LVAVA subjects had correspondingly reduced ERG amplitudes. In contrast, the LIAVA subject had no L/M cone ERG. Conclusions Dramatic differences in phenotype can result from seemingly minor differences in genotype through divergent effects on the dual amino acid and splicing codes. Translational Relevance The mechanism by which individual mutations contribute to clinical phenotypes provides valuable information for diagnosis and prognosis of vision disorders associated with L/M interchange mutations, and it informs strategies for developing therapies. PMID:28516000

Universal Decoder for PPM of any Order

NASA Technical Reports Server (NTRS)

Moision, Bruce E.

2010-01-01

A recently developed algorithm for demodulation and decoding of a pulse-position- modulation (PPM) signal is suitable as a basis for designing a single hardware decoding apparatus to be capable of handling any PPM order. Hence, this algorithm offers advantages of greater flexibility and lower cost, in comparison with prior such algorithms, which necessitate the use of a distinct hardware implementation for each PPM order. In addition, in comparison with the prior algorithms, the present algorithm entails less complexity in decoding at large orders. An unavoidably lengthy presentation of background information, including definitions of terms, is prerequisite to a meaningful summary of this development. As an aid to understanding, the figure illustrates the relevant processes of coding, modulation, propagation, demodulation, and decoding. An M-ary PPM signal has M time slots per symbol period. A pulse (signifying 1) is transmitted during one of the time slots; no pulse (signifying 0) is transmitted during the other time slots. The information intended to be conveyed from the transmitting end to the receiving end of a radio or optical communication channel is a K-bit vector u. This vector is encoded by an (N,K) binary error-correcting code, producing an N-bit vector a. In turn, the vector a is subdivided into blocks of m = log2(M) bits and each such block is mapped to an M-ary PPM symbol. The resultant coding/modulation scheme can be regarded as equivalent to a nonlinear binary code. The binary vector of PPM symbols, x is transmitted over a Poisson channel, such that there is obtained, at the receiver, a Poisson-distributed photon count characterized by a mean background count nb during no-pulse time slots and a mean signal-plus-background count of ns+nb during a pulse time slot. In the receiver, demodulation of the signal is effected in an iterative soft decoding process that involves consideration of relationships among photon counts and conditional likelihoods of m-bit vectors of coded bits. Inasmuch as the likelihoods of all the m-bit vectors of coded bits mapping to the same PPM symbol are correlated, the best performance is obtained when the joint mbit conditional likelihoods are utilized. Unfortunately, the complexity of decoding, measured in the number of operations per bit, grows exponentially with m, and can thus become prohibitively expensive for large PPM orders. For a system required to handle multiple PPM orders, the cost is even higher because it is necessary to have separate decoding hardware for each order. This concludes the prerequisite background information. In the present algorithm, the decoding process as described above is modified by, among other things, introduction of an lbit marginalizer sub-algorithm. The term "l-bit marginalizer" signifies that instead of m-bit conditional likelihoods, the decoder computes l-bit conditional likelihoods, where l is fixed. Fixing l, regardless of the value of m, makes it possible to use a single hardware implementation for any PPM order. One could minimize the decoding complexity and obtain an especially simple design by fixing l at 1, but this would entail some loss of performance. An intermediate solution is to fix l at some value, greater than 1, that may be less than or greater than m. This solution makes it possible to obtain the desired flexibility to handle any PPM order while compromising between complexity and loss of performance.

Multidimensional incremental parsing for universal source coding.

PubMed

Bae, Soo Hyun; Juang, Biing-Hwang

2008-10-01

A multidimensional incremental parsing algorithm (MDIP) for multidimensional discrete sources, as a generalization of the Lempel-Ziv coding algorithm, is investigated. It consists of three essential component schemes, maximum decimation matching, hierarchical structure of multidimensional source coding, and dictionary augmentation. As a counterpart of the longest match search in the Lempel-Ziv algorithm, two classes of maximum decimation matching are studied. Also, an underlying behavior of the dictionary augmentation scheme for estimating the source statistics is examined. For an m-dimensional source, m augmentative patches are appended into the dictionary at each coding epoch, thus requiring the transmission of a substantial amount of information to the decoder. The property of the hierarchical structure of the source coding algorithm resolves this issue by successively incorporating lower dimensional coding procedures in the scheme. In regard to universal lossy source coders, we propose two distortion functions, the local average distortion and the local minimax distortion with a set of threshold levels for each source symbol. For performance evaluation, we implemented three image compression algorithms based upon the MDIP; one is lossless and the others are lossy. The lossless image compression algorithm does not perform better than the Lempel-Ziv-Welch coding, but experimentally shows efficiency in capturing the source structure. The two lossy image compression algorithms are implemented using the two distortion functions, respectively. The algorithm based on the local average distortion is efficient at minimizing the signal distortion, but the images by the one with the local minimax distortion have a good perceptual fidelity among other compression algorithms. Our insights inspire future research on feature extraction of multidimensional discrete sources.

Reducing the genetic code induces massive rearrangement of the proteome

PubMed Central

O’Donoghue, Patrick; Prat, Laure; Kucklick, Martin; Schäfer, Johannes G.; Riedel, Katharina; Rinehart, Jesse; Söll, Dieter; Heinemann, Ilka U.

2014-01-01

Expanding the genetic code is an important aim of synthetic biology, but some organisms developed naturally expanded genetic codes long ago over the course of evolution. Less than 1% of all sequenced genomes encode an operon that reassigns the stop codon UAG to pyrrolysine (Pyl), a genetic code variant that results from the biosynthesis of Pyl-tRNAPyl. To understand the selective advantage of genetically encoding more than 20 amino acids, we constructed a markerless tRNAPyl deletion strain of Methanosarcina acetivorans (ΔpylT) that cannot decode UAG as Pyl or grow on trimethylamine. Phenotypic defects in the ΔpylT strain were evident in minimal medium containing methanol. Proteomic analyses of wild type (WT) M. acetivorans and ΔpylT cells identified 841 proteins from >7,000 significant peptides detected by MS/MS. Protein production from UAG-containing mRNAs was verified for 19 proteins. Translation of UAG codons was verified by MS/MS for eight proteins, including identification of a Pyl residue in PylB, which catalyzes the first step of Pyl biosynthesis. Deletion of tRNAPyl globally altered the proteome, leading to >300 differentially abundant proteins. Reduction of the genetic code from 21 to 20 amino acids led to significant down-regulation in translation initiation factors, amino acid metabolism, and methanogenesis from methanol, which was offset by a compensatory (100-fold) up-regulation in dimethyl sulfide metabolic enzymes. The data show how a natural proteome adapts to genetic code reduction and indicate that the selective value of an expanded genetic code is related to carbon source range and metabolic efficiency. PMID:25404328

Efficient convolutional sparse coding

DOEpatents

Wohlberg, Brendt

2017-06-20

Computationally efficient algorithms may be applied for fast dictionary learning solving the convolutional sparse coding problem in the Fourier domain. More specifically, efficient convolutional sparse coding may be derived within an alternating direction method of multipliers (ADMM) framework that utilizes fast Fourier transforms (FFT) to solve the main linear system in the frequency domain. Such algorithms may enable a significant reduction in computational cost over conventional approaches by implementing a linear solver for the most critical and computationally expensive component of the conventional iterative algorithm. The theoretical computational cost of the algorithm may be reduced from O(M.sup.3N) to O(MN log N), where N is the dimensionality of the data and M is the number of elements in the dictionary. This significant improvement in efficiency may greatly increase the range of problems that can practically be addressed via convolutional sparse representations.

SAW correlator spread spectrum receiver

DOEpatents

Brocato, Robert W

2014-04-01

A surface acoustic wave (SAW) correlator spread-spectrum (SS) receiver is disclosed which utilizes a first demodulation stage with a chip length n and a second demodulation stage with a chip length m to decode a transmitted SS signal having a code length l=n.times.m which can be very long (e.g. up to 2000 chips or more). The first demodulation stage utilizes a pair of SAW correlators which demodulate the SS signal to generate an appropriate code sequence at an intermediate frequency which can then be fed into the second demodulation stage which can be formed from another SAW correlator, or by a digital correlator. A compound SAW correlator comprising two input transducers and a single output transducer is also disclosed which can be used to form the SAW correlator SS receiver, or for use in processing long code length signals.

NHRC (Naval Health Research Center) Report 1983.

DTIC Science & Technology

1983-01-01

Department, Code 40 225-7395/6 ’f".." Bldg 315 Performance Enhancement Program of Code 60 225-6671 NTC Bldg 272, Physical Fitness Program of Code 60 (AV... SPORT m |RESEARCH&R DEVELOPMENT Post Office Box 05122 6 December 1983 I COMMAND SAN DIEGO, CAIFORNIA 921)5-9174 I COMhMANDING0FOP I %- I. Organizatiom...Research Center (NHRC) *as assigned by the Secretary of the navy, and the functions to be performed to accomplish the mission, as assigned by the

High performance and highly reliable Raman-based distributed temperature sensors based on correlation-coded OTDR and multimode graded-index fibers

NASA Astrophysics Data System (ADS)

Soto, M. A.; Sahu, P. K.; Faralli, S.; Sacchi, G.; Bolognini, G.; Di Pasquale, F.; Nebendahl, B.; Rueck, C.

2007-07-01

The performance of distributed temperature sensor systems based on spontaneous Raman scattering and coded OTDR are investigated. The evaluated DTS system, which is based on correlation coding, uses graded-index multimode fibers, operates over short-to-medium distances (up to 8 km) with high spatial and temperature resolutions (better than 1 m and 0.3 K at 4 km distance with 10 min measuring time) and high repeatability even throughout a wide temperature range.

Calculation of two-dimensional inlet flow fields in a supersonic free stream: Program documentation and test cases

NASA Technical Reports Server (NTRS)

Biringen, S. H.; Mcmillan, O. J.

1980-01-01

The use of a computer code for the calculation of two dimensional inlet flow fields in a supersonic free stream and a nonorthogonal mesh-generation code are illustrated by specific examples. Input, output, and program operation and use are given and explained for the case of supercritical inlet operation at a subdesign Mach number (M Mach free stream = 2.09) for an isentropic-compression, drooped-cowl inlet. Source listings of the computer codes are also provided.

Computer Aided Design of Polyhedron Solids to Model Air in Com-Geom Descriptions

DTIC Science & Technology

1983-08-01

34The GIFT Code User Manual, Volume I, Introduction and Input Requirements," BRL Report No. 1802, July 1975 (Unclassified). (AD B0060Z7LK 2G...Kuehl, L. Bain and M. Reisinger, "The GIFT Code User Manual, Volume II, The Output Options," BRL Report ARBRL-TR-02189, September 1979...is generated from the GIFT code under op- tion XSECT. This option produces plot files which define cross- sectional views of the COM-GEOM

Three-dimensional time domain model of lightning including corona effects

NASA Technical Reports Server (NTRS)

Podgorski, Andrew S.

1991-01-01

A new 3-D lightning model that incorporates the effect of corona is described for the first time. The new model is based on a Thin Wire Time Domain Lightning (TWTDL) Code developed previously. The TWTDL Code was verified during the 1985 and 1986 lightning seasons by the measurements conducted at the 553 m CN Tower in Toronto, Ontario. The inclusion of corona in the TWTDL code allowed study of the corona effects on the lightning current parameters and the associated electric field parameters.

Combining Satellite Ocean Color Imagery and Circulation Modeling to Forecast Bio-Optical Properties: Comparison of Models and Advection Schemes

DTIC Science & Technology

2008-10-01

Director NCST E. R. Franchi , 7000 ^^M^4^k ro£— 4// 2^/s y Public Affairs (Unclassified/ Unlimited Only), Code 7030 4 Division, Code Author, Code...from the Navy Operational Global Atmospheric Prediction System (NOGAPS, Hogan and Rosmond, 1991) and assimilates data via the Navy Coupled Ocean...forecasts using Global , Atlantic, Gulf of Mexico, and northern Gulf of Mexico configurations of HYCOM. Proceedings, Ocean Optics XIX, Castelvecchio Pascoli

Comparisons of Upwelling and Relaxation Events in the Monterey Bay Area

DTIC Science & Technology

2010-06-22

of this paper (has ) (has never x ) been classified. 1226 Office of Counsel.Code 1008.3 ADOR/Director NCST E. R. Franchi , 7000 4AX Public...and Code (Principal Author) Autfiorta) $f)uj/m/i Office of Counsel,Code 1008.3 ADOR/Director NCST E. R. Franchi , 7000 Public Affairs...formulation for horizontal mixing [Martin, 2000]. [12] The NCOM global model [Rhodes et al, 2002; Barron et al, 2004] has 1/8° horizontal resolution and the

Wall interference assessment and corrections

NASA Technical Reports Server (NTRS)

Newman, P. A.; Kemp, W. B., Jr.; Garriz, J. A.

1989-01-01

Wind tunnel wall interference assessment and correction (WIAC) concepts, applications, and typical results are discussed in terms of several nonlinear transonic codes and one panel method code developed for and being implemented at NASA-Langley. Contrasts between 2-D and 3-D transonic testing factors which affect WIAC procedures are illustrated using airfoil data from the 0.3 m Transonic Cryogenic Tunnel and Pathfinder 1 data from the National Transonic Facility. Initial results from the 3-D WIAC codes are encouraging; research on and implementation of WIAC concepts continue.

26 CFR 31.3306(m)-1 - American vessel and aircraft.

Code of Federal Regulations, 2011 CFR

2011-04-01

... 26 Internal Revenue 15 2011-04-01 2011-04-01 false American vessel and aircraft. 31.3306(m)-1 Section 31.3306(m)-1 Internal Revenue INTERNAL REVENUE SERVICE, DEPARTMENT OF THE TREASURY (CONTINUED... SOURCE Federal Unemployment Tax Act (Chapter 23, Internal Revenue Code of 1954) § 31.3306(m)-1 American...

26 CFR 31.3306(m)-1 - American vessel and aircraft.

Code of Federal Regulations, 2010 CFR

2010-04-01

... 26 Internal Revenue 15 2010-04-01 2010-04-01 false American vessel and aircraft. 31.3306(m)-1 Section 31.3306(m)-1 Internal Revenue INTERNAL REVENUE SERVICE, DEPARTMENT OF THE TREASURY (CONTINUED... SOURCE Federal Unemployment Tax Act (Chapter 23, Internal Revenue Code of 1954) § 31.3306(m)-1 American...

A Bayesian approach to estimating variance components within a multivariate generalizability theory framework.

PubMed

Jiang, Zhehan; Skorupski, William

2017-12-12

In many behavioral research areas, multivariate generalizability theory (mG theory) has been typically used to investigate the reliability of certain multidimensional assessments. However, traditional mG-theory estimation-namely, using frequentist approaches-has limits, leading researchers to fail to take full advantage of the information that mG theory can offer regarding the reliability of measurements. Alternatively, Bayesian methods provide more information than frequentist approaches can offer. This article presents instructional guidelines on how to implement mG-theory analyses in a Bayesian framework; in particular, BUGS code is presented to fit commonly seen designs from mG theory, including single-facet designs, two-facet crossed designs, and two-facet nested designs. In addition to concrete examples that are closely related to the selected designs and the corresponding BUGS code, a simulated dataset is provided to demonstrate the utility and advantages of the Bayesian approach. This article is intended to serve as a tutorial reference for applied researchers and methodologists conducting mG-theory studies.

Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements.

PubMed

Secco, David; Wang, Chuang; Shou, Huixia; Schultz, Matthew D; Chiarenza, Serge; Nussaume, Laurent; Ecker, Joseph R; Whelan, James; Lister, Ryan

2015-07-21

Cytosine DNA methylation (mC) is a genome modification that can regulate the expression of coding and non-coding genetic elements. However, little is known about the involvement of mC in response to environmental cues. Using whole genome bisulfite sequencing to assess the spatio-temporal dynamics of mC in rice grown under phosphate starvation and recovery conditions, we identified widespread phosphate starvation-induced changes in mC, preferentially localized in transposable elements (TEs) close to highly induced genes. These changes in mC occurred after changes in nearby gene transcription, were mostly DCL3a-independent, and could partially be propagated through mitosis, however no evidence of meiotic transmission was observed. Similar analyses performed in Arabidopsis revealed a very limited effect of phosphate starvation on mC, suggesting a species-specific mechanism. Overall, this suggests that TEs in proximity to environmentally induced genes are silenced via hypermethylation, and establishes the temporal hierarchy of transcriptional and epigenomic changes in response to stress.

Reversible RNA adenosine methylation in biological regulation

PubMed Central

Jia, Guifang; Fu, Ye; He, Chuan

2012-01-01

N6-methyladenosine (m6A) is a ubiquitous modification in messenger RNA (mRNA) and other RNAs across most eukaryotes. For many years, however, the exact functions of m6A were not clearly understood. The discovery that the fat mass and obesity associated protein (FTO) is an m6A demethylase indicates that this modification is reversible and dynamically regulated, suggesting it has regulatory roles. In addition, it has been shown that m6A affects cell fate decisions in yeast and plant development. Recent affinity-based m6A profiling in mouse and human cells further showed that this modification is a widespread mark in coding and non-coding RNA transcripts and is likely dynamically regulated throughout developmental processes. Therefore, reversible RNA methylation, analogous to reversible DNA and histone modifications, may affect gene expression and cell fate decisions by modulating multiple RNA-related cellular pathways, which potentially provides rapid responses to various cellular and environmental signals, including energy and nutrient availability in mammals. PMID:23218460

Development of Integrated Modular Avionics Application Based on Simulink and XtratuM

NASA Astrophysics Data System (ADS)

Fons-Albert, Borja; Usach-Molina, Hector; Vila-Carbo, Joan; Crespo-Lorente, Alfons

2013-08-01

This paper presents an integral approach for designing avionics applications that meets the requirements for software development and execution of this application domain. Software design follows the Model-Based design process and is performed in Simulink. This approach allows easy and quick testbench development and helps satisfying DO-178B requirements through the use of proper tools. The software execution platform is based on XtratuM, a minimal bare-metal hypervisor designed in our research group. XtratuM provides support for IMA-SP (Integrated Modular Avionics for Space) architectures. This approach allows the code generation of a Simulink model to be executed on top of Lithos as XtratuM partition. Lithos is a ARINC-653 compliant RTOS for XtratuM. The paper concentrates in how to smoothly port Simulink designs to XtratuM solving problems like application partitioning, automatic code generation, real-time tasking, interfacing, and others. This process is illustrated with an autopilot design test using a flight simulator.

The AGORA High-resolution Galaxy Simulations Comparison Project

NASA Astrophysics Data System (ADS)

Kim, Ji-hoon; Abel, Tom; Agertz, Oscar; Bryan, Greg L.; Ceverino, Daniel; Christensen, Charlotte; Conroy, Charlie; Dekel, Avishai; Gnedin, Nickolay Y.; Goldbaum, Nathan J.; Guedes, Javiera; Hahn, Oliver; Hobbs, Alexander; Hopkins, Philip F.; Hummels, Cameron B.; Iannuzzi, Francesca; Keres, Dusan; Klypin, Anatoly; Kravtsov, Andrey V.; Krumholz, Mark R.; Kuhlen, Michael; Leitner, Samuel N.; Madau, Piero; Mayer, Lucio; Moody, Christopher E.; Nagamine, Kentaro; Norman, Michael L.; Onorbe, Jose; O'Shea, Brian W.; Pillepich, Annalisa; Primack, Joel R.; Quinn, Thomas; Read, Justin I.; Robertson, Brant E.; Rocha, Miguel; Rudd, Douglas H.; Shen, Sijing; Smith, Britton D.; Szalay, Alexander S.; Teyssier, Romain; Thompson, Robert; Todoroki, Keita; Turk, Matthew J.; Wadsley, James W.; Wise, John H.; Zolotov, Adi; AGORA Collaboration29,the

2014-01-01

We introduce the Assembling Galaxies Of Resolved Anatomy (AGORA) project, a comprehensive numerical study of well-resolved galaxies within the ΛCDM cosmology. Cosmological hydrodynamic simulations with force resolutions of ~100 proper pc or better will be run with a variety of code platforms to follow the hierarchical growth, star formation history, morphological transformation, and the cycle of baryons in and out of eight galaxies with halo masses M vir ~= 1010, 1011, 1012, and 1013 M ⊙ at z = 0 and two different ("violent" and "quiescent") assembly histories. The numerical techniques and implementations used in this project include the smoothed particle hydrodynamics codes GADGET and GASOLINE, and the adaptive mesh refinement codes ART, ENZO, and RAMSES. The codes share common initial conditions and common astrophysics packages including UV background, metal-dependent radiative cooling, metal and energy yields of supernovae, and stellar initial mass function. These are described in detail in the present paper. Subgrid star formation and feedback prescriptions will be tuned to provide a realistic interstellar and circumgalactic medium using a non-cosmological disk galaxy simulation. Cosmological runs will be systematically compared with each other using a common analysis toolkit and validated against observations to verify that the solutions are robust—i.e., that the astrophysical assumptions are responsible for any success, rather than artifacts of particular implementations. The goals of the AGORA project are, broadly speaking, to raise the realism and predictive power of galaxy simulations and the understanding of the feedback processes that regulate galaxy "metabolism." The initial conditions for the AGORA galaxies as well as simulation outputs at various epochs will be made publicly available to the community. The proof-of-concept dark-matter-only test of the formation of a galactic halo with a z = 0 mass of M vir ~= 1.7 × 1011 M ⊙ by nine different versions of the participating codes is also presented to validate the infrastructure of the project.

Preparing for the Downsizing and Closure of Letterman Army Medical Center: A Case Study

DTIC Science & Technology

1991-06-17

and closure of Lieutenant Colonel F. William Brown believed in the value of this project, encouraged , and guided me during conceptualization , design...issues dirocled Sn the RW docnent repository were coded within this framwork . The muiaion category was coded 1 if primary or secmonay care waM affected

76 FR 61354 - Agency Information Collection Activities; Submission to OMB for Review and Approval; Comment...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-10-04

..., Air and Radiation Docket, Mail code: 28221T, 1200 Pennsylvania Ave., NW., Washington, DC 20460, and (2...: Jose M. Solar, Office of Transportation and Air Quality, mail code 6406J, Environmental Protection...-343-2801; e-mail address: Solar[email protected] . SUPPLEMENTARY INFORMATION: EPA has submitted the...

The Facial Expression Coding System (FACES): Development, Validation, and Utility

ERIC Educational Resources Information Center

Kring, Ann M.; Sloan, Denise M.

2007-01-01

This article presents information on the development and validation of the Facial Expression Coding System (FACES; A. M. Kring & D. Sloan, 1991). Grounded in a dimensional model of emotion, FACES provides information on the valence (positive, negative) of facial expressive behavior. In 5 studies, reliability and validity data from 13 diverse…

Rate Control for Network-Coded Multipath Relaying with Time-Varying Connectivity

DTIC Science & Technology

2010-12-10

Armen Babikyan, Nathaniel M. Jones, Thomas H. Shake, and Andrew P. Worthen MIT Lincoln Laboratory 244 Wood Street Lexington, MA 02420 DDRE, 1777...delay U U U U SAR 11 Zach Sweet 781-981-5997 1 Rate Control for Network-Coded Multipath Relaying with Time-Varying Connectivity Brooke Shrader, Armen

Identification and characterization of long non-coding RNAs in rainbow trout eggs

USDA-ARS?s Scientific Manuscript database

Long non-coding RNAs (lncRNAs) are in general considered as a diverse class of transcripts longer than 200 nucleotides that structurally resemble mRNAs but do not encode proteins. Recent advances in RNA sequencing (RNA-Seq) and bioinformatics methods have provided an opportunity to indentify and ana...

Non-Uniform Cathode Emission Studies of a MIG Gun

NASA Astrophysics Data System (ADS)

Marchewka, C. D.; Shapiro, M. A.; Sirigiri, J. R.; Temkin, R. J.

2004-11-01

We present the initial results of the modeling of the effect of emission non-uniformity in 96 kV, 40 A Magnetron Injection Gun (MIG) of a 1.5 MW 110 GHz gyrotron using a 3D gun simulation code. The azimuthal emission nonuniformity can lead to increased mode competition and an overall decreased efficiency of the device [1]. The electron beam is modeled from the cathode to a downstream position where the velocity spread saturates using the AMAZE 3D suite of codes. After bench marking the results of the 3D code with 2D codes such as TRAK2D and EGUN, the emitter was modified to simulate asymmetric emission from the cathode to gain an understanding into the effects of inhomogeneous beam current density on the velocity spread and pitch factor of the electron beam. [1] G. S. Nusinovich, A.N. Vlasov, M. Botton, T. M. Antonsen, Jr., S. Cauffman, K. Felch, ``Effect of the azimuthal inhomogeneity of electron emission on gyrotron operation,'' Phys. Plasmas, vol. 8, no. 7, pp. 3473-3479, 2001

On fully three-dimensional resistive wall mode and feedback stabilization computationsa)

NASA Astrophysics Data System (ADS)

Strumberger, E.; Merkel, P.; Sempf, M.; Günter, S.

2008-05-01

Resistive walls, located close to the plasma boundary, reduce the growth rates of external kink modes to resistive time scales. For such slowly growing resistive wall modes, the stabilization by an active feedback system becomes feasible. The fully three-dimensional stability code STARWALL, and the feedback optimization code OPTIM have been developed [P. Merkel and M. Sempf, 21st IAEA Fusion Energy Conference 2006, Chengdu, China (International Atomic Energy Agency, Vienna, 2006, paper TH/P3-8] to compute the growth rates of resistive wall modes in the presence of nonaxisymmetric, multiply connected wall structures and to model the active feedback stabilization of these modes. In order to demonstrate the capabilities of the codes and to study the effect of the toroidal mode coupling caused by multiply connected wall structures, the codes are applied to test equilibria using the resistive wall structures currently under debate for ITER [M. Shimada et al., Nucl. Fusion 47, S1 (2007)] and ASDEX Upgrade [W. Köppendörfer et al., Proceedings of the 16th Symposium on Fusion Technology, London, 1990 (Elsevier, Amsterdam, 1991), Vol. 1, p. 208].

On fully three-dimensional resistive wall mode and feedback stabilization computations

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

Strumberger, E.; Merkel, P.; Sempf, M.

2008-05-15

Resistive walls, located close to the plasma boundary, reduce the growth rates of external kink modes to resistive time scales. For such slowly growing resistive wall modes, the stabilization by an active feedback system becomes feasible. The fully three-dimensional stability code STARWALL, and the feedback optimization code OPTIM have been developed [P. Merkel and M. Sempf, 21st IAEA Fusion Energy Conference 2006, Chengdu, China (International Atomic Energy Agency, Vienna, 2006, paper TH/P3-8] to compute the growth rates of resistive wall modes in the presence of nonaxisymmetric, multiply connected wall structures and to model the active feedback stabilization of these modes.more » In order to demonstrate the capabilities of the codes and to study the effect of the toroidal mode coupling caused by multiply connected wall structures, the codes are applied to test equilibria using the resistive wall structures currently under debate for ITER [M. Shimada et al., Nucl. Fusion 47, S1 (2007)] and ASDEX Upgrade [W. Koeppendoerfer et al., Proceedings of the 16th Symposium on Fusion Technology, London, 1990 (Elsevier, Amsterdam, 1991), Vol. 1, p. 208].« less

Surface reflectance retrieval from imaging spectrometer data using three atmospheric codes

NASA Astrophysics Data System (ADS)

Staenz, Karl; Williams, Daniel J.; Fedosejevs, Gunar; Teillet, Phil M.

1994-12-01

Surface reflectance retrieval from imaging spectrometer data has become important for quantitative information extraction in many application areas. In order to calculate surface reflectance from remotely measured radiance, radiative transfer codes play an important role for removal of the scattering and gaseous absorption effects of the atmosphere. The present study evaluates surface reflectances retrieved from airborne visible/infrared imaging spectrometer (AVIRIS) data using three radiative transfer codes: modified 5S (M5S), 6S, and MODTRAN2. Comparisons of the retrieved surface reflectance with ground-based reflectance were made for different target types such as asphalt, gravel, grass/soil mixture (soccer field), and water (Sooke Lake). The results indicate that the estimation of the atmospheric water vapor content is important for an accurate surface reflectance retrieval regardless of the radiative transfer code used. For the present atmospheric conditions, a difference of 0.1 in aerosol optical depth had little impact on the retrieved surface reflectance. The performance of MODTRAN2 is superior in the gas absorption regions compared to M5S and 6S.

Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay.

PubMed

Trypsteen, Wim; Mohammadi, Pejman; Van Hecke, Clarissa; Mestdagh, Pieter; Lefever, Steve; Saeys, Yvan; De Bleser, Pieter; Vandesompele, Jo; Ciuffi, Angela; Vandekerckhove, Linos; De Spiegelaere, Ward

2016-10-26

Studying the effects of HIV infection on the host transcriptome has typically focused on protein-coding genes. However, recent advances in the field of RNA sequencing revealed that long non-coding RNAs (lncRNAs) add an extensive additional layer to the cell's molecular network. Here, we performed transcriptome profiling throughout a primary HIV infection in vitro to investigate lncRNA expression at the different HIV replication cycle processes (reverse transcription, integration and particle production). Subsequently, guilt-by-association, transcription factor and co-expression analysis were performed to infer biological roles for the lncRNAs identified in the HIV-host interplay. Many lncRNAs were suggested to play a role in mechanisms relying on proteasomal and ubiquitination pathways, apoptosis, DNA damage responses and cell cycle regulation. Through transcription factor binding analysis, we found that lncRNAs display a distinct transcriptional regulation profile as compared to protein coding mRNAs, suggesting that mRNAs and lncRNAs are independently modulated. In addition, we identified five differentially expressed lncRNA-mRNA pairs with mRNA involvement in HIV pathogenesis with possible cis regulatory lncRNAs that control nearby mRNA expression and function. Altogether, the present study demonstrates that lncRNAs add a new dimension to the HIV-host interplay and should be further investigated as they may represent targets for controlling HIV replication.

JASMIN: Japanese-American study of muon interactions and neutron detection

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

Nakashima, Hiroshi; /JAEA, Ibaraki; Mokhov, N.V.

Experimental studies of shielding and radiation effects at Fermi National Accelerator Laboratory (FNAL) have been carried out under collaboration between FNAL and Japan, aiming at benchmarking of simulation codes and study of irradiation effects for upgrade and design of new high-energy accelerator facilities. The purposes of this collaboration are (1) acquisition of shielding data in a proton beam energy domain above 100GeV; (2) further evaluation of predictive accuracy of the PHITS and MARS codes; (3) modification of physics models and data in these codes if needed; (4) establishment of irradiation field for radiation effect tests; and (5) development of amore » code module for improved description of radiation effects. A series of experiments has been performed at the Pbar target station and NuMI facility, using irradiation of targets with 120 GeV protons for antiproton and neutrino production, as well as the M-test beam line (M-test) for measuring nuclear data and detector responses. Various nuclear and shielding data have been measured by activation methods with chemical separation techniques as well as by other detectors such as a Bonner ball counter. Analyses with the experimental data are in progress for benchmarking the PHITS and MARS15 codes. In this presentation recent activities and results are reviewed.« less

SECIS elements in the coding regions of selenoprotein transcripts are functional in higher eukaryotes

PubMed Central

Mix, Heiko; Lobanov, Alexey V.; Gladyshev, Vadim N.

2007-01-01

Expression of selenocysteine (Sec)-containing proteins requires the presence of a cis-acting mRNA structure, called selenocysteine insertion sequence (SECIS) element. In bacteria, this structure is located in the coding region immediately downstream of the Sec-encoding UGA codon, whereas in eukaryotes a completely different SECIS element has evolved in the 3′-untranslated region. Here, we report that SECIS elements in the coding regions of selenoprotein mRNAs support Sec insertion in higher eukaryotes. Comprehensive computational analysis of all available viral genomes revealed a SECIS element within the ORF of a naturally occurring selenoprotein homolog of glutathione peroxidase 4 in fowlpox virus. The fowlpox SECIS element supported Sec insertion when expressed in mammalian cells as part of the coding region of viral or mammalian selenoproteins. In addition, readthrough at UGA was observed when the viral SECIS element was located upstream of the Sec codon. We also demonstrate successful de novo design of a functional SECIS element in the coding region of a mammalian selenoprotein. Our data provide evidence that the location of the SECIS element in the untranslated region is not a functional necessity but rather is an evolutionary adaptation to enable a more efficient synthesis of selenoproteins. PMID:17169995

Modeling carbon production and transport during ELMs in DIII-D

NASA Astrophysics Data System (ADS)

Hogan, J.; Wade, M.; Coster, D.; Lasnier, C.

2004-11-01

Large-scale Type I ELM events could provide a significant C source in ITER, and C production rates depend on incident D flux density and surface temperature, quantities which can vary significantly during an ELM event. Recent progress on DIII-D has improved opportunities for code comparison. Fast time-scale measurements of divertor CIII evolution [1] and fast edge CER measurements of C profile evolution during low-density DIII-D LSN ELMy H-modes (type I) [2] have been modeled using the solps5.0/Eirene99 coupled edge code and time dependent thermal analysis codes. An ELM model based on characteristics of MHD peeling-ballooning modes reproduces the pedestal evolution. Qualitative agreement for the CIII evolution during an ELM event is found using the Roth et al annealing model for chemical sputtering and the sensitivity to other models is described. Significant ELM-to-ELM variations in observed maximum divertor target IR temperature during nominally identical ELMs are investigated with models for C emission from micron-scale dust particles. [1] M Groth, M Fenstermacher et al J Nucl Mater 2003, [2] M Wade, K Burrell et al PSI-16

A New Non-LTE Model based on Super Configurations

NASA Astrophysics Data System (ADS)

Bar-Shalom, A.; Klapisch, M.

1996-11-01

Non-LTE effects are vital for the simulation of radiation in hot plasmas involving even medium Z materials. However, the exceedingly large number of atomic energy levels forbids using a detailed collisional radiative model on-line in the hydrodynamic simulations. For this purpose, greatly simplified models are required. We implemented recently Busquet's model(M. Busquet, Phys. Fluids B, 5, 4191 (1993)) in NRL's RAD2D Hydro code in conservative form (M. Klapisch et al., Bull. Am. Phys. Soc., 40, 1806 (1995), and poster at this meeting.). This model is quick and the results make sense, but in the absence of precisely defined experiments, it is difficult to asses its accuracy. We present here a new collisional radiative model based on superconfigurations( A. Bar-Shalom, J. Oreg, J. F. Seely, U. Feldman, C. M. Brown, B. A. Hammel, R. W. Lee and C. A. Back, Phys. Rev. E, 52, 6686 (1995).), intended to be a benchmark for approximate models used in hydro-codes. It uses accurate rates from the HULLAC Code. Results for various elements will be presented and compared with RADIOM.

M3D-K Simulations of Beam-Driven Alfven Eigenmodes in ASDEX-U

NASA Astrophysics Data System (ADS)

Wang, Ge; Fu, Guoyong; Lauber, Philipp; Schneller, Mirjam

2013-10-01

Core-localized Alfven eigenmodes are often observed in neutral beam-heated plasma in ASDEX-U tokamak. In this work, hybrid simulations with the global kinetic/MHD hybrid code M3D-K have been carried out to investigate the linear stability and nonlinear dynamics of beam-driven Alfven eigenmodes using experimental parameters and profiles of an ASDEX-U discharge. The safety factor q profile is weakly reversed with minimum q value about qmin = 3.0. The simulation results show that the n = 3 mode transits from a reversed shear Alfven eigenmode (RSAE) to a core-localized toroidal Alfven eigenmode (TAE) as qmin drops from 3.0 to 2.79, consistent with results from the stability code NOVA as well as the experimental measurement. The M3D-K results are being compared with those of the linear gyrokinetic stability code LIGKA for benchmark. The simulation results will also be compared with the measured mode frequency and mode structure. This work was funded by the Max-Planck/Princeton Center for Plasma Physics.

Flyer Target Acceleration and Energy Transfer at its Collision with Massive Targets

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

Borodziuk, S.; Kasperczuk, A.; Pisarczyk, T.

2006-01-15

Numerical modelling was aimed at simulation of successive events resulting from interaction of laser beam-single and double targets. It was performed by means of the 2D Lagrangian hydrodynamics code ATLANT-HE. This code is based on one-fluid and two-temperature model of plasma with electron and ion heat conductivity considerations. The code has an advanced treatment of laser light propagation and absorption. This numerical modelling corresponds to the experiment, which was carried out with the use of the PALS facility. Two types of planar solid targets, i.e. single massive Al slabs and double targets consisting of 6 {mu}m thick Al foil andmore » Al slab were applied. The targets were irradiated by the iodine laser pulses of two wavelengths: 1.315 and 0.438 {mu}m. A pulse duration of 0.4 ns and a focal spot diameter of 250 {mu}m at a laser energy of 130 J were used. The numerical modelling allowed us to obtain a more detailed description of shock wave propagation and crater formation.« less

Engineering Translation in Mammalian Cell Factories to Increase Protein Yield: The Unexpected Use of Long Non-Coding SINEUP RNAs.

PubMed

Zucchelli, Silvia; Patrucco, Laura; Persichetti, Francesca; Gustincich, Stefano; Cotella, Diego

2016-01-01

Mammalian cells are an indispensable tool for the production of recombinant proteins in contexts where function depends on post-translational modifications. Among them, Chinese Hamster Ovary (CHO) cells are the primary factories for the production of therapeutic proteins, including monoclonal antibodies (MAbs). To improve expression and stability, several methodologies have been adopted, including methods based on media formulation, selective pressure and cell- or vector engineering. This review presents current approaches aimed at improving mammalian cell factories that are based on the enhancement of translation. Among well-established techniques (codon optimization and improvement of mRNA secondary structure), we describe SINEUPs, a family of antisense long non-coding RNAs that are able to increase translation of partially overlapping protein-coding mRNAs. By exploiting their modular structure, SINEUP molecules can be designed to target virtually any mRNA of interest, and thus to increase the production of secreted proteins. Thus, synthetic SINEUPs represent a new versatile tool to improve the production of secreted proteins in biomanufacturing processes.

Ability of thermochemical calculation to treat organic peroxides

NASA Astrophysics Data System (ADS)

Osmont, Antoine; Baudin, Gérard; Genetier, Marc

2017-06-01

Since 3 years, the CEA Gramat is developing a new thermochemical code, called SIAME, funded by DGA to help French defense industry at conceiving new explosives compositions. It enables the calculation of CJ detonation and deflagration points and combustion of explosives. The accuracy of the code has been checked on several compositions containing PETN, RDX, HMX, TNT, NTO. The error on the velocity of detonation is 3%. To enlarge the domain of validity of the code, organic peroxides have been considered. It is known that thermochemical simulation is in failure regarding compounds as simple as hydrogen peroxide. The computed velocity of detonation is 5720 m/s when shock planar impact gives 6150 m/s. The same discrepancy is found for TATP, with a calculated value at 5870 m/s when 5290 has been measured. Detonation velocity of TATP has been measured at two different densities. These velocities agree with other published values. A closer look at the enthalpy of formation of TATP has revealed that it comes from an article of 1932. Ab initio computations have given a totally different value, leading to better agreement with experiment.

Two-Fluid Extensions to the M3D CDX-U Validation Study

NASA Astrophysics Data System (ADS)

Breslau, J.; Strauss, H.; Sugiyama, L.

2005-10-01

As part of a cross-code verification and validation effort, both the M3D code [1] and the NIMROD code [2] have qualitatively reproduced the nonlinear behavior of a complete sawtooth cycle in the CDX-U tokamak, chosen for the study because its low temperature and small size puts it in a parameter regime easily accessible to both codes. Initial M3D studies on this problem used a resistive MHD model with a large, empirical perpendicular heat transport value and with modest toroidal resolution (24 toroidal planes). The success of this study prompted the pursuit of more quantitatively accurate predictions by the application of more sophisticated physical models and higher numerical resolution. The results of two consequent follow-up studies are presented here. In the first, the toroidal resolution of the original run is doubled to 48 planes. The behavior of the sawtooth in this case is essentially the same as in the lower- resolution study. The sawtooth study has also been repeated using a two-fluid plasma model, with the effects of the &*circ;i term emphasized. The resulting mode rotation, as well as the effects on the reconnection rate (sawtooth crash time), sawtooth period, and overall stability are presented. [1] W. Park, et al., Phys. Plasmas 6, 1796 (1999). [2] C. Sovinec, et al., J. Comp. Phys. 195, 355 (2004).

Microscopic calculations of dynamics and N/Z equilibration in peripheral collisions below the Fermi energy.

NASA Astrophysics Data System (ADS)

Souliotis, G. A.; Shetty, D. V.; Galanopoulos, S.; Yennello, S. J.

2008-04-01

A systematic study of heavy residues formed in peripheral collisions below the Fermi energy has been undertaken at Texas A&M aiming at obtaining information on the mechanism of nucleon exchange and the course towards N/Z equilibration [1,2]. We expect to get insight on the dynamics and the nuclear equation of state by comparing our heavy residue data to detailed calculations using microscopic models of quantum molecular dynamics (QMD) type. We are performing calculations using two codes: the CoMD code of M. Papa, A. Bonasera [3] and the CHIMERA-QMD code of J. Lukasik [4]. Both codes implement an effective interaction with a nuclear-matter compressibility of K=200 (soft EOS) with several forms of the density dependence of the nucleon-nucleon symmetry potential. CoMD imposes a constraint in the phase space occupation for each nucleon restoring the Pauli principle at each time step of the collision. CHIMERA-QMD uses a Pauli potential term to mimic the Pauli principle. Results of the calculations and comparisons with our residue data will be presented. [1] G.A. Souliotis et al., Phys. Rev. Lett. 91, 022701 (2003). [2] G.A. Souliotis et al., Phys. Lett. B 588, 35 (2004). [3] M. Papa et al., Phys. Rev. C 64, 024612 (2001). [4] J. Lukasik, Z. Majka, Acta Phys. Pol. B 24, 1959 (1993).

Coding and non-coding gene regulatory networks underlie the immune response in liver cirrhosis.

PubMed

Gao, Bo; Zhang, Xueming; Huang, Yongming; Yang, Zhengpeng; Zhang, Yuguo; Zhang, Weihui; Gao, Zu-Hua; Xue, Dongbo

2017-01-01

Liver cirrhosis is recognized as being the consequence of immune-mediated hepatocyte damage and repair processes. However, the regulation of these immune responses underlying liver cirrhosis has not been elucidated. In this study, we used GEO datasets and bioinformatics methods to established coding and non-coding gene regulatory networks including transcription factor-/lncRNA-microRNA-mRNA, and competing endogenous RNA interaction networks. Our results identified 2224 mRNAs, 70 lncRNAs and 46 microRNAs were differentially expressed in liver cirrhosis. The transcription factor -/lncRNA- microRNA-mRNA network we uncovered that results in immune-mediated liver cirrhosis is comprised of 5 core microRNAs (e.g., miR-203; miR-219-5p), 3 transcription factors (i.e., FOXP3, ETS1 and FOS) and 7 lncRNAs (e.g., ENTS00000671336, ENST00000575137). The competing endogenous RNA interaction network we identified includes a complex immune response regulatory subnetwork that controls the entire liver cirrhosis network. Additionally, we found 10 overlapping GO terms shared by both liver cirrhosis and hepatocellular carcinoma including "immune response" as well. Interestingly, the overlapping differentially expressed genes in liver cirrhosis and hepatocellular carcinoma were enriched in immune response-related functional terms. In summary, a complex gene regulatory network underlying immune response processes may play an important role in the development and progression of liver cirrhosis, and its development into hepatocellular carcinoma.

Radiative transfer code SHARM for atmospheric and terrestrial applications

NASA Astrophysics Data System (ADS)

Lyapustin, A. I.

2005-12-01

An overview of the publicly available radiative transfer Spherical Harmonics code (SHARM) is presented. SHARM is a rigorous code, as accurate as the Discrete Ordinate Radiative Transfer (DISORT) code, yet faster. It performs simultaneous calculations for different solar zenith angles, view zenith angles, and view azimuths and allows the user to make multiwavelength calculations in one run. The Δ-M method is implemented for calculations with highly anisotropic phase functions. Rayleigh scattering is automatically included as a function of wavelength, surface elevation, and the selected vertical profile of one of the standard atmospheric models. The current version of the SHARM code does not explicitly include atmospheric gaseous absorption, which should be provided by the user. The SHARM code has several built-in models of the bidirectional reflectance of land and wind-ruffled water surfaces that are most widely used in research and satellite data processing. A modification of the SHARM code with the built-in Mie algorithm designed for calculations with spherical aerosols is also described.

Radiative transfer code SHARM for atmospheric and terrestrial applications.

PubMed

Lyapustin, A I

2005-12-20

An overview of the publicly available radiative transfer Spherical Harmonics code (SHARM) is presented. SHARM is a rigorous code, as accurate as the Discrete Ordinate Radiative Transfer (DISORT) code, yet faster. It performs simultaneous calculations for different solar zenith angles, view zenith angles, and view azimuths and allows the user to make multiwavelength calculations in one run. The Delta-M method is implemented for calculations with highly anisotropic phase functions. Rayleigh scattering is automatically included as a function of wavelength, surface elevation, and the selected vertical profile of one of the standard atmospheric models. The current version of the SHARM code does not explicitly include atmospheric gaseous absorption, which should be provided by the user. The SHARM code has several built-in models of the bidirectional reflectance of land and wind-ruffled water surfaces that are most widely used in research and satellite data processing. A modification of the SHARM code with the built-in Mie algorithm designed for calculations with spherical aerosols is also described.

Facile and High-Throughput Synthesis of Functional Microparticles with Quick Response Codes.

PubMed

Ramirez, Lisa Marie S; He, Muhan; Mailloux, Shay; George, Justin; Wang, Jun

2016-06-01

Encoded microparticles are high demand in multiplexed assays and labeling. However, the current methods for the synthesis and coding of microparticles either lack robustness and reliability, or possess limited coding capacity. Here, a massive coding of dissociated elements (MiCODE) technology based on innovation of a chemically reactive off-stoichimetry thiol-allyl photocurable polymer and standard lithography to produce a large number of quick response (QR) code microparticles is introduced. The coding process is performed by photobleaching the QR code patterns on microparticles when fluorophores are incorporated into the prepolymer formulation. The fabricated encoded microparticles can be released from a substrate without changing their features. Excess thiol functionality on the microparticle surface allows for grafting of amine groups and further DNA probes. A multiplexed assay is demonstrated using the DNA-grafted QR code microparticles. The MiCODE technology is further characterized by showing the incorporation of BODIPY-maleimide (BDP-M) and Nile Red fluorophores for coding and the use of microcontact printing for immobilizing DNA probes on microparticle surfaces. This versatile technology leverages mature lithography facilities for fabrication and thus is amenable to scale-up in the future, with potential applications in bioassays and in labeling consumer products. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Molecular cloning of the mouse gene coding for {alpha}{sub 2}-macroglobulin and targeting of the gene in embryonic stem cells

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

Umans, L.; Serneels, L.; Hilliker, C.

1994-08-01

The authors have cloned the mouse gene coding for {alpha}{sub 2}-macroglobulin in overlapping {lambda} clones and have analyzed its structure. The gene contains 36 exons, coding for the 4.8-kb cDNA that we cloned previously. Including putative control elements in the 5{prime} flanking region, the gene covers about 45 kb. A region of 3.8 kb, stretching from 835 bases upstream of the cDNA start site to exon 4, including all intervening sequences, was sequenced completely. The analysis demonstrated that the putative promoter region of the mouse A2M gene differed considerably from the known promoter sequences of the human A2M gene andmore » of the rat acute-phas A2M gene. Comparison of the exon-intron structure of all known genes of the A2M family confirmed that the rat acute phase A2M gene is more closely related to the human gene than to the mouse A2M gene. To generate mice with the A2M gene inactivated, an insertion type of construct containing 7.5 kb of genomic DNA of the mouse strain 129/J, encompassing exons 16 to 19, was synthesized. A hygromycin marker gene was embedded in intron 17. After electroporation, 198 hygromycin-resistant ES cell lines were isolated and analyzed by Southern blotting. Five ES cell lines were obtained with one allele of the mouse A2M gene targeted by this insertion construct, demonstrating that the position and the characteristics of the vector served the intended goal.« less

Improved classical and quantum random access codes

NASA Astrophysics Data System (ADS)

Liabøtrø, O.

2017-05-01

A (quantum) random access code ((Q)RAC) is a scheme that encodes n bits into m (qu)bits such that any of the n bits can be recovered with a worst case probability p >1/2 . We generalize (Q)RACs to a scheme encoding n d -levels into m (quantum) d -levels such that any d -level can be recovered with the probability for every wrong outcome value being less than 1/d . We construct explicit solutions for all n ≤d/2m-1 d -1 . For d =2 , the constructions coincide with those previously known. We show that the (Q)RACs are d -parity oblivious, generalizing ordinary parity obliviousness. We further investigate optimization of the success probabilities. For d =2 , we use the measure operators of the previously best-known solutions, but improve the encoding states to give a higher success probability. We conjecture that for maximal (n =4m-1 ,m ,p ) QRACs, p =1/2 {1 +[(√{3}+1)m-1 ] -1} is possible, and show that it is an upper bound for the measure operators that we use. We then compare (n ,m ,pq) QRACs with classical (n ,2 m ,pc) RACs. We can always find pq≥pc , but the classical code gives information about every input bit simultaneously, while the QRAC only gives information about a subset. For several different (n ,2 ,p ) QRACs, we see the same trade-off, as the best p values are obtained when the number of bits that can be obtained simultaneously is as small as possible. The trade-off is connected to parity obliviousness, since high certainty information about several bits can be used to calculate probabilities for parities of subsets.

A Proposal for the Maximum KIC for Use in ASME Code Flaw and Fracture Toughness Evaluations

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

Kirk, Mark; Stevens, Gary; Erickson, Marjorie A

2011-01-01

Nonmandatory Appendices A [1] and G [2] of Section XI of the ASME Code use the KIc curve (indexed to the material reference transition temperature, RTNDT) in reactor pressure vessel (RPV) flaw evaluations, and for the purpose of establishing RPV pressure-temperature (P-T) limits. Neither of these appendices places an upper-limit on the KIc value that may be used in these assessments. Over the years, it has often been suggested by some of the members of the ASME Section XI Code committees that are responsible for maintaining Appendices A and G that there is a practical upper limit of 200 ksimore » in (220 MPa m) [4]. This upper limit is not well recognized by all users of the ASME Code, is not explicitly documented within the Code itself, and the one source known to the authors where it is defended [4] relies on data that is either in error, or is less than 220 MPa m. However, as part of the NRC/industry pressurized thermal shock (PTS) re-evaluation effort, empirical models were developed that propose common temperature dependencies for all ferritic steels operating on the upper shelf. These models relate the fracture toughness properties in the transition regime to those on the upper shelf and, combined with data for a wide variety of RPV steels and welds on which they are based, suggest that the practical upper limit of 220 MPa m exceeds the upper shelf fracture toughness of most RPV steels by a considerable amount, especially for irradiated steels. In this paper, available models and data are used to propose upper bound limits of applicability on the KIc curve for use in ASME Code, Section XI, Nonmandatory Appendices A and G evaluations that are consistent with available data for RPV steels.« less

Transcriptomes of six mutants in the Sen1 pathway reveal combinatorial control of transcription termination across the Saccharomyces cerevisiae genome

PubMed Central

Carver, Melissa N.; Müller, Ulrika; Bekiranov, Stefan; Auble, David T.

2017-01-01

Transcriptome studies on eukaryotic cells have revealed an unexpected abundance and diversity of noncoding RNAs synthesized by RNA polymerase II (Pol II), some of which influence the expression of protein-coding genes. Yet, much less is known about biogenesis of Pol II non-coding RNA than mRNAs. In the budding yeast Saccharomyces cerevisiae, initiation of non-coding transcripts by Pol II appears to be similar to that of mRNAs, but a distinct pathway is utilized for termination of most non-coding RNAs: the Sen1-dependent or “NNS” pathway. Here, we examine the effect on the S. cerevisiae transcriptome of conditional mutations in the genes encoding six different essential proteins that influence Sen1-dependent termination: Sen1, Nrd1, Nab3, Ssu72, Rpb11, and Hrp1. We observe surprisingly diverse effects on transcript abundance for the different proteins that cannot be explained simply by differing severity of the mutations. Rather, we infer from our results that termination of Pol II transcription of non-coding RNA genes is subject to complex combinatorial control that likely involves proteins beyond those studied here. Furthermore, we identify new targets and functions of Sen1-dependent termination, including a role in repression of meiotic genes in vegetative cells. In combination with other recent whole-genome studies on termination of non-coding RNAs, our results provide promising directions for further investigation. PMID:28665995

In-situ recording of ionic currents in projection neurons and Kenyon cells in the olfactory pathway of the honeybee

PubMed Central

Rössler, Wolfgang

2018-01-01

The honeybee olfactory pathway comprises an intriguing pattern of convergence and divergence: ~60.000 olfactory sensory neurons (OSN) convey olfactory information on ~900 projection neurons (PN) in the antennal lobe (AL). To transmit this information reliably, PNs employ relatively high spiking frequencies with complex patterns. PNs project via a dual olfactory pathway to the mushroom bodies (MB). This pathway comprises the medial (m-ALT) and the lateral antennal lobe tract (l-ALT). PNs from both tracts transmit information from a wide range of similar odors, but with distinct differences in coding properties. In the MBs, PNs form synapses with many Kenyon cells (KC) that encode odors in a spatially and temporally sparse way. The transformation from complex information coding to sparse coding is a well-known phenomenon in insect olfactory coding. Intrinsic neuronal properties as well as GABAergic inhibition are thought to contribute to this change in odor representation. In the present study, we identified intrinsic neuronal properties promoting coding differences between PNs and KCs using in-situ patch-clamp recordings in the intact brain. We found very prominent K+ currents in KCs clearly differing from the PN currents. This suggests that odor coding differences between PNs and KCs may be caused by differences in their specific ion channel properties. Comparison of ionic currents of m- and l-ALT PNs did not reveal any differences at a qualitative level. PMID:29351552

Variations in the non-coding transcriptome as a driver of inter-strain divergence and physiological adaptation in bacteria

PubMed Central

Kopf, Matthias; Klähn, Stephan; Scholz, Ingeborg; Hess, Wolfgang R.; Voß, Björn

2015-01-01

In all studied organisms, a substantial portion of the transcriptome consists of non-coding RNAs that frequently execute regulatory functions. Here, we have compared the primary transcriptomes of the cyanobacteria Synechocystis sp. PCC 6714 and PCC 6803 under 10 different conditions. These strains share 2854 protein-coding genes and a 16S rRNA identity of 99.4%, indicating their close relatedness. Conserved major transcriptional start sites (TSSs) give rise to non-coding transcripts within the sigB gene, from the 5′UTRs of cmpA and isiA, and 168 loci in antisense orientation. Distinct differences include single nucleotide polymorphisms rendering promoters inactive in one of the strains, e.g., for cmpR and for the asRNA PsbA2R. Based on the genome-wide mapped location, regulation and classification of TSSs, non-coding transcripts were identified as the most dynamic component of the transcriptome. We identified a class of mRNAs that originate by read-through from an sRNA that accumulates as a discrete and abundant transcript while also serving as the 5′UTR. Such an sRNA/mRNA structure, which we name ‘actuaton’, represents another way for bacteria to remodel their transcriptional network. Our findings support the hypothesis that variations in the non-coding transcriptome constitute a major evolutionary element of inter-strain divergence and capability for physiological adaptation. PMID:25902393

DoD Electronic Data Interchange (EDI) Convention: ASC X12 Transaction Set 858 Freight Government Bill of Lading Shipment Information (Version 003010)

DTIC Science & Technology

1993-02-01

Segment: BX General Shipment Information Level: A Sequence: 30 Usage: M Max Use: 1 Loop: Purpose: To transmit identification numbers and other basic ...official code as- signed to a city or point (for ratemaking purposes) within a city. 930210 10.7.25 DEPARTM•B•T OF DOOM4N GOVERMET SILL OF LAD#M wDI...development group as the official code as- signed to a city or point (for ratemaking purposes) within a city. 930210 10.7.27 DEPARTMENT OF DG:dEI GOVWERJT

Conserved Non-Coding Sequences are Associated with Rates of mRNA Decay in Arabidopsis.

PubMed

Spangler, Jacob B; Feltus, Frank Alex

2013-01-01

Steady-state mRNA levels are tightly regulated through a combination of transcriptional and post-transcriptional control mechanisms. The discovery of cis-acting DNA elements that encode these control mechanisms is of high importance. We have investigated the influence of conserved non-coding sequences (CNSs), DNA patterns retained after an ancient whole genome duplication event, on the breadth of gene expression and the rates of mRNA decay in Arabidopsis thaliana. The absence of CNSs near α duplicate genes was associated with a decrease in breadth of gene expression and slower mRNA decay rates while the presence CNSs near α duplicates was associated with an increase in breadth of gene expression and faster mRNA decay rates. The observed difference in mRNA decay rate was fastest in genes with CNSs in both non-transcribed and transcribed regions, albeit through an unknown mechanism. This study supports the notion that some Arabidopsis CNSs regulate the steady-state mRNA levels through post-transcriptional control mechanisms and that CNSs also play a role in controlling the breadth of gene expression.

Conserved Non-Coding Sequences are Associated with Rates of mRNA Decay in Arabidopsis

PubMed Central

Spangler, Jacob B.; Feltus, Frank Alex

2013-01-01

Steady-state mRNA levels are tightly regulated through a combination of transcriptional and post-transcriptional control mechanisms. The discovery of cis-acting DNA elements that encode these control mechanisms is of high importance. We have investigated the influence of conserved non-coding sequences (CNSs), DNA patterns retained after an ancient whole genome duplication event, on the breadth of gene expression and the rates of mRNA decay in Arabidopsis thaliana. The absence of CNSs near α duplicate genes was associated with a decrease in breadth of gene expression and slower mRNA decay rates while the presence CNSs near α duplicates was associated with an increase in breadth of gene expression and faster mRNA decay rates. The observed difference in mRNA decay rate was fastest in genes with CNSs in both non-transcribed and transcribed regions, albeit through an unknown mechanism. This study supports the notion that some Arabidopsis CNSs regulate the steady-state mRNA levels through post-transcriptional control mechanisms and that CNSs also play a role in controlling the breadth of gene expression. PMID:23675377

M-type 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase is the product of a late muscle differentiation gene.

PubMed

Vandoolaeghe, P; Gueuning, M A; Rousseau, G G

1999-06-07

Genes that are expressed in adult muscle, but not in myotubes, are useful markers of the last steps of muscle maturation. We have investigated at what stage of differentiation the muscle-specific (M) promoter of a gene that codes for 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase (PFK2) becomes functional. M-PFK2 mRNA, which is present in adult muscle, did not appear during differentiation of L6 myoblasts into myotubes induced by growth factor withdrawal and hormonal treatment, even when this differentiation was stimulated by expression of transgenes coding for myf-5 or Rb. A comparison with the expression pattern of muscle genes showed that M-PFK2 is a marker of mature skeletal muscle. We also found that M-PFK2 is expressed in both types (slow-twitch and fast-twitch) of adult muscle. Thus, the M-PFK2 promoter is a novel model for studying the transcriptional control of the final steps of muscle differentiation that are common to the two types of myofibers. Copyright 1999 Academic Press.

A&M. Demineralization plant, TAN649. Floor plan, elevation details. Ralph M. ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. Demineralization plant, TAN-649. Floor plan, elevation details. Ralph M. Parsons 1480-4-ANP/GE-3-649-A-1. Date: October 1958. Approved by INEEL Classification Office for public release. INEEL index code no. 034-0649-00-693-107439 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

Variations in endothelin receptor B subtype 2 (EDNRB2) coding sequences and mRNA expression levels in 4 Muscovy duck plumage colour phenotypes.

PubMed

Wu, N; Qin, H; Wang, M; Bian, Y; Dong, B; Sun, G; Zhao, W; Chang, G; Xu, Q; Chen, G

2017-04-01

1. Endothelin receptor B subtype 2 (EDNRB2) is a paralog of EDNRB, which encodes a 7-transmembrane G-protein coupled receptor. Previous studies reported that EDNRB was essential for melanoblast migration in mammals and ducks. 2. Muscovy ducks have different plumage colour phenotypes. Variations in EDNRB2 coding sequences (CDSs) and mRNA expression levels were investigated in 4 different Muscovy duck plumage colour phenotypes, including black, black mutant, silver and white head. 3. The EDNRB2 gene from Muscovy duck was cloned; it had a length of 6435 bp and encoded 437 amino acids. The coding region was screened and potential single nucleotide polymorphisms were identified. Eight mutations were obtained, including one missense variant (c.64C > T) and 7 synonymous substitutions. The substitutions were associated with plumage colour phenotypes. 4. The EDNRB2 mRNA expression levels were compared between feather pulp from black birds and black mutant birds. The results indicated that EDNRB2 transcripts in feather pulp were significantly higher in black feathers than in white feathers. 5. The results determined the variation of EDNRB2 CDS and mRNA expression in Muscovy ducks of various plumage colours.

Ratchetting in pressurized pipes

NASA Astrophysics Data System (ADS)

Rider, R. J.; Harvey, S. J.; Charles, I. D.

1994-04-01

The plastic deformation of thin-walled cylinders has been experimentally examined for the loading conditions of +/- 1% axial strain with hoop stresses of approximately 0, 1/4, 1/2 and 3/4 of the initial uniaxial yield stress. Two materials similar to those used in the pipework of PWR nuclear plant in the U.K. have been tested, namely 304S11 stainless steel and En6 low-carbon steel. The results of the tests were to be compared with the allowable stresses and deformations specified in the ASME Boiler and Pressure Vessel Code, Section III. The code specifies that a prescribed combination of primary stresses must not exceed 1.5S(sub m), where S(sub m) is a stress value defined for each material. The results indicate that the limit of 1.5S(sub m) is excessively low for both materials and that in particular, the stainless steel could tolerate 5S(sub m). Although the En6 steel is more prone to ratchetting than the stainless steel, the results suggest that it too could tolerate a higher primary stress than the code allows. Both materials are shown to satisfy the proposed ASME ratchet strain limit of 5% hoop strain after 10 cycles of +/- 1% axial strain range, for any value of internal pressure.

[Research advances of genomic GYP coding MNS blood group antigens].

PubMed

Liu, Chang-Li; Zhao, Wei-Jun

2012-02-01

The MNS blood group system includes more than 40 antigens, and the M, N, S and s antigens are the most significant ones in the system. The antigenic determinants of M and N antigens lie on the top of GPA on the surface of red blood cells, while the antigenic determinants of S and s antigens lie on the top of GPB on the surface of red blood cells. The GYPA gene coding GPA and the GYPB gene coding GPB locate at the longarm of chromosome 4 and display 95% homologus sequence, meanwhile both genes locate closely to GYPE gene that did not express product. These three genes formed "GYPA-GYPB-GYPE" structure called GYP genome. This review focuses on the molecular basis of genomic GYP and the variety of GYP genome in the expression of diversity MNS blood group antigens. The molecular basis of Miltenberger hybrid glycophorin polymorphism is specifically expounded.

Critical role for cochlear hair cell BK channels for coding the temporal structure and dynamic range of auditory information for central auditory processing

PubMed Central

Kurt, Simone; Sausbier, Matthias; Rüttiger, Lukas; Brandt, Niels; Moeller, Christoph K.; Kindler, Jennifer; Sausbier, Ulrike; Zimmermann, Ulrike; van Straaten, Harald; Neuhuber, Winfried; Engel, Jutta; Knipper, Marlies; Ruth, Peter; Schulze, Holger

2012-01-01

Large conductance, voltage- and Ca2+-activated K+ (BK) channels in inner hair cells (IHCs) of the cochlea are essential for hearing. However, germline deletion of BKα, the pore-forming subunit KCNMA1 of the BK channel, surprisingly did not affect hearing thresholds in the first postnatal weeks, even though altered IHC membrane time constants, decreased IHC receptor potential alternating current/direct current ratio, and impaired spike timing of auditory fibers were reported in these mice. To investigate the role of IHC BK channels for central auditory processing, we generated a conditional mouse model with hair cell-specific deletion of BKα from postnatal day 10 onward. This had an unexpected effect on temporal coding in the central auditory system: neuronal single and multiunit responses in the inferior colliculus showed higher excitability and greater precision of temporal coding that may be linked to the improved discrimination of temporally modulated sounds observed in behavioral training. The higher precision of temporal coding, however, was restricted to slower modulations of sound and reduced stimulus-driven activity. This suggests a diminished dynamic range of stimulus coding that is expected to impair signal detection in noise. Thus, BK channels in IHCs are crucial for central coding of the temporal fine structure of sound and for detection of signals in a noisy environment.—Kurt, S., Sausbier, M., Rüttiger, L., Brandt, N., Moeller, C. K., Kindler, J., Sausbier, U., Zimmermann, U., van Straaten, H., Neuhuber, W., Engel, J., Knipper, M., Ruth, P., Schulze, H. Critical role for cochlear hair cell BK channels for coding the temporal structure and dynamic range of auditory information for central auditory processing. PMID:22691916

A New Realistic Evaluation Analysis Method: Linked Coding of Context, Mechanism, and Outcome Relationships

ERIC Educational Resources Information Center

Jackson, Suzanne F.; Kolla, Gillian

2012-01-01

In attempting to use a realistic evaluation approach to explore the role of Community Parents in early parenting programs in Toronto, a novel technique was developed to analyze the links between contexts (C), mechanisms (M) and outcomes (O) directly from experienced practitioner interviews. Rather than coding the interviews into themes in terms of…

Hybrid Hard and Soft Decision Decoding of Reed-Solomon Codes for M-ary Frequency-Shift Keying

DTIC Science & Technology

2010-06-01

Reed-Solomon (RS) coding, Orthogonal signaling, Additive White Gaussian Noise (AWGN), Pulse-Noise Interference (PNI), coherent detection, noncoherent ...Coherent Demodulation of MFSK ....................................................10 2. Noncoherent Demodulation of MFSK...62 V. PERFORMANCE SIMULATION AND ANALYSIS OF MFSK WITH RS ENCODING, HYBRID HD SD DECODING, AND NONCOHERENT DEMODULATION IN AWGN

Palindromic repetitive DNA elements with coding potential in Methanocaldococcus jannaschii.

PubMed

Suyama, Mikita; Lathe, Warren C; Bork, Peer

2005-10-10

We have identified 141 novel palindromic repetitive elements in the genome of euryarchaeon Methanocaldococcus jannaschii. The total length of these elements is 14.3kb, which corresponds to 0.9% of the total genomic sequence and 6.3% of all extragenic regions. The elements can be divided into three groups (MJRE1-3) based on the sequence similarity. The low sequence identity within each of the groups suggests rather old origin of these elements in M. jannaschii. Three MJRE2 elements were located within the protein coding regions without disrupting the coding potential of the host genes, indicating that insertion of repeats might be a widespread mechanism to enhance sequence diversity in coding regions.

Novel DNA variations to characterize low molecular weight glutenin Glu-D3 genes and develop STS markers in common wheat.

PubMed

Zhao, X L; Xia, X C; He, Z H; Lei, Z S; Appels, R; Yang, Y; Sun, Q X; Ma, W

2007-02-01

Low-molecular-weight glutenin subunits (LMW-GS) play an important role in bread and noodle processing quality by influencing the viscoelasticity and extensibility of dough. The objectives of this study were to characterize Glu-D3 subunit coding genes and to develop molecular markers for identifying Glu-D3 gene haplotypes. Gene specific primer sets were designed to amplify eight wheat cultivars containing Glu-D3a, b, c, d and e alleles, defined traditionally by protein electrophoretic mobility. Three novel Glu-D3 DNA sequences, designated as GluD3-4, GluD3-5 and GluD3-6, were amplified from the eight wheat cultivars. GluD3-4 showed three allelic variants or haplotypes at the DNA level in the eight cultivars, which were designated as GluD3-41, GluD3-42 and GluD3-43. Compared with GluD3-42, a single nucleotide polymorphism (SNP) was detected for GluD3-43 in the coding region, resulting in a pseudo-gene with a nonsense mutation at the 119th position of deduced peptide, and a 3-bp insertion was found in the coding region of GluD3-41, leading to a glutamine insertion at the 249th position of its deduced protein. The coding regions for GluD3-5 and GluD3-6 showed no allelic variation in the eight cultivars tested, indicating that they were relatively conservative in common wheat. Based on the 12 allelic variants of three Glu-D3 genes identified in this study and three detected previously, seven STS markers were established to amplify the corresponding gene sequences in wheat cultivars containing five Glu-D3 alleles (a, b, c, d and e). The seven primer sets M2F12/M2R12, M2F2/M2R2, M2F3/M2R3, M3F1/M3R1, M3F2/M3R2, M4F1/M4R1 and M4F3/M4R3 were specific to the allelic variants GluD3-21/22, GluD3-22, GluD3-23, GluD3-31, GluD3-32, GluD3-41 and GluD3-43, respectively, which were validated by amplifying 20 Chinese wheat cultivars containing alleles a, b, c and f based on protein electrophoretic mobility. These markers will be useful to identify the Glu-D3 gene haplotypes in wheat breeding programs.

Petty Cash Custodian Handbook: A ’Guide for Nonappropriated Fund Petty Cash Custodians in Morale, Welfare, and Recreation Activities.

DTIC Science & Technology

1988-04-01

limitations -- taxes V . How to fill out required forms -- AF form 1401 Petty Cash/Refund Voucher -- AF form 2539 NAP Disbursement Request 4N VI. General...AND ACTIVITY CODES ACTIVITY ACTIVITY CODES TITLE CODES TITLE " C2 Lanes Food and Beverage J3 Outside School Program C3 Lanes Pro Shop J4 Comb Fed... Food and Beverage 05 Course Maintenance L z Education E Outdoor Recreation LI Education Services Program El Marina (On-Base) Facility M = Chaplain

Procedure of recovery of pin-by-pin fields of energy release in the core of VVER-type reactor for the BIPR-8 code

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

Gordienko, P. V., E-mail: gorpavel@vver.kiae.ru; Kotsarev, A. V.; Lizorkin, M. P.

2014-12-15

The procedure of recovery of pin-by-pin energy-release fields for the BIPR-8 code and the algorithm of the BIPR-8 code which is used in nodal computation of the reactor core and on which the recovery of pin-by-pin fields of energy release is based are briefly described. The description and results of the verification using the module of recovery of pin-by-pin energy-release fields and the TVS-M program are given.

Numerical Electromagnetic Code (NEC)-Basic Scattering Code. Part I. User’s Manual.

DTIC Science & Technology

1979-09-01

Command RT : 29 I. Command PG: 32 J. Command GP: 35 K. Command CG: 36 L. Command SG: 39 M. Command AM: 44 N. Conumand PR: 48 0. Command NP: 49 P...these points and con- firm the validity of the solution. 1 0 1 -.- ’----.- ... The source presently considered in the computer code is an Plec - tric...Range Input 28 * RT : Translate and/or Rotate Coordinates 29 SG: Source Geometry Input IQ TO: Test Data Generation Options 17 [IN: Units of Input U)S

Acoustic waves in M dwarfs: Maintaining a corona

NASA Technical Reports Server (NTRS)

Mullan, D. J.; Cheng, Q. Q.

1994-01-01

We use a time-dependent hydrodynamics code to follow the propagation of acoustic waves into the corona of an M dwarf star. An important qualitative difference between M dwarfs and stars such as the Sun is that the acoustic spectrum in M dwarfs is expected to peak at periods close to the acoustic cutoff P(sub A): this allows more effective penetration of waves into the corona. In our code, radiative losses in the photosphere, chromosphere, and corona are computed using Rosseland mean opacities, Mg II kappa and Ly alpha emission, and optically thin emissivities respectively. We find that acoustic heating can maintain a corona with a temperature of order 0.7-1 x 10(exp 6) K and a surface X-ray flux as large as 10(exp 5)ergs/sq cm/s. In a recent survey of X-rays from M dwarfs, some (20%-30%) of the stars lie at or below this limiting X-ray flux: we suggest that such stars may be candidates for acoustically maintained coronae.

Prime Contract Awards Alphabetically by Contractor, by State or Country, and Place, FY 88. Part 6. (Data-Easton Machine Corporation)

DTIC Science & Technology

1988-01-01

City, State, and ZIP Code) 7b. ADDRESS (City, State, and ZIP Code) Arlington, VA 22202-4302 8a. NAME OF FUNDING/SPONSORING 8b. OFFICE SYMBOL 9 ...to u 0 300- I cInr 1- IL71 O0 0 1= I v V- EU 10001- I 0 M fa V CE0 1 CI o 100 3(- 9 -4 3-. 3t-4 -4 CA4 4 -4 W-4 - .. 4’.-I-4 00.f.4 4-I 0-I I...I 00003’ 44-.4.44 r4 r0) 1- 00 U44a ( 9 WLAC’) o .,’r-r-- r-3=-.-r 00 r- i-. I’- 1-’o- 411Wa0(1 I M ( t1nC n S 0M U n . (n(C’In (1n n ( 0nL C) 0 M1 M

Measurement of Compression Factor and Error Sensitivity Factor of Facsimile Coding Techniques Submitted to the CCITT By Great Britain and the Federal Republic of Germany

DTIC Science & Technology

1979-10-01

D CD I- l M C’ m (’-01 V-~ "r c ml C- 00 0 v ~ ~ v V. v vCvq; o LO tol vo oo Co Lo 0 tD CI C CO U) 0 -4 l m1C’ .4oC cn z m’N t’l - ccC l m Z o .- 4C t...00013 IrTA 11 F j~)f~, I)~ l53 t.l .. AsOOM lf DATA CJ-3.(to S.1)sCODE(29 591)vCO0E(3s 5o11/ 49 b#ZOOOB/ 00013 DATA COJE(A. 69l)oC30E(29 691)*CCDE-(39...nn~i-,, ~.2 2-LCJM - 1 A, A -AI .DREfr Td ~ 92It 61 - ff~ *CTABLEW(16).CSTART(16).STBUF(1728JSrRUN(1728) 00004i C0MMOC4.E4iAY /ERROR S( 25001 00004

The CRONOS Code for Astrophysical Magnetohydrodynamics

NASA Astrophysics Data System (ADS)

Kissmann, R.; Kleimann, J.; Krebl, B.; Wiengarten, T.

2018-06-01

We describe the magnetohydrodynamics (MHD) code CRONOS, which has been used in astrophysics and space-physics studies in recent years. CRONOS has been designed to be easily adaptable to the problem in hand, where the user can expand or exchange core modules or add new functionality to the code. This modularity comes about through its implementation using a C++ class structure. The core components of the code include solvers for both hydrodynamical (HD) and MHD problems. These problems are solved on different rectangular grids, which currently support Cartesian, spherical, and cylindrical coordinates. CRONOS uses a finite-volume description with different approximate Riemann solvers that can be chosen at runtime. Here, we describe the implementation of the code with a view toward its ongoing development. We illustrate the code’s potential through several (M)HD test problems and some astrophysical applications.

A&M. Demineralization plant (TAN649). Steel door. Ralph M. Parsons 1480L/ANP/GA3649MS1. ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. Demineralization plant (TAN-649). Steel door. Ralph M. Parsons 1480-L/ANP/GA-3-649-MS-1. Date: October 1958. Approved by INEEL Classification Office for public release. INEEL index code no. 034-0649-40-693-107443 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

Comparison of Geant4-DNA simulation of S-values with other Monte Carlo codes

NASA Astrophysics Data System (ADS)

André, T.; Morini, F.; Karamitros, M.; Delorme, R.; Le Loirec, C.; Campos, L.; Champion, C.; Groetz, J.-E.; Fromm, M.; Bordage, M.-C.; Perrot, Y.; Barberet, Ph.; Bernal, M. A.; Brown, J. M. C.; Deleuze, M. S.; Francis, Z.; Ivanchenko, V.; Mascialino, B.; Zacharatou, C.; Bardiès, M.; Incerti, S.

2014-01-01

Monte Carlo simulations of S-values have been carried out with the Geant4-DNA extension of the Geant4 toolkit. The S-values have been simulated for monoenergetic electrons with energies ranging from 0.1 keV up to 20 keV, in liquid water spheres (for four radii, chosen between 10 nm and 1 μm), and for electrons emitted by five isotopes of iodine (131, 132, 133, 134 and 135), in liquid water spheres of varying radius (from 15 μm up to 250 μm). The results have been compared to those obtained from other Monte Carlo codes and from other published data. The use of the Kolmogorov-Smirnov test has allowed confirming the statistical compatibility of all simulation results.

Combined group ECC protection and subgroup parity protection

DOEpatents

Gara, Alan G.; Chen, Dong; Heidelberger, Philip; Ohmacht, Martin

2013-06-18

A method and system are disclosed for providing combined error code protection and subgroup parity protection for a given group of n bits. The method comprises the steps of identifying a number, m, of redundant bits for said error protection; and constructing a matrix P, wherein multiplying said given group of n bits with P produces m redundant error correction code (ECC) protection bits, and two columns of P provide parity protection for subgroups of said given group of n bits. In the preferred embodiment of the invention, the matrix P is constructed by generating permutations of m bit wide vectors with three or more, but an odd number of, elements with value one and the other elements with value zero; and assigning said vectors to rows of the matrix P.

High efficiency video coding for ultrasound video communication in m-health systems.

PubMed

Panayides, A; Antoniou, Z; Pattichis, M S; Pattichis, C S; Constantinides, A G

2012-01-01

Emerging high efficiency video compression methods and wider availability of wireless network infrastructure will significantly advance existing m-health applications. For medical video communications, the emerging video compression and network standards support low-delay and high-resolution video transmission, at the clinically acquired resolution and frame rates. Such advances are expected to further promote the adoption of m-health systems for remote diagnosis and emergency incidents in daily clinical practice. This paper compares the performance of the emerging high efficiency video coding (HEVC) standard to the current state-of-the-art H.264/AVC standard. The experimental evaluation, based on five atherosclerotic plaque ultrasound videos encoded at QCIF, CIF, and 4CIF resolutions demonstrates that 50% reductions in bitrate requirements is possible for equivalent clinical quality.

76 FR 24862 - Meeting of a Federal Advisory Committee

Federal Register 2010, 2011, 2012, 2013, 2014

2011-05-03

... minutes. 9:15 a.m. Defense Acquisition Workforce Talent Management Initiative. 10:45 a.m. Army Senior... Liaison Officer, Department of Defense. [FR Doc. 2011-10679 Filed 5-2-11; 8:45 am] BILLING CODE 5001-06-P ...

ANITA-2000 activation code package - updating of the decay data libraries and validation on the experimental data of the 14 MeV Frascati Neutron Generator

NASA Astrophysics Data System (ADS)

Frisoni, Manuela

2016-03-01

ANITA-2000 is a code package for the activation characterization of materials exposed to neutron irradiation released by ENEA to OECD-NEADB and ORNL-RSICC. The main component of the package is the activation code ANITA-4M that computes the radioactive inventory of a material exposed to neutron irradiation. The code requires the decay data library (file fl1) containing the quantities describing the decay properties of the unstable nuclides and the library (file fl2) containing the gamma ray spectra emitted by the radioactive nuclei. The fl1 and fl2 files of the ANITA-2000 code package, originally based on the evaluated nuclear data library FENDL/D-2.0, were recently updated on the basis of the JEFF-3.1.1 Radioactive Decay Data Library. This paper presents the results of the validation of the new fl1 decay data library through the comparison of the ANITA-4M calculated values with the measured electron and photon decay heats and activities of fusion material samples irradiated at the 14 MeV Frascati Neutron Generator (FNG) of the NEA-Frascati Research Centre. Twelve material samples were considered, namely: Mo, Cu, Hf, Mg, Ni, Cd, Sn, Re, Ti, W, Ag and Al. The ratios between calculated and experimental values (C/E) are shown and discussed in this paper.

Preserving privacy of online digital physiological signals using blind and reversible steganography.

PubMed

Shiu, Hung-Jr; Lin, Bor-Sing; Huang, Chien-Hung; Chiang, Pei-Ying; Lei, Chin-Laung

2017-11-01

Physiological signals such as electrocardiograms (ECG) and electromyograms (EMG) are widely used to diagnose diseases. Presently, the Internet offers numerous cloud storage services which enable digital physiological signals to be uploaded for convenient access and use. Numerous online databases of medical signals have been built. The data in them must be processed in a manner that preserves patients' confidentiality. A reversible error-correcting-coding strategy will be adopted to transform digital physiological signals into a new bit-stream that uses a matrix in which is embedded the Hamming code to pass secret messages or private information. The shared keys are the matrix and the version of the Hamming code. An online open database, the MIT-BIH arrhythmia database, was used to test the proposed algorithms. The time-complexity, capacity and robustness are evaluated. Comparisons of several evaluations subject to related work are also proposed. This work proposes a reversible, low-payload steganographic scheme for preserving the privacy of physiological signals. An (n,  m)-hamming code is used to insert (n - m) secret bits into n bits of a cover signal. The number of embedded bits per modification is higher than in comparable methods, and the computational power is efficient and the scheme is secure. Unlike other Hamming-code based schemes, the proposed scheme is both reversible and blind. Copyright © 2017 Elsevier B.V. All rights reserved.

A microwave FEL (free electron laser) code using waveguide modes

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

Byers, J.A.; Cohen, R.H.

1987-08-01

A free electron laser code, GFEL, is being developed for application to the LLNL tokamak current drive experiment, MTX. This single frequency code solves for the slowly varying complex field amplitude using the usual wiggler-averaged equations of existing codes, in particular FRED, except that it describes the fields by a 2D expansion in the rectangular waveguide modes, using coupling coefficients similar to those developed by Wurtele, which include effects of spatial variations in the fields seen by the wiggler motion of the particles. Our coefficients differ from those of Wurtele in two respects. First, we have found a missing ..sqrt..2..gamma../a/submore » w/ factor in his C/sub z/; when corrected this increases the effect of the E/sub z/ field component and this in turn reduces the amplitude of the TM mode. Second, we have consistently retained all terms of second order in the wiggle amplitude. Both corrections are necessary for accurate computation. GFEL has the capability of following the TE/sub 0n/ and TE(M)/sub m1/ modes simultaneously. GFEL produces results nearly identical to those from FRED if the coupling coefficients are adjusted to equal those implied by the algorithm in FRED. Normally, the two codes produce results that are similar but different in detail due to the different treatment of modes higher than TE/sub 01/. 5 refs., 2 figs., 1 tab.« less

A&M. Technical service laboratory in administration building (TAN602). Floor plan, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. Technical service laboratory in administration building (TAN-602). Floor plan, reception desk, door and finish schedules. Ralph M. Parsons 1480-12-ANP/GE-3-602-A-1. INEEL index code no. 033-0602-00-693-107488 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

A&M. Gate House (TAN601). Plan, elevations, sections, details. Shows expanded ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. Gate House (TAN-601). Plan, elevations, sections, details. Shows expanded building as attached to TAN-602. Ralph M. Parsons 902-2-ANP-601-A 22. Date: December 1952. INEEL index code no. 033-0602-00-693-106704 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

77 FR 15053 - Manual for Courts-Martial; Proposed Amendments

Federal Register 2010, 2011, 2012, 2013, 2014

2012-03-14

... the M.R.E. and a Word document using color-coded text and comments to explain amendments. Updated... evidence. f. Commenter recommended using the words ``pursuant to statutory authority'' in M.R.E. 807. JSC... the rule to findings. i. Commenter recommended removing the word ``allegedly'' from proposed M.R.E...

Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements

PubMed Central

Secco, David; Wang, Chuang; Shou, Huixia; Schultz, Matthew D; Chiarenza, Serge; Nussaume, Laurent; Ecker, Joseph R; Whelan, James; Lister, Ryan

2015-01-01

Cytosine DNA methylation (mC) is a genome modification that can regulate the expression of coding and non-coding genetic elements. However, little is known about the involvement of mC in response to environmental cues. Using whole genome bisulfite sequencing to assess the spatio-temporal dynamics of mC in rice grown under phosphate starvation and recovery conditions, we identified widespread phosphate starvation-induced changes in mC, preferentially localized in transposable elements (TEs) close to highly induced genes. These changes in mC occurred after changes in nearby gene transcription, were mostly DCL3a-independent, and could partially be propagated through mitosis, however no evidence of meiotic transmission was observed. Similar analyses performed in Arabidopsis revealed a very limited effect of phosphate starvation on mC, suggesting a species-specific mechanism. Overall, this suggests that TEs in proximity to environmentally induced genes are silenced via hypermethylation, and establishes the temporal hierarchy of transcriptional and epigenomic changes in response to stress. DOI: http://dx.doi.org/10.7554/eLife.09343.001 PMID:26196146

Impact of Different Correlations on TRACEv4.160 Predicted Critical Heat Flux

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

Jasiulevicius, A.; Macian-Juan, R.

2006-07-01

This paper presents an independent assessment of the Critical Heat Flux (CHF) models implemented in TRACEv4.160 with data from the experiments carried out at the Royal Institute of Technology (RIT) in Stockholm, Sweden, with single vertical uniformly heated 7.0 m long tubes. In previous CHF assessment studies with TRACE, it was noted that, although the overall code predictions in long single tubes with inner diameters of 1.0 to 2.49 cm agreed rather well with the results of experiments (with r.m.s. error being 25.6%), several regions of pressure and coolant mass flux could be identified, in which the code strongly under-predictsmore » or over-predicts the CHF. In order to evaluate the possibility of improving the code performance, some of the most widely used and assessed CHF correlations were additionally implemented in TRACEv4.160, namely Bowring, Levitan - Lantsman, and Tong-W3. The results obtained for the CHF predictions in single tubes with uniform axial heat flux by using these correlations, were compared to the results produced with the standard TRACE correlations (Biasi and CISE-GE), and with the experimental data from RIT, which covered a broad range of pressures (3-20 MPa) and coolant mass fluxes (500-3000 kg/m{sup 2}s). Several hundreds of experimental points were calculated to cover the parameter range mentioned above for the evaluation of the newly implemented correlations in the TRACEv4.160 code. (author)« less

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

Dokhane, A.; Canepa, S.; Ferroukhi, H.

For stability analyses of the Swiss operating Boiling-Water-Reactors (BWRs), the methodology employed and validated so far at the Paul Scherrer Inst. (PSI) was based on the RAMONA-3 code with a hybrid upstream static lattice/core analysis approach using CASMO-4 and PRESTO-2. More recently, steps were undertaken towards a new methodology based on the SIMULATE-3K (S3K) code for the dynamical analyses combined with the CMSYS system relying on the CASMO/SIMULATE-3 suite of codes and which was established at PSI to serve as framework for the development and validation of reference core models of all the Swiss reactors and operated cycles. This papermore » presents a first validation of the new methodology on the basis of a benchmark recently organised by a Swiss utility and including the participation of several international organisations with various codes/methods. Now in parallel, a transition from CASMO-4E (C4E) to CASMO-5M (C5M) as basis for the CMSYS core models was also recently initiated at PSI. Consequently, it was considered adequate to address the impact of this transition both for the steady-state core analyses as well as for the stability calculations and to achieve thereby, an integral approach for the validation of the new S3K methodology. Therefore, a comparative assessment of C4 versus C5M is also presented in this paper with particular emphasis on the void coefficients and their impact on the downstream stability analysis results. (authors)« less

Coding and non-coding gene regulatory networks underlie the immune response in liver cirrhosis

PubMed Central

Zhang, Xueming; Huang, Yongming; Yang, Zhengpeng; Zhang, Yuguo; Zhang, Weihui; Gao, Zu-hua; Xue, Dongbo

2017-01-01

Liver cirrhosis is recognized as being the consequence of immune-mediated hepatocyte damage and repair processes. However, the regulation of these immune responses underlying liver cirrhosis has not been elucidated. In this study, we used GEO datasets and bioinformatics methods to established coding and non-coding gene regulatory networks including transcription factor-/lncRNA-microRNA-mRNA, and competing endogenous RNA interaction networks. Our results identified 2224 mRNAs, 70 lncRNAs and 46 microRNAs were differentially expressed in liver cirrhosis. The transcription factor -/lncRNA- microRNA-mRNA network we uncovered that results in immune-mediated liver cirrhosis is comprised of 5 core microRNAs (e.g., miR-203; miR-219-5p), 3 transcription factors (i.e., FOXP3, ETS1 and FOS) and 7 lncRNAs (e.g., ENTS00000671336, ENST00000575137). The competing endogenous RNA interaction network we identified includes a complex immune response regulatory subnetwork that controls the entire liver cirrhosis network. Additionally, we found 10 overlapping GO terms shared by both liver cirrhosis and hepatocellular carcinoma including “immune response” as well. Interestingly, the overlapping differentially expressed genes in liver cirrhosis and hepatocellular carcinoma were enriched in immune response-related functional terms. In summary, a complex gene regulatory network underlying immune response processes may play an important role in the development and progression of liver cirrhosis, and its development into hepatocellular carcinoma. PMID:28355233

Rosen's (M,R) system in Unified Modelling Language.

PubMed

Zhang, Ling; Williams, Richard A; Gatherer, Derek

2016-01-01

Robert Rosen's (M,R) system is an abstract biological network architecture that is allegedly non-computable on a Turing machine. If (M,R) is truly non-computable, there are serious implications for the modelling of large biological networks in computer software. A body of work has now accumulated addressing Rosen's claim concerning (M,R) by attempting to instantiate it in various software systems. However, a conclusive refutation has remained elusive, principally since none of the attempts to date have unambiguously avoided the critique that they have altered the properties of (M,R) in the coding process, producing merely approximate simulations of (M,R) rather than true computational models. In this paper, we use the Unified Modelling Language (UML), a diagrammatic notation standard, to express (M,R) as a system of objects having attributes, functions and relations. We believe that this instantiates (M,R) in such a way than none of the original properties of the system are corrupted in the process. Crucially, we demonstrate that (M,R) as classically represented in the relational biology literature is implicitly a UML communication diagram. Furthermore, since UML is formally compatible with object-oriented computing languages, instantiation of (M,R) in UML strongly implies its computability in object-oriented coding languages. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Divergent transcription is associated with promoters of transcriptional regulators

PubMed Central

2013-01-01

Background Divergent transcription is a wide-spread phenomenon in mammals. For instance, short bidirectional transcripts are a hallmark of active promoters, while longer transcripts can be detected antisense from active genes in conditions where the RNA degradation machinery is inhibited. Moreover, many described long non-coding RNAs (lncRNAs) are transcribed antisense from coding gene promoters. However, the general significance of divergent lncRNA/mRNA gene pair transcription is still poorly understood. Here, we used strand-specific RNA-seq with high sequencing depth to thoroughly identify antisense transcripts from coding gene promoters in primary mouse tissues. Results We found that a substantial fraction of coding-gene promoters sustain divergent transcription of long non-coding RNA (lncRNA)/mRNA gene pairs. Strikingly, upstream antisense transcription is significantly associated with genes related to transcriptional regulation and development. Their promoters share several characteristics with those of transcriptional developmental genes, including very large CpG islands, high degree of conservation and epigenetic regulation in ES cells. In-depth analysis revealed a unique GC skew profile at these promoter regions, while the associated coding genes were found to have large first exons, two genomic features that might enforce bidirectional transcription. Finally, genes associated with antisense transcription harbor specific H3K79me2 epigenetic marking and RNA polymerase II enrichment profiles linked to an intensified rate of early transcriptional elongation. Conclusions We concluded that promoters of a class of transcription regulators are characterized by a specialized transcriptional control mechanism, which is directly coupled to relaxed bidirectional transcription. PMID:24365181

76 FR 63161 - Airworthiness Directives; Aviointeriors S.p.A. Passenger Seat 12M Series, Installed on But Not...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-10-12

... of the United States Code specifies the FAA's authority to issue rules on aviation safety. Subtitle I... proposed actions to address it. Subject (d) Air Transport Association (ATA) of America Code 25: Equipment...,400--04013 Tor Tre Ponti, Italy; telephone 0039-0773- 689330 or 0039-0773-689291; fax 0039-0773-631546...

A New Perspective on Neonatal Smiling: Differences between the Judgments of Expert Coders and Naive Observers

ERIC Educational Resources Information Center

Dondi, Marco; Messinger, Daniel; Colle, Marta; Tabasso, Alessia; Simion, Francesca; Barba, Beatrice Dalla; Fogel, Alan

2007-01-01

To better understand the form and recognizability of neonatal smiling, 32 newborns (14 girls; M = 25.6 hr) were videorecorded in the behavioral states of alertness, drowsiness, active sleep, and quiet sleep. Baby Facial Action Coding System coding of both lip corner raising (simple or non-Duchenne) and lip corner raising with cheek raising…

Robust Self-Authenticating Network Coding

DTIC Science & Technology

2008-11-30

efficient as traditional point-to-point coding schemes 3m*b*c*ts»tt a«2b»c*dt4g »4.0»C* 3d *Sh Number of symbols that an intermediate node has to...Institute of Technology This work was partly supported by the Fundacao para a Ciencia e Tecnologia (Portuguese foundation lor Science and Technology

Factor Structure and Validity of the Therapy Process Observational Coding System for Child Psychotherapy--Alliance Scale

ERIC Educational Resources Information Center

Fjermestad, Krister W.; McLeod, Bryce D.; Heiervang, Einar R.; Havik, Odd E.; Ost, Lars-Goran; Haugland, Bente S. M.

2012-01-01

The aim of this study was to examine the factor structure and psychometric properties of an observer-rated youth alliance measure, the Therapy Process Observational Coding System for Child Psychotherapy-Alliance scale (TPOCS-A). The sample was 52 youth diagnosed with anxiety disorders ("M" age = 12.43, "SD" = 2.23, range = 15;…

A NEW HYBRID N-BODY-COAGULATION CODE FOR THE FORMATION OF GAS GIANT PLANETS

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

Bromley, Benjamin C.; Kenyon, Scott J., E-mail: bromley@physics.utah.edu, E-mail: skenyon@cfa.harvard.edu

2011-04-20

We describe an updated version of our hybrid N-body-coagulation code for planet formation. In addition to the features of our 2006-2008 code, our treatment now includes algorithms for the one-dimensional evolution of the viscous disk, the accretion of small particles in planetary atmospheres, gas accretion onto massive cores, and the response of N-bodies to the gravitational potential of the gaseous disk and the swarm of planetesimals. To validate the N-body portion of the algorithm, we use a battery of tests in planetary dynamics. As a first application of the complete code, we consider the evolution of Pluto-mass planetesimals in amore » swarm of 0.1-1 cm pebbles. In a typical evolution time of 1-3 Myr, our calculations transform 0.01-0.1 M{sub sun} disks of gas and dust into planetary systems containing super-Earths, Saturns, and Jupiters. Low-mass planets form more often than massive planets; disks with smaller {alpha} form more massive planets than disks with larger {alpha}. For Jupiter-mass planets, masses of solid cores are 10-100 M{sub +}.« less

Poly(A) code analyses reveal key determinants for tissue-specific mRNA alternative polyadenylation

PubMed Central

Weng, Lingjie; Li, Yi; Xie, Xiaohui; Shi, Yongsheng

2016-01-01

mRNA alternative polyadenylation (APA) is a critical mechanism for post-transcriptional gene regulation and is often regulated in a tissue- and/or developmental stage-specific manner. An ultimate goal for the APA field has been to be able to computationally predict APA profiles under different physiological or pathological conditions. As a first step toward this goal, we have assembled a poly(A) code for predicting tissue-specific poly(A) sites (PASs). Based on a compendium of over 600 features that have known or potential roles in PAS selection, we have generated and refined a machine-learning algorithm using multiple high-throughput sequencing-based data sets of tissue-specific and constitutive PASs. This code can predict tissue-specific PASs with >85% accuracy. Importantly, by analyzing the prediction performance based on different RNA features, we found that PAS context, including the distance between alternative PASs and the relative position of a PAS within the gene, is a key feature for determining the susceptibility of a PAS to tissue-specific regulation. Our poly(A) code provides a useful tool for not only predicting tissue-specific APA regulation, but also for studying its underlying molecular mechanisms. PMID:27095026

Mixture block coding with progressive transmission in packet video. Appendix 1: Item 2. M.S. Thesis

NASA Technical Reports Server (NTRS)

Chen, Yun-Chung

1989-01-01

Video transmission will become an important part of future multimedia communication because of dramatically increasing user demand for video, and rapid evolution of coding algorithm and VLSI technology. Video transmission will be part of the broadband-integrated services digital network (B-ISDN). Asynchronous transfer mode (ATM) is a viable candidate for implementation of B-ISDN due to its inherent flexibility, service independency, and high performance. According to the characteristics of ATM, the information has to be coded into discrete cells which travel independently in the packet switching network. A practical realization of an ATM video codec called Mixture Block Coding with Progressive Transmission (MBCPT) is presented. This variable bit rate coding algorithm shows how a constant quality performance can be obtained according to user demand. Interactions between codec and network are emphasized including packetization, service synchronization, flow control, and error recovery. Finally, some simulation results based on MBCPT coding with error recovery are presented.

Long Non-Coding RNAs in Haematological Malignancies

PubMed Central

Garitano-Trojaola, Andoni; Agirre, Xabier; Prósper, Felipe; Fortes, Puri

2013-01-01

Long non-coding RNAs (lncRNAs) are functional RNAs longer than 200 nucleotides in length. LncRNAs are as diverse as mRNAs and they normally share the same biosynthetic machinery based on RNA polymerase II, splicing and polyadenylation. However, lncRNAs have low coding potential. Compared to mRNAs, lncRNAs are preferentially nuclear, more tissue specific and expressed at lower levels. Most of the lncRNAs described to date modulate the expression of specific genes by guiding chromatin remodelling factors; inducing chromosomal loopings; affecting transcription, splicing, translation or mRNA stability; or serving as scaffolds for the organization of cellular structures. They can function in cis, cotranscriptionally, or in trans, acting as decoys, scaffolds or guides. These functions seem essential to allow cell differentiation and growth. In fact, many lncRNAs have been shown to exert oncogenic or tumor suppressor properties in several cancers including haematological malignancies. In this review, we summarize what is known about lncRNAs, the mechanisms for their regulation in cancer and their role in leukemogenesis, lymphomagenesis and hematopoiesis. Furthermore, we discuss the potential of lncRNAs in diagnosis, prognosis and therapy in cancer, with special attention to haematological malignancies. PMID:23887658

Hybrid threshold adaptable quantum secret sharing scheme with reverse Huffman-Fibonacci-tree coding.

PubMed

Lai, Hong; Zhang, Jun; Luo, Ming-Xing; Pan, Lei; Pieprzyk, Josef; Xiao, Fuyuan; Orgun, Mehmet A

2016-08-12

With prevalent attacks in communication, sharing a secret between communicating parties is an ongoing challenge. Moreover, it is important to integrate quantum solutions with classical secret sharing schemes with low computational cost for the real world use. This paper proposes a novel hybrid threshold adaptable quantum secret sharing scheme, using an m-bonacci orbital angular momentum (OAM) pump, Lagrange interpolation polynomials, and reverse Huffman-Fibonacci-tree coding. To be exact, we employ entangled states prepared by m-bonacci sequences to detect eavesdropping. Meanwhile, we encode m-bonacci sequences in Lagrange interpolation polynomials to generate the shares of a secret with reverse Huffman-Fibonacci-tree coding. The advantages of the proposed scheme is that it can detect eavesdropping without joint quantum operations, and permits secret sharing for an arbitrary but no less than threshold-value number of classical participants with much lower bandwidth. Also, in comparison with existing quantum secret sharing schemes, it still works when there are dynamic changes, such as the unavailability of some quantum channel, the arrival of new participants and the departure of participants. Finally, we provide security analysis of the new hybrid quantum secret sharing scheme and discuss its useful features for modern applications.

Hybrid threshold adaptable quantum secret sharing scheme with reverse Huffman-Fibonacci-tree coding

PubMed Central

Lai, Hong; Zhang, Jun; Luo, Ming-Xing; Pan, Lei; Pieprzyk, Josef; Xiao, Fuyuan; Orgun, Mehmet A.

2016-01-01

With prevalent attacks in communication, sharing a secret between communicating parties is an ongoing challenge. Moreover, it is important to integrate quantum solutions with classical secret sharing schemes with low computational cost for the real world use. This paper proposes a novel hybrid threshold adaptable quantum secret sharing scheme, using an m-bonacci orbital angular momentum (OAM) pump, Lagrange interpolation polynomials, and reverse Huffman-Fibonacci-tree coding. To be exact, we employ entangled states prepared by m-bonacci sequences to detect eavesdropping. Meanwhile, we encode m-bonacci sequences in Lagrange interpolation polynomials to generate the shares of a secret with reverse Huffman-Fibonacci-tree coding. The advantages of the proposed scheme is that it can detect eavesdropping without joint quantum operations, and permits secret sharing for an arbitrary but no less than threshold-value number of classical participants with much lower bandwidth. Also, in comparison with existing quantum secret sharing schemes, it still works when there are dynamic changes, such as the unavailability of some quantum channel, the arrival of new participants and the departure of participants. Finally, we provide security analysis of the new hybrid quantum secret sharing scheme and discuss its useful features for modern applications. PMID:27515908

Evaluation of Savannah River Plant emergency response models using standard and nonstandard meteorological data

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

Hoel, D.D.

1984-01-01

Two computer codes have been developed for operational use in performing real time evaluations of atmospheric releases from the Savannah River Plant (SRP) in South Carolina. These codes, based on mathematical models, are part of the SRP WIND (Weather Information and Display) automated emergency response system. Accuracy of ground level concentrations from a Gaussian puff-plume model and a two-dimensional sequential puff model are being evaluated with data from a series of short range diffusion experiments using sulfur hexafluoride as a tracer. The models use meteorological data collected from 7 towers on SRP and at the 300 m WJBF-TV tower aboutmore » 15 km northwest of SRP. The winds and the stability, which is based on turbulence measurements, are measured at the 60 m stack heights. These results are compared to downwind concentrations using only standard meteorological data, i.e., adjusted 10 m winds and stability determined by the Pasquill-Turner stability classification method. Scattergrams and simple statistics were used for model evaluations. Results indicate predictions within accepted limits for the puff-plume code and a bias in the sequential puff model predictions using the meteorologist-adjusted nonstandard data. 5 references, 4 figures, 2 tables.« less

Performance analysis of three dimensional integral equation computations on a massively parallel computer. M.S. Thesis

NASA Technical Reports Server (NTRS)

Logan, Terry G.

1994-01-01

The purpose of this study is to investigate the performance of the integral equation computations using numerical source field-panel method in a massively parallel processing (MPP) environment. A comparative study of computational performance of the MPP CM-5 computer and conventional Cray-YMP supercomputer for a three-dimensional flow problem is made. A serial FORTRAN code is converted into a parallel CM-FORTRAN code. Some performance results are obtained on CM-5 with 32, 62, 128 nodes along with those on Cray-YMP with a single processor. The comparison of the performance indicates that the parallel CM-FORTRAN code near or out-performs the equivalent serial FORTRAN code for some cases.

The kinetics of aerosol particle formation and removal in NPP severe accidents

NASA Astrophysics Data System (ADS)

Zatevakhin, Mikhail A.; Arefiev, Valentin K.; Semashko, Sergey E.; Dolganov, Rostislav A.

2016-06-01

Severe Nuclear Power Plant (NPP) accidents are accompanied by release of a massive amount of energy, radioactive products and hydrogen into the atmosphere of the NPP containment. A valid estimation of consequences of such accidents can only be carried out through the use of the integrated codes comprising a description of the basic processes which determine the consequences. A brief description of a coupled aerosol and thermal-hydraulic code to be used for the calculation of the aerosol kinetics within the NPP containment in case of a severe accident is given. The code comprises a KIN aerosol unit integrated into the KUPOL-M thermal-hydraulic code. Some features of aerosol behavior in severe NPP accidents are briefly described.

The kinetics of aerosol particle formation and removal in NPP severe accidents

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

Zatevakhin, Mikhail A.; Arefiev, Valentin K.; Semashko, Sergey E.

2016-06-08

Severe Nuclear Power Plant (NPP) accidents are accompanied by release of a massive amount of energy, radioactive products and hydrogen into the atmosphere of the NPP containment. A valid estimation of consequences of such accidents can only be carried out through the use of the integrated codes comprising a description of the basic processes which determine the consequences. A brief description of a coupled aerosol and thermal–hydraulic code to be used for the calculation of the aerosol kinetics within the NPP containment in case of a severe accident is given. The code comprises a KIN aerosol unit integrated into themore » KUPOL-M thermal–hydraulic code. Some features of aerosol behavior in severe NPP accidents are briefly described.« less

Extracellular Vesicle-Associated RNA as a Carrier of Epigenetic Information

PubMed Central

2017-01-01

Post-transcriptional regulation of messenger RNA (mRNA) metabolism and subcellular localization is of the utmost importance both during development and in cell differentiation. Besides carrying genetic information, mRNAs contain cis-acting signals (zip codes), usually present in their 5′- and 3′-untranslated regions (UTRs). By binding to these signals, trans-acting factors, such as RNA-binding proteins (RBPs), and/or non-coding RNAs (ncRNAs), control mRNA localization, translation and stability. RBPs can also form complexes with non-coding RNAs of different sizes. The release of extracellular vesicles (EVs) is a conserved process that allows both normal and cancer cells to horizontally transfer molecules, and hence properties, to neighboring cells. By interacting with proteins that are specifically sorted to EVs, mRNAs as well as ncRNAs can be transferred from cell to cell. In this review, we discuss the mechanisms underlying the sorting to EVs of different classes of molecules, as well as the role of extracellular RNAs and the associated proteins in altering gene expression in the recipient cells. Importantly, if, on the one hand, RBPs play a critical role in transferring RNAs through EVs, RNA itself could, on the other hand, function as a carrier to transfer proteins (i.e., chromatin modifiers, and transcription factors) that, once transferred, can alter the cell’s epigenome. PMID:28937658

Characterization of Plasma Flow through Magnetic Nozzles

DTIC Science & Technology

1990-02-01

DireeuI or, As! vookul tea I Scimet Divisiolu SECURITY CLASSIFICATION OF THIS PAGe..E. REPORT DOCUMENTATION PAGE M Form Approved Ia. REPORT SECURITY...v ACKNOW LEDGM ENTS ............................................................ v EXECUTIVE SUM M ARY...onvective Tranlsport ...... 43 .. .. aio Lo m .,..".h.,..... m 5 i lI, IVt LIl INT AND APPICATION OF A CODE FOR STEADY IDEAL MHID 1PLOW T1ROUW3iI

Phonological coding during reading.

PubMed

Leinenger, Mallorie

2014-11-01

The exact role that phonological coding (the recoding of written, orthographic information into a sound based code) plays during silent reading has been extensively studied for more than a century. Despite the large body of research surrounding the topic, varying theories as to the time course and function of this recoding still exist. The present review synthesizes this body of research, addressing the topics of time course and function in tandem. The varying theories surrounding the function of phonological coding (e.g., that phonological codes aid lexical access, that phonological codes aid comprehension and bolster short-term memory, or that phonological codes are largely epiphenomenal in skilled readers) are first outlined, and the time courses that each maps onto (e.g., that phonological codes come online early [prelexical] or that phonological codes come online late [postlexical]) are discussed. Next the research relevant to each of these proposed functions is reviewed, discussing the varying methodologies that have been used to investigate phonological coding (e.g., response time methods, reading while eye-tracking or recording EEG and MEG, concurrent articulation) and highlighting the advantages and limitations of each with respect to the study of phonological coding. In response to the view that phonological coding is largely epiphenomenal in skilled readers, research on the use of phonological codes in prelingually, profoundly deaf readers is reviewed. Finally, implications for current models of word identification (activation-verification model, Van Orden, 1987; dual-route model, e.g., M. Coltheart, Rastle, Perry, Langdon, & Ziegler, 2001; parallel distributed processing model, Seidenberg & McClelland, 1989) are discussed. (PsycINFO Database Record (c) 2014 APA, all rights reserved).

Reassigning stop codons via translation termination: How a few eukaryotes broke the dogma.

PubMed

Alkalaeva, Elena; Mikhailova, Tatiana

2017-03-01

The genetic code determines how amino acids are encoded within mRNA. It is universal among the vast majority of organisms, although several exceptions are known. Variant genetic codes are found in ciliates, mitochondria, and numerous other organisms. All revealed genetic codes (standard and variant) have at least one codon encoding a translation stop signal. However, recently two new genetic codes with a reassignment of all three stop codons were revealed in studies examining the protozoa transcriptomes. Here, we discuss this finding and the recent studies of variant genetic codes in eukaryotes. We consider the possible molecular mechanisms allowing the use of certain codons as sense and stop signals simultaneously. The results obtained by studying these amazing organisms represent a new and exciting insight into the mechanism of stop codon decoding in eukaryotes. Also see the video abstract here. © 2017 WILEY Periodicals, Inc.

Method for coding low entrophy data

NASA Technical Reports Server (NTRS)

Yeh, Pen-Shu (Inventor)

1995-01-01

A method of lossless data compression for efficient coding of an electronic signal of information sources of very low information rate is disclosed. In this method, S represents a non-negative source symbol set, (s(sub 0), s(sub 1), s(sub 2), ..., s(sub N-1)) of N symbols with s(sub i) = i. The difference between binary digital data is mapped into symbol set S. Consecutive symbols in symbol set S are then paired into a new symbol set Gamma which defines a non-negative symbol set containing the symbols (gamma(sub m)) obtained as the extension of the original symbol set S. These pairs are then mapped into a comma code which is defined as a coding scheme in which every codeword is terminated with the same comma pattern, such as a 1. This allows a direct coding and decoding of the n-bit positive integer digital data differences without the use of codebooks.

Consolidated List of Debarred, Suspended, and Ineligible Contractors as of April 10, 1985.

DTIC Science & Technology

1985-04-01

Administration code 202, but Fdral officials calling lon distance Juan L . Smith should use the FTS (Federal "blecommunications 523-4873 Sterr) or AUTVN (Automatic...Washington, DC 20405 Belle N. Davis (Codes A and B) Attention: Mrs. Juan L . Smith 475-8025 FTS/(202) 523-4873 3 r, % .1 𔄀 ’ % Cause and Treatment Codes...for violation of1961, the I is effctve win 0O; It Imposed the Buy American Act (41 U.S.C. 10b(b)) 4 -k % =",W""-- l m. .°6 ."._. ’ t. ,+... W LML

The Navy’s Coupled Atmosphere-Ocean-Wave Prediction System

DTIC Science & Technology

2011-04-15

is provided below. llMurly lurtir llcai Mux. N. M,*!. Heal I luv . .tn.l Wind Sura f»f \\. Hu. Alia il.t.iujn 2«OX) i n.H 1 1 1 T 1 1...DATE IDD-MM YYYY) 15-04-201 I 2. REPORT TYPE Conference Proceeding 3. DATES COVERED (From To) 4. TITLE AND SUBTITLE The Navy’s Coupled...Code 7Q3n A I Division, Code I Author, Code i .y "f^****^ Cv^py>v’V/v^ 1. Release of this paper is approved. 2. To the best knowledge of

A new Fortran 90 program to compute regular and irregular associated Legendre functions (new version announcement)

NASA Astrophysics Data System (ADS)

Schneider, Barry I.; Segura, Javier; Gil, Amparo; Guan, Xiaoxu; Bartschat, Klaus

2018-04-01

This is a revised and updated version of a modern Fortran 90 code to compute the regular Plm (x) and irregular Qlm (x) associated Legendre functions for all x ∈(- 1 , + 1) (on the cut) and | x | > 1 and integer degree (l) and order (m). The necessity to revise the code comes as a consequence of some comments of Prof. James Bremer of the UC//Davis Mathematics Department, who discovered that there were errors in the code for large integer degree and order for the normalized regular Legendre functions on the cut.

Evaluation and utilization of beam simulation codes for the SNS ion source and low energy beam transport developmenta)

NASA Astrophysics Data System (ADS)

Han, B. X.; Welton, R. F.; Stockli, M. P.; Luciano, N. P.; Carmichael, J. R.

2008-02-01

Beam simulation codes PBGUNS, SIMION, and LORENTZ-3D were evaluated by modeling the well-diagnosed SNS base line ion source and low energy beam transport (LEBT) system. Then, an investigation was conducted using these codes to assist our ion source and LEBT development effort which is directed at meeting the SNS operational and also the power-upgrade project goals. A high-efficiency H- extraction system as well as magnetic and electrostatic LEBT configurations capable of transporting up to 100mA is studied using these simulation tools.

Stephen Baylin, M.D., Explains Genetics and Epigenetics - TCGA

Cancer.gov

Stephen Baylin, M.D., at the Johns Hopkins Kimmel Cancer Center discusses the how alterations in the DNA code are deciphered in a combined effort with The Cancer Genome Atlas at the National Cancer Institute to decode the brain cancer genome.

Bismaleimide resins for flame resistant honeycomb sandwich panels

NASA Technical Reports Server (NTRS)

1978-01-01

A 60 kg batch of Resin M751 was produced in pilot plant scale. The resin was delivered to the prepreg company as an NMP solution. 100 kg of glass-fabric prepregs were fabricated. Prepreg characteristics and curing cycles for laminate fabrication were provided. A new batch of Resin M756 (Code M756 - 2) was synthesized.

76 FR 7809 - Notice of Mineral County Resource Advisory Committee Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2011-02-11

... Self-Determination Act of 2000 (Pub. L. 106-393, as amended by H.R. 1424 January 3, 2008) the Lob..., and May 11, 2011 at 6 p.m. until 8:30 p.m. in Superior, Montana for a business meeting. The meeting is...-10-11; 8:45 am] BILLING CODE 3410-11-M ...

Comparative and Evolutionary Analyses of Meloidogyne spp. Based on Mitochondrial Genome Sequences

PubMed Central

García, Laura Evangelina; Sánchez-Puerta, M. Virginia

2015-01-01

Molecular taxonomy and evolution of nematodes have been recently the focus of several studies. Mitochondrial sequences were proposed as an alternative for precise identification of Meloidogyne species, to study intraspecific variability and to follow maternal lineages. We characterized the mitochondrial genomes (mtDNAs) of the root knot nematodes M. floridensis, M. hapla and M. incognita. These were AT rich (81–83%) and highly compact, encoding 12 proteins, 2 rRNAs, and 22 tRNAs. Comparisons with published mtDNAs of M. chitwoodi, M. incognita (another strain) and M. graminicola revealed that they share protein and rRNA gene order but differ in the order of tRNAs. The mtDNAs of M. floridensis and M. incognita were strikingly similar (97–100% identity for all coding regions). In contrast, M. floridensis, M. chitwoodi, M. hapla and M. graminicola showed 65–84% nucleotide identity for coding regions. Variable mitochondrial sequences are potentially useful for evolutionary and taxonomic studies. We developed a molecular taxonomic marker by sequencing a highly-variable ~2 kb mitochondrial region, nad5-cox1, from 36 populations of root-knot nematodes to elucidate relationships within the genus Meloidogyne. Isolates of five species formed monophyletic groups and showed little intraspecific variability. We also present a thorough analysis of the mitochondrial region cox2-rrnS. Phylogenies based on either mitochondrial region had good discrimination power but could not discriminate between M. arenaria, M. incognita and M. floridensis. PMID:25799071

Combined group ECC protection and subgroup parity protection

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

Gara, Alan; Cheng, Dong; Heidelberger, Philip

A method and system are disclosed for providing combined error code protection and subgroup parity protection for a given group of n bits. The method comprises the steps of identifying a number, m, of redundant bits for said error protection; and constructing a matrix P, wherein multiplying said given group of n bits with P produces m redundant error correction code (ECC) protection bits, and two columns of P provide parity protection for subgroups of said given group of n bits. In the preferred embodiment of the invention, the matrix P is constructed by generating permutations of m bit widemore » vectors with three or more, but an odd number of, elements with value one and the other elements with value zero; and assigning said vectors to rows of the matrix P.« less

Using Modified-ISS Model to Evaluate Medication Administration Safety During Bar Code Medication Administration Implementation in Taiwan Regional Teaching Hospital.

PubMed

Ma, Pei-Luen; Jheng, Yan-Wun; Jheng, Bi-Wei; Hou, I-Ching

2017-01-01

Bar code medication administration (BCMA) could reduce medical errors and promote patient safety. This research uses modified information systems success model (M-ISS model) to evaluate nurses' acceptance to BCMA. The result showed moderate correlation between medication administration safety (MAS) to system quality, information quality, service quality, user satisfaction, and limited satisfaction.

''The W and M Are Mixing Me Up'': Use of a Visual Code in Verbal Short-Term Memory Tasks

ERIC Educational Resources Information Center

Best, W.; Howard, D.

2005-01-01

When normal participants are presented with written verbal short-term memory tasks (e.g., remembering a set of letters for immediate spoken recall) there is evidence to suggest that the information is re-coded into phonological form. This paper presents a single case study of MJK whose reading follows the pattern of phonological dyslexia. In…

A fast technique for computing syndromes of BCH and RS codes. [deep space network

NASA Technical Reports Server (NTRS)

Reed, I. S.; Truong, T. K.; Miller, R. L.

1979-01-01

A combination of the Chinese Remainder Theorem and Winograd's algorithm is used to compute transforms of odd length over GF(2 to the m power). Such transforms are used to compute the syndromes needed for decoding CBH and RS codes. The present scheme requires substantially fewer multiplications and additions than the conventional method of computing the syndromes directly.

Director of Small and Disadvantaged Business Utilization

DTIC Science & Technology

1989-03-17

Small and Disadvantaged Business Utilization References: (a) Title 15, United States Code (b) Title 10, United States Code (c) DoD 5025.1-M, "Department...position of Director of Small and Disadvantaged Business Utilization (Director, SADBU) under the direction, authority, and control of the Under...Defense Agencies, and the DoD Field Activities. C. RESPONSIBILITIES The Director of Small and Disadvantaged Business Utilization shall serve as the

Effects of Debris Entrainment and Multi-Phase Flow on Plug Loading in an MX Trench.

DTIC Science & Technology

1978-09-15

gas stream of density (pg) and velocity (Vg) is: -., * -) - * 2~ TD FD Pg (V P V) Vp-Vg I CD( TD ) (A.1) 4 where the drag coefficient (CD) is defined by...ATTN: FCPR ATTN: Code L53 , J. Forrest Field Command Naval Facilities Engineering Command Defense Nuclear Agency ATTN: Code 09M22C Livermore Division

Exposure of a liquefied gas container to an external fire.

PubMed

Raj, Phani K

2005-06-30

In liquefied gas, bulk-storage facilities and plants, the separation distances between storage tanks and between a tank and a line of adjoining property that can be built are governed by local regulations and/or codes (e.g. National Fire Protection Association (NFPA) 58, 2004). Separation distance requirements have been in the NFPA 58 Code for over 60 years; however, no scientific foundations (either theoretical or experimental) are available for the specified distances. Even though the liquefied petroleum gas (LPG) industry has operated safely over the years, there is a question as to whether the code-specified distances provide sufficient safety to LPG-storage tanks, when they are exposed to large external fires. A radiation heat-transfer-based model is presented in this paper. The temporal variation of the vapor-wetted tank-wall temperature is calculated when exposed to thermal radiation from an external, non-impinging, large, 30.5 m (100 ft) diameter, highly radiative, hydrocarbon fuel (pool) fire located at a specified distance. Structural steel wall of a pressurized, liquefied gas container (such as the ASME LP-Gas tank) begins to lose its strength, when the wall temperature approaches a critical temperature, 810 K (1000 degrees F). LP-Gas tank walls reaching close to this temperature will be a cause for major concern because of increased potential for tank failure, which could result in catastrophic consequences. Results from the model for exposure of different size ASME (LP-Gas) containers to a hydrocarbon pool fire of 30.5 m (100 ft) in diameter, located with its base edge at the separation distances specified by NFPA 58 [NFPA 58, Liquefied Petroleum Gas Code, Table 6.3.1, 2004 ed., National Fire Protection Association, Quincy, MA, 2004] indicate that the vapor-wetted wall temperature of the containers never reach the critical temperature under common wind conditions (0, 5 and 10 m/s), with the flame tilting towards the tank. This indicates that the separation distances specified in the code are adequate for non-impingement type of fires. The model can be used to test the efficacy of other similar codes and regulations for other materials.

Small Engine Technology (SET) - Task 14 Axisymmetric Engine Simulation Environment

NASA Technical Reports Server (NTRS)

Miller, Max J.

1999-01-01

As part of the NPSS (Numerical Propulsion Simulation System) project, NASA Lewis has a goal of developing an U.S. industry standard for an axisymmetric engine simulation environment. In this program, AlliedSignal Engines (AE) contributed to this goal by evaluating the ENG20 software and developing support tools. ENG20 is a NASA developed axisymmetric engine simulation tool. The project was divided into six subtasks which are summarized below: Evaluate the capabilities of the ENG20 code using an existing test case to see how this procedure can capture the component interactions for a full engine. Link AE's compressor and turbine axisymmetric streamline curvature codes (UD0300M and TAPS) with ENG20, which will provide the necessary boundary conditions for an ENG20 engine simulation. Evaluate GE's Global Data System (GDS), attempt to use GDS to do the linking of codes described in Subtask 2 above. Use a turbofan engine test case to evaluate various aspects of the system, including the linkage of UD0300M and TAPS with ENG20 and the GE data storage system. Also, compare the solution results with cycle deck results, axisymmetric solutions (UD0300M and TAPS), and test data to determine the accuracy of the solution. Evaluate the order of accuracy and the convergence time for the solution. Provide a monthly status report and a final formal report documenting AE's evaluation of ENG20. Provide the developed interfaces that link UD0300M and TAPS with ENG20, to NASA. The interface that links UD0300M with ENG20 will be compatible with the industr,, version of UD0300M.

Allele-Selective Transcriptome Recruitment to Polysomes Primed for Translation: Protein-Coding and Noncoding RNAs, and RNA Isoforms.

PubMed

Mascarenhas, Roshan; Pietrzak, Maciej; Smith, Ryan M; Webb, Amy; Wang, Danxin; Papp, Audrey C; Pinsonneault, Julia K; Seweryn, Michal; Rempala, Grzegorz; Sadee, Wolfgang

2015-01-01

mRNA translation into proteins is highly regulated, but the role of mRNA isoforms, noncoding RNAs (ncRNAs), and genetic variants remains poorly understood. mRNA levels on polysomes have been shown to correlate well with expressed protein levels, pointing to polysomal loading as a critical factor. To study regulation and genetic factors of protein translation we measured levels and allelic ratios of mRNAs and ncRNAs (including microRNAs) in lymphoblast cell lines (LCL) and in polysomal fractions. We first used targeted assays to measure polysomal loading of mRNA alleles, confirming reported genetic effects on translation of OPRM1 and NAT1, and detecting no effect of rs1045642 (3435C>T) in ABCB1 (MDR1) on polysomal loading while supporting previous results showing increased mRNA turnover of the 3435T allele. Use of high-throughput sequencing of complete transcript profiles (RNA-Seq) in three LCLs revealed significant differences in polysomal loading of individual RNA classes and isoforms. Correlated polysomal distribution between protein-coding and non-coding RNAs suggests interactions between them. Allele-selective polysome recruitment revealed strong genetic influence for multiple RNAs, attributable either to differential expression of RNA isoforms or to differential loading onto polysomes, the latter defining a direct genetic effect on translation. Genes identified by different allelic RNA ratios between cytosol and polysomes were enriched with published expression quantitative trait loci (eQTLs) affecting RNA functions, and associations with clinical phenotypes. Polysomal RNA-Seq combined with allelic ratio analysis provides a powerful approach to study polysomal RNA recruitment and regulatory variants affecting protein translation.

Heat transfer, thermal stress analysis and the dynamic behaviour of high power RF structures. [MARC and SUPERFISH codes

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

McKeown, J.; Labrie, J.P.

1983-08-01

A general purpose finite element computer code called MARC is used to calculate the temperature distribution and dimensional changes in linear accelerator rf structures. Both steady state and transient behaviour are examined with the computer model. Combining results from MARC with the cavity evaluation computer code SUPERFISH, the static and dynamic behaviour of a structure under power is investigated. Structure cooling is studied to minimize loss in shunt impedance and frequency shifts during high power operation. Results are compared with an experimental test carried out on a cw 805 MHz on-axis coupled structure at an energy gradient of 1.8 MeV/m.more » The model has also been used to compare the performance of on-axis and coaxial structures and has guided the mechanical design of structures suitable for average gradients in excess of 2.0 MeV/m at 2.45 GHz.« less

Improvements to Busquet's Non LTE algorithm in NRL's Hydro code

NASA Astrophysics Data System (ADS)

Klapisch, M.; Colombant, D.

1996-11-01

Implementation of the Non LTE model RADIOM (M. Busquet, Phys. Fluids B, 5, 4191 (1993)) in NRL's RAD2D Hydro code in conservative form was reported previously(M. Klapisch et al., Bull. Am. Phys. Soc., 40, 1806 (1995)).While the results were satisfactory, the algorithm was slow and not always converging. We describe here modifications that address the latter two shortcomings. This method is quicker and more stable than the original. It also gives information about the validity of the fitting. It turns out that the number and distribution of groups in the multigroup diffusion opacity tables - a basis for the computation of radiation effects in the ionization balance in RADIOM- has a large influence on the robustness of the algorithm. These modifications give insight about the algorithm, and allow to check that the obtained average charge state is the true average. In addition, code optimization resulted in greatly reduced computing time: The ratio of Non LTE to LTE computing times being now between 1.5 and 2.

Calculation of wall effects of flow on a perforated wall with a code of surface singularities

NASA Astrophysics Data System (ADS)

Piat, J. F.

1994-07-01

Simplifying assumptions are inherent in the analytic method previously used for the determination of wall interferences on a model in a wind tunnel. To eliminate these assumptions, a new code based on the vortex lattice method was developed. It is suitable for processing any shape of test sections with limited areas of porous wall, the characteristic of which can be nonlinear. Calculation of wall effects in S3MA wind tunnel, whose test section is rectangular 0.78 m x 0.56 m, and fitted with two or four perforated walls, have been performed. Wall porosity factors have been adjusted to obtain the best fit between measured and computed pressure distributions on the test section walls. The code was checked by measuring nearly equal drag coefficients for a model tested in S3MA wind tunnel (after wall corrections) and in S2MA wind tunnel whose test section is seven times larger (negligible wall corrections).

Identification and role of regulatory non-coding RNAs in Listeria monocytogenes.

PubMed

Izar, Benjamin; Mraheil, Mobarak Abu; Hain, Torsten

2011-01-01

Bacterial regulatory non-coding RNAs control numerous mRNA targets that direct a plethora of biological processes, such as the adaption to environmental changes, growth and virulence. Recently developed high-throughput techniques, such as genomic tiling arrays and RNA-Seq have allowed investigating prokaryotic cis- and trans-acting regulatory RNAs, including sRNAs, asRNAs, untranslated regions (UTR) and riboswitches. As a result, we obtained a more comprehensive view on the complexity and plasticity of the prokaryotic genome biology. Listeria monocytogenes was utilized as a model system for intracellular pathogenic bacteria in several studies, which revealed the presence of about 180 regulatory RNAs in the listerial genome. A regulatory role of non-coding RNAs in survival, virulence and adaptation mechanisms of L. monocytogenes was confirmed in subsequent experiments, thus, providing insight into a multifaceted modulatory function of RNA/mRNA interference. In this review, we discuss the identification of regulatory RNAs by high-throughput techniques and in their functional role in L. monocytogenes.

Absolute gene expression patterns of thioredoxin and glutaredoxin redox systems in mouse.

PubMed

Jurado, Juan; Prieto-Alamo, María-José; Madrid-Rísquez, José; Pueyo, Carmen

2003-11-14

This work provides the first absolute expression patterns of genes coding for all known components of both thioredoxin (Trx) and glutaredoxin (Grx) systems in mouse: Trx1, Trx2, Grx1, Grx2, TrxR1, TrxR2, thioredoxin/glutathione reductase, and glutathione reductase. We devised a novel assay that, combining the advantages of multiplex and real-time PCR, streamlines the quantitation of the actual mRNA copy numbers in whole-animal experiments. Quantitations reported establish differences among adult organs and embryonic stages, compare mRNA decay rates, explore the significance of alternative mRNA isoforms derived from TrxR1 and Grx2 genes, and examine the time-course expression upon superoxide stress promoted by paraquat. Collectively, these quantitations show: i) unique expression profiles for each transcript and mouse organ examined, yet with some general trends like the higher amounts of mRNA species coding for thioredoxins than those coding for the reductases that control their redox states and activities; ii) continuous expression during embryogenesis with outstanding up-regulations of Trx1 and TrxR1 mRNAs in specific temporal sequences; iii) drastic differences in mRNA stability, liver decay rates range from 2.8 h (thioredoxin/glutathione reductase) to >/= 35 h (Trx1 and Trx2), and directly correlate with mRNA steady-state values; iv) testis-specific differences in the amounts (relative to total isoforms) of transcripts yielding the mitochondrial Grx2a and 67-kDa TrxR1 variants; and v) coordinated up-regulation of TrxR1 and glutathione reductase mRNAs in response to superoxide stress in an organ-specific manner. Further insights into in vivo roles of these redox systems should be gained from more focused studies of the mechanisms underlying the vast differences reported here at the transcript level.

A Business Case Analysis of the M4/AR-15 Market

DTIC Science & Technology

2015-09-01

release; distribution is unlimited 12b. DISTRIBUTION CODE A 13. ABSTRACT This research provides a business case analysis of the M4/AR-15... research provides a business case analysis of the M4/AR-15 market. The market analysis was conducted to fill missing gaps on the M4/AR-15 market...2  B.  PROBLEM STATEMENT .............................................................................3  C.  RESEARCH OBJECTIVES

Alterations in autobiographical memory for a blast event in Operation Enduring Freedom and Operation Iraqi Freedom veterans with mild traumatic brain injury.

PubMed

Palombo, Daniela J; Kapson, Heather S; Lafleche, Ginette; Vasterling, Jennifer J; Marx, Brian P; Franz, Molly; Verfaellie, Mieke

2015-07-01

Although loss of consciousness associated with moderate or severe traumatic brain injury (TBI) is thought to interfere with encoding of the TBI event, little is known about the effects of mild TBI (mTBI), which typically involves only transient disruption in consciousness. Blast-exposed Afghanistan and Iraq War veterans were asked to recall the blast event. Participants were stratified based on whether the blast was associated with probable mTBI (n = 50) or not (n = 25). Narratives were scored for organizational structure (i.e., coherence) using the Narrative Coherence Coding Scheme (Reese et al., 2011) and episodic recollection using the Autobiographical Interview Coding Procedures (Levine et al., 2002). The mTBI group produced narratives that were less coherent but contained more episodic details than those of the no-TBI group. These results suggest that mTBI interferes with the organizational quality of memory in a manner that is independent of episodic detail generation. (c) 2015 APA, all rights reserved).

Extension of the energy range of experimental activation cross-sections data of deuteron induced nuclear reactions on indium up to 50MeV.

PubMed

Tárkányi, F; Ditrói, F; Takács, S; Hermanne, A; Ignatyuk, A V

2015-11-01

The energy range of our earlier measured activation cross-sections data of longer-lived products of deuteron induced nuclear reactions on indium were extended from 40MeV up to 50MeV. The traditional stacked foil irradiation technique and non-destructive gamma spectrometry were used. No experimental data were found in literature for this higher energy range. Experimental cross-sections for the formation of the radionuclides (113,110)Sn, (116m,115m,114m,113m,111,110g,109)In and (115)Cd are reported in the 37-50MeV energy range, for production of (110)Sn and (110g,109)In these are the first measurements ever. The experimental data were compared with the results of cross section calculations of the ALICE and EMPIRE nuclear model codes and of the TALYS 1.6 nuclear model code as listed in the on-line library TENDL-2014. Copyright © 2015 Elsevier Ltd. All rights reserved.

Standardisation of the (129)I, (151)Sm and (166m)Ho activity concentration using the CIEMAT/NIST efficiency tracing method.

PubMed

Altzitzoglou, Timotheos; Rožkov, Andrej

2016-03-01

The (129)I, (151)Sm and (166m)Ho standardisations using the CIEMAT/NIST efficiency tracing method, that have been carried out in the frame of the European Metrology Research Program project "Metrology for Radioactive Waste Management" are described. The radionuclide beta counting efficiencies were calculated using two computer codes CN2005 and MICELLE2. The sensitivity analysis of the code input parameters (ionization quenching factor, beta shape factor) on the calculated efficiencies was performed, and the results are discussed. The combined relative standard uncertainty of the standardisations of the (129)I, (151)Sm and (166m)Ho solutions were 0.4%, 0.5% and 0.4%, respectively. The stated precision obtained using the CIEMAT/NIST method is better than that previously reported in the literature obtained by the TDCR ((129)I), the 4πγ-NaI ((166m)Ho) counting or the CIEMAT/NIST method ((151)Sm). Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

Physicsdesign point for a 1MW fusion neutron source

NASA Astrophysics Data System (ADS)

Woodruff, Simon; Melnik, Paul; Sieck, Paul; Stuber, James; Romero-Talamas, Carlos; O'Bryan, John; Miller, Ronald

2016-10-01

We are developing a design point for a spheromak experiment heated by adiabatic compression for use as a compact neutron source. We utilize the CORSICA and NIMROD MHD codes as well as analytic modeling to assess a concept with target parameters R0 =0.5m, Rf =0.17m, T0 =1keV, Tf =8keV, n0 =2e20m-3 and nf = 5e21m-3, with radial convergence of C =R0/Rf =3. We present results from CORSICA showing the placement of coils and passive structure to ensure stability during compression. We specify target parameters for the compression in terms of plasma beta, formation efficiency and energy confinement. We present results simulations of magnetic compression using the NIMROD code to examine the role of rotation on the stability and confinement of the spheromak as it is compressed. Supported by DARPA Grant N66001-14-1-4044 and IAEA CRP on Compact Fusion Neutron Sources.

Identification of long non-coding RNA and mRNA expression in βΒ2-crystallin knockout mice.

PubMed

Jia, Yin; Xiong, Kang; Ren, Han-Xiao; Li, Wen-Jie

2018-05-01

βΒ2-crystallin (CRYBB2) is expressed at an increased level in the postnatal lens cortex and is associated with cataracts. Improved understanding of the underlying biology of cataracts is likely to be critical for the development of early detection strategies and new therapeutics. The present study aimed to identify long non-coding RNAs (lncRNAs) and mRNAs associated with CRYBB2 knockdown (KO)-induced cataracts. RNAs from 3 non-treated mice and 3 CRYBB2 KO mice were analyzed using the Affymetrix GeneChip Mouse Gene 2.0 ST array. A total of 149 lncRNAs and 803 mRNAs were identified to have upregulated expression, including Snora73b, Klk1b22 and Rnu3a, while the expression levels of 180 lncRNAs and 732 mRNAs were downregulated in CRYBB2 KO mice, including Snord82, Snhg9 and Foxn3. This lncRNA and mRNA expression profile of mice with CRYBB2 KO provides a basis for studying the genetic mechanisms of cataract progression.

The Drosophila genes CG14593 and CG30106 code for G-protein-coupled receptors specifically activated by the neuropeptides CCHamide-1 and CCHamide-2.

PubMed

Hansen, Karina K; Hauser, Frank; Williamson, Michael; Weber, Stine B; Grimmelikhuijzen, Cornelis J P

2011-01-07

Recently, a novel neuropeptide, CCHamide, was discovered in the silkworm Bombyx mori (L. Roller et al., Insect Biochem. Mol. Biol. 38 (2008) 1147-1157). We have now found that all insects with a sequenced genome have two genes, each coding for a different CCHamide, CCHamide-1 and -2. We have also cloned and deorphanized two Drosophila G-protein-coupled receptors (GPCRs) coded for by genes CG14593 and CG30106 that are selectively activated by Drosophila CCH-amide-1 (EC(50), 2×10(-9) M) and CCH-amide-2 (EC(50), 5×10(-9) M), respectively. Gene CG30106 (symbol synonym CG14484) has in a previous publication (E.C. Johnson et al., J. Biol. Chem. 278 (2003) 52172-52178) been wrongly assigned to code for an allatostatin-B receptor. This conclusion is based on our findings that the allatostatins-B do not activate the CG30106 receptor and on the recent findings from other research groups that the allatostatins-B activate an unrelated GPCR coded for by gene CG16752. Comparative genomics suggests that a duplication of the CCHamide neuropeptide signalling system occurred after the split of crustaceans and insects, about 410 million years ago, because only one CCHamide neuropeptide gene is found in the water flea Daphnia pulex (Crustacea) and the tick Ixodes scapularis (Chelicerata). Copyright © 2010 Elsevier Inc. All rights reserved.

Stand-alone front-end system for high- frequency, high-frame-rate coded excitation ultrasonic imaging.

PubMed

Park, Jinhyoung; Hu, Changhong; Shung, K Kirk

2011-12-01

A stand-alone front-end system for high-frequency coded excitation imaging was implemented to achieve a wider dynamic range. The system included an arbitrary waveform amplifier, an arbitrary waveform generator, an analog receiver, a motor position interpreter, a motor controller and power supplies. The digitized arbitrary waveforms at a sampling rate of 150 MHz could be programmed and converted to an analog signal. The pulse was subsequently amplified to excite an ultrasound transducer, and the maximum output voltage level achieved was 120 V(pp). The bandwidth of the arbitrary waveform amplifier was from 1 to 70 MHz. The noise figure of the preamplifier was less than 7.7 dB and the bandwidth was 95 MHz. Phantoms and biological tissues were imaged at a frame rate as high as 68 frames per second (fps) to evaluate the performance of the system. During the measurement, 40-MHz lithium niobate (LiNbO(3)) single-element lightweight (<;0.28 g) transducers were utilized. The wire target measure- ment showed that the -6-dB axial resolution of a chirp-coded excitation was 50 μm and lateral resolution was 120 μm. The echo signal-to-noise ratios were found to be 54 and 65 dB for the short burst and coded excitation, respectively. The contrast resolution in a sphere phantom study was estimated to be 24 dB for the chirp-coded excitation and 15 dB for the short burst modes. In an in vivo study, zebrafish and mouse hearts were imaged. Boundaries of the zebrafish heart in the image could be differentiated because of the low-noise operation of the implemented system. In mouse heart images, valves and chambers could be readily visualized with the coded excitation.

Coding of obesity in administrative hospital discharge abstract data: accuracy and impact for future research studies.

PubMed

Martin, Billie-Jean; Chen, Guanmin; Graham, Michelle; Quan, Hude

2014-02-13

Obesity is a pervasive problem and a popular subject of academic assessment. The ability to take advantage of existing data, such as administrative databases, to study obesity is appealing. The objective of our study was to assess the validity of obesity coding in an administrative database and compare the association between obesity and outcomes in an administrative database versus registry. This study was conducted using a coronary catheterization registry and an administrative database (Discharge Abstract Database (DAD)). A Body Mass Index (BMI) ≥30 kg/m2 within the registry defined obesity. In the DAD obesity was defined by diagnosis codes E65-E68 (ICD-10). The sensitivity, specificity, negative predictive value (NPV) and positive predictive value (PPV) of an obesity diagnosis in the DAD was determined using obesity diagnosis in the registry as the referent. The association between obesity and outcomes was assessed. The study population of 17380 subjects was largely male (68.8%) with a mean BMI of 27.0 kg/m2. Obesity prevalence was lower in the DAD than registry (2.4% vs. 20.3%). A diagnosis of obesity in the DAD had a sensitivity 7.75%, specificity 98.98%, NPV 80.84% and PPV 65.94%. Obesity was associated with decreased risk of death or re-hospitalization, though non-significantly within the DAD. Obesity was significantly associated with an increased risk of cardiac procedure in both databases. Overall, obesity was poorly coded in the DAD. However, when coded, it was coded accurately. Administrative databases are not an optimal datasource for obesity prevalence and incidence surveillance but could be used to define obese cohorts for follow-up.

Validation of The Health Improvement Network (THIN) database for epidemiologic studies of chronic kidney disease.

PubMed

Denburg, Michelle R; Haynes, Kevin; Shults, Justine; Lewis, James D; Leonard, Mary B

2011-11-01

Chronic kidney disease (CKD) is a prevalent and important outcome and covariate in pharmacoepidemiology. The Health Improvement Network (THIN) in the UK represents a unique resource for population-based studies of CKD. We compiled a valid list of Read codes to identify subjects with moderate to advanced CKD. A cross-sectional validation study was performed to identify codes that best define CKD Stages 3-5. All subjects with at least one non-zero measure of serum creatinine after 1 January 2002 were included. Estimated glomerular filtration rate (eGFR) was calculated according to the Schwartz formula for subjects aged < 18 years and the Modification of Diet in Renal Disease formula for subjects aged ≥ 18 years. CKD was defined as an eGFR <60 mL/minute/1.73 m² on at least two occasions, more than 90 days apart. The laboratory definition identified 230,426 subjects with CKD, for a period prevalence in 2008 of 4.56% (95%CI, 4.54-4.58). A list of 45 Read codes was compiled, which yielded a positive predictive value of 88.9% (95%CI, 88.7-89.1), sensitivity of 48.8%, negative predictive value of 86.5%, and specificity of 98.2%. Of the 11.1% of subjects with a code who did not meet the laboratory definition, 83.6% had at least one eGFR <60. The most commonly used code was for CKD Stage 3. The proposed list of codes can be used to accurately identify CKD when serum creatinine data are limited. The most sensitive approach for the detection of CKD is to use this list to supplement creatinine measures. Copyright © 2011 John Wiley & Sons, Ltd.

Group delay variations of GPS transmitting and receiving antennas

NASA Astrophysics Data System (ADS)

Wanninger, Lambert; Sumaya, Hael; Beer, Susanne

2017-09-01

GPS code pseudorange measurements exhibit group delay variations at the transmitting and the receiving antenna. We calibrated C1 and P2 delay variations with respect to dual-frequency carrier phase observations and obtained nadir-dependent corrections for 32 satellites of the GPS constellation in early 2015 as well as elevation-dependent corrections for 13 receiving antenna models. The combined delay variations reach up to 1.0 m (3.3 ns) in the ionosphere-free linear combination for specific pairs of satellite and receiving antennas. Applying these corrections to the code measurements improves code/carrier single-frequency precise point positioning, ambiguity fixing based on the Melbourne-Wübbena linear combination, and determination of ionospheric total electron content. It also affects fractional cycle biases and differential code biases.

Design of neurophysiologically motivated structures of time-pulse coded neurons

NASA Astrophysics Data System (ADS)

Krasilenko, Vladimir G.; Nikolsky, Alexander I.; Lazarev, Alexander A.; Lobodzinska, Raisa F.

2009-04-01

The common methodology of biologically motivated concept of building of processing sensors systems with parallel input and picture operands processing and time-pulse coding are described in paper. Advantages of such coding for creation of parallel programmed 2D-array structures for the next generation digital computers which require untraditional numerical systems for processing of analog, digital, hybrid and neuro-fuzzy operands are shown. The optoelectronic time-pulse coded intelligent neural elements (OETPCINE) simulation results and implementation results of a wide set of neuro-fuzzy logic operations are considered. The simulation results confirm engineering advantages, intellectuality, circuit flexibility of OETPCINE for creation of advanced 2D-structures. The developed equivalentor-nonequivalentor neural element has power consumption of 10mW and processing time about 10...100us.

Material Surface Damage under High Pulse Loads Typical for ELM Bursts and Disruptions in ITER

NASA Astrophysics Data System (ADS)

Landman, I. S.; Pestchanyi, S. E.; Safronov, V. M.; Bazylev, B. N.; Garkusha, I. E.

The divertor armour material for the tokamak ITER will probably be carbon manufactured as fibre composites (CFC) and tungsten as either brush-like structures or thin plates. Disruptive pulse loads where the heat deposition Q may reach 102 MJ/m 2 on a time scale Ïä of 3 ms, or operation in the ELMy H-mode at repetitive loads with Q âe 1/4 3 MJ/m2 and Ïä âe 1/4 0.3 ms, deteriorate armour performance. This work surveys recent numerical and experimental investigations of erosion mechanisms at these off-normal regimes carried out at FZK, TRINITI, and IPP-Kharkov. The modelling uses the anisotropic thermomechanics code PEGASUS-3D for the simulation of CFC brittle destruction, the surface melt motion code MEMOS-1.5D for tungsten targets, and the radiation-magnetohydrodynamics code FOREV-2D for calculating the plasma impact and simulating the heat loads for the ITER regime. Experiments aimed at validating these codes are being carried out at the plasma gun facilities MK-200UG, QSPA-T, and QSPA-Kh50 which produce powerful streams of hydrogen plasma with Q = 10–30 MJ/m2 and Ïä = 0.03–0.5 ms. Essential results are, for CFC targets, the experiments at high heat loads and the development of a local overheating model incorporated in PEGASUS-3D, and for the tungsten targets the analysis of evaporation- and melt motion erosion on the base of MEMOS-1.5D calculations for repetitive ELMs.

Neutron-encoded Signatures Enable Product Ion Annotation From Tandem Mass Spectra*

PubMed Central

Richards, Alicia L.; Vincent, Catherine E.; Guthals, Adrian; Rose, Christopher M.; Westphall, Michael S.; Bandeira, Nuno; Coon, Joshua J.

2013-01-01

We report the use of neutron-encoded (NeuCode) stable isotope labeling of amino acids in cell culture for the purpose of C-terminal product ion annotation. Two NeuCode labeling isotopologues of lysine, 13C615N2 and 2H8, which differ by 36 mDa, were metabolically embedded in a sample proteome, and the resultant labeled proteins were combined, digested, and analyzed via liquid chromatography and mass spectrometry. With MS/MS scan resolving powers of ∼50,000 or higher, product ions containing the C terminus (i.e. lysine) appear as a doublet spaced by exactly 36 mDa, whereas N-terminal fragments exist as a single m/z peak. Through theory and experiment, we demonstrate that over 90% of all y-type product ions have detectable doublets. We report on an algorithm that can extract these neutron signatures with high sensitivity and specificity. In other words, of 15,503 y-type product ion peaks, the y-type ion identification algorithm correctly identified 14,552 (93.2%) based on detection of the NeuCode doublet; 6.8% were misclassified (i.e. other ion types that were assigned as y-type products). Searching NeuCode labeled yeast with PepNovo+ resulted in a 34% increase in correct de novo identifications relative to searching through MS/MS only. We use this tool to simplify spectra prior to database searching, to sort unmatched tandem mass spectra for spectral richness, for correlation of co-fragmented ions to their parent precursor, and for de novo sequence identification. PMID:24043425

A&M. TAN607. Elevation for secondphase expansion of A&M Building. Work ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. TAN-607. Elevation for second-phase expansion of A&M Building. Work areas south of the Carpentry Shop. High-bay shop, decontamination room at south-most end. Approved by INEEL Classification Office for public release. Ralph M. Parsons 1299-5-ANP/GE-3-607-A 106. Date: August 1956. INEEL index code no. 034-0607-00-693-107166 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

Aerodynamic Heating Computations for Projectiles. Volume 2. Swept Wing Calculations Using the Planar Version of the ABRES Shape Change Code (PLNRASCC)

DTIC Science & Technology

1984-06-01

Mt n o ro " g < - OD-O)C 0N v : _grI40N40 O I0 eeg gr, Wn *, c.M b-C N Z ý VN dN N C4 C4 C4 e"Ř!02AWVý 00 0 P- 1( or . . . . . . . . . i...the ABRES Shape Change Code (ASCC)," Acurex Report TM -80-31/AS, July 1980. 3. M. J. Abbett, "Finite Difference Solution of the Subsonic/Supersonic...Development Command US Army AMCCOM Technical Support Activity ATTN: DRSMC- TDC (D) ATTN: DELSD-L DRSMC-TSS (D) Fort Monmouth, NJ 07703 DRSMC-LCA-F (D) Mr. 0

The change of radial power factor distribution due to RCCA insertion at the first cycle core of AP1000

NASA Astrophysics Data System (ADS)

Susilo, J.; Suparlina, L.; Deswandri; Sunaryo, G. R.

2018-02-01

The using of a computer program for the PWR type core neutronic design parameters analysis has been carried out in some previous studies. These studies included a computer code validation on the neutronic parameters data values resulted from measurements and benchmarking calculation. In this study, the AP1000 first cycle core radial power peaking factor validation and analysis were performed using CITATION module of the SRAC2006 computer code. The computer code has been also validated with a good result to the criticality values of VERA benchmark core. The AP1000 core power distribution calculation has been done in two-dimensional X-Y geometry through ¼ section modeling. The purpose of this research is to determine the accuracy of the SRAC2006 code, and also the safety performance of the AP1000 core first cycle operating. The core calculations were carried out with the several conditions, those are without Rod Cluster Control Assembly (RCCA), by insertion of a single RCCA (AO, M1, M2, MA, MB, MC, MD) and multiple insertion RCCA (MA + MB, MA + MB + MC, MA + MB + MC + MD, and MA + MB + MC + MD + M1). The maximum power factor of the fuel rods value in the fuel assembly assumedapproximately 1.406. The calculation results analysis showed that the 2-dimensional CITATION module of SRAC2006 code is accurate in AP1000 power distribution calculation without RCCA and with MA+MB RCCA insertion.The power peaking factor on the first operating cycle of the AP1000 core without RCCA, as well as with single and multiple RCCA are still below in the safety limit values (less then about 1.798). So in terms of thermal power generated by the fuel assembly, then it can be considered that the AP100 core at the first operating cycle is safe.

Variations in Medicare Reimbursement in Radiation Oncology: An Analysis of the Medicare Provider Utilization and Payment Data Set

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

Vu, Charles C.; Lanni, Thomas B.; Robertson, John M., E-mail: JRobertson@beaumont.edu

Purpose: The purposes of this study were to summarize recently published data on Medicare reimbursement to individual radiation oncologists and to identify the causes of variation in Medicare reimbursement in radiation oncology. Methods and Materials: The Medicare Provider Utilization and Payment Data: Physician and Other Supplier Public Use File (POSPUF), which details nearly all services provided by radiation oncologists in 2012, was used for this study. The data were filtered and analyzed by physician and by billing code. Statistical analysis was performed to identify differences in reimbursements based on sex, rurality, billing of technical services, or location in a certificatemore » of need (CON) state. Results: There were 4135 radiation oncologists who received a total of $1,499,625,803 in payments from Medicare in 2012. Seventy-five percent of radiation oncologists were male. The median reimbursement was $146,453. The code with the highest total reimbursement was 77418 (radiation treatment delivery intensity modulated radiation therapy [IMRT]). The most commonly billed evaluation and management (E/M) code for new visits was 99205 (49%). The most commonly billed E/M code for established visits was 99213 (54%). Forty percent of providers billed none of their new office visits using 99205 (the highest E/M billing code), whereas 34% of providers billed all of their new office visits using 99205. For the 1510 radiation oncologists (37%) who billed technical services, median Medicare reimbursement was $606,008, compared with $93,921 for all other radiation oncologists (P<.001). On multivariate analysis, technical services billing (P<.001), male sex (P<.001), and rural location (P=.007) were predictive of higher Medicare reimbursement. Conclusions: The billing of technical services, with their high capital and labor overhead requirements, limits any comparison in reimbursement between individual radiation oncologists or between radiation oncologists and other specialists. Male sex and rural practice location are independent predictors of higher total Medicare reimbursements.« less

Variations in Medicare Reimbursement in Radiation Oncology: An Analysis of the Medicare Provider Utilization and Payment Data Set.

PubMed

Vu, Charles C; Lanni, Thomas B; Robertson, John M

2016-04-01

The purposes of this study were to summarize recently published data on Medicare reimbursement to individual radiation oncologists and to identify the causes of variation in Medicare reimbursement in radiation oncology. The Medicare Provider Utilization and Payment Data: Physician and Other Supplier Public Use File (POSPUF), which details nearly all services provided by radiation oncologists in 2012, was used for this study. The data were filtered and analyzed by physician and by billing code. Statistical analysis was performed to identify differences in reimbursements based on sex, rurality, billing of technical services, or location in a certificate of need (CON) state. There were 4135 radiation oncologists who received a total of $1,499,625,803 in payments from Medicare in 2012. Seventy-five percent of radiation oncologists were male. The median reimbursement was $146,453. The code with the highest total reimbursement was 77418 (radiation treatment delivery intensity modulated radiation therapy [IMRT]). The most commonly billed evaluation and management (E/M) code for new visits was 99205 (49%). The most commonly billed E/M code for established visits was 99213 (54%). Forty percent of providers billed none of their new office visits using 99205 (the highest E/M billing code), whereas 34% of providers billed all of their new office visits using 99205. For the 1510 radiation oncologists (37%) who billed technical services, median Medicare reimbursement was $606,008, compared with $93,921 for all other radiation oncologists (P<.001). On multivariate analysis, technical services billing (P<.001), male sex (P<.001), and rural location (P=.007) were predictive of higher Medicare reimbursement. The billing of technical services, with their high capital and labor overhead requirements, limits any comparison in reimbursement between individual radiation oncologists or between radiation oncologists and other specialists. Male sex and rural practice location are independent predictors of higher total Medicare reimbursements. Copyright © 2016 Elsevier Inc. All rights reserved.

On the possible origin and evolution of the genetic code

NASA Technical Reports Server (NTRS)

Jukes, T. H.

1974-01-01

The genetic code is examined for indications of possible preceding codes that existed during early evolution. Eight of the 20 amino acids are coded by 'quartets' of codons with fourfold degeneracy, and 16 such quartets can exist, so that an earlier code could have provided for 15 or 16 amino acids, rather than 20. If twofold degeneracy is postulated for the first position of the codon, there could have been ten amino acids in the code. It is speculated that these may have been phenylalanine, valine, proline, alanine, histidine, glutamine, glutanic acid, aspartic acid, cysteine and glycine. There is a notable deficiency of arginine in proteins, despite the fact that it has six codons. Simultaneously, there is more lysine in proteins than would be expected from its two codons, if the four bases in mRNA are equiprobable and are arranged randomly. It is speculated that arginine is an 'intruder' into the genetic code, and that it may have displayed another amino acid such as ornithine, or may even have displayed lysine from some of its previous codon assignments. As a result, natural selection has favored lysine against the fact that it has only two codons.

A&M. TAN607. Foundation plan for hot shop floor and pool. ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. TAN-607. Foundation plan for hot shop floor and pool. Tunnels to turntable. Motor pit. Ralph M. Parsons 902-3-ANP-607-S128. Date: December 1952. Approved by INEEL Classification Office for public release. INEEL index code no. 034-0607-62-693-160722 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

A&M. TAN607. Special service cubicle (hot cell). Details include Zpipe ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. TAN-607. Special service cubicle (hot cell). Details include Z-pipe and stepped plug penetrations through shielding wall. Ralph M. Parsons 902-3-ANP-607-A116. Date: December 1952. Approved by INEEL Classification Office for public release. INEEL index code no. 034-0607-693-106767 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

A&M. TAN607. Structural supports for biparting door on east wall ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. TAN-607. Structural supports for biparting door on east wall of hot shop. Special services cubicle shielding. Ralph M. Parsons 902-3-ANP-607-S141. Date: December 1952. Approved by INEEL Classification Office for public release. INEEL index code no. 034-0607-60-693-106785 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

A&M. TAN607 second floor plan for cold assembly area. Metallurgical ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. TAN-607 second floor plan for cold assembly area. Metallurgical lab, chemistry lab, nuclear instrument lab, equipment rooms. Ralph M. Parsons 902-ANP-607-A 102. Date: December 1952. Approved by INEEL Classification Office for public release. INEEL index code no. 034-0607-693-106754 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

Optical Communications: A Compendium of Signal Formats, Receiver Architectures, Analysis Mathematics, and Performance Characteristics

DTIC Science & Technology

2005-09-09

the properties that Ps 2 = (2N,) M = 2 (147) Ps4 = 0-(l-Ps 2 ) 2 M =4 . (148) Interestingly, the bit-error probability from Gray-coded 4PSK is the...comparisons will motivate the reader to invent efficient systems that can achieve the theoretical possibilities. 61 REFERENCES [1] Ban, M., Kurokawa, K

Optimum Boundaries of Signal-to-Noise Ratio for Adaptive Code Modulations

DTIC Science & Technology

2017-11-14

1510–1521, Feb. 2015. [2]. Pursley, M. B. and Royster, T. C., “Adaptive-rate nonbinary LDPC coding for frequency - hop communications ,” IEEE...and this can cause a very narrowband noise near the center frequency during USRP signal acquisition and generation. This can cause a high BER...Final Report APPROVED FOR PUBLIC RELEASE; DISTRIBUTION IS UNLIMITED. AIR FORCE RESEARCH LABORATORY Space Vehicles Directorate 3550 Aberdeen Ave

Face Aftereffects Indicate Dissociable, but Not Distinct, Coding of Male and Female Faces

ERIC Educational Resources Information Center

Jaquet, Emma; Rhodes, Gillian

2008-01-01

It has been claimed that exposure to distorted faces of one sex induces perceptual aftereffects for test faces that are of the same sex, but not for test faces of the other sex (A. C. Little, L. M. DeBruine, & B. C. Jones, 2005). This result suggests that male and female faces have separate neural coding. Given the high degree of visual similarity…

Estimating the Depth of the Navy Recruiting Market

DTIC Science & Technology

2016-09-01

recommend that NRC make use of the Poisson regression model in order to determine high-yield ZIP codes for market depth. 14. SUBJECT...recommend that NRC make use of the Poisson regression model in order to determine high-yield ZIP codes for market depth. vi THIS PAGE INTENTIONALLY LEFT...DEPTH OF THE NAVY RECRUITING MARKET by Emilie M. Monaghan September 2016 Thesis Advisor: Lyn R. Whitaker Second Reader: Jonathan K. Alt

"¿Cómo Estas?" "I'm Good." Conversational Code-Switching Is Related to Profiles of Expressive and Receptive Proficiency in Spanish-English Bilingual Toddlers

ERIC Educational Resources Information Center

Ribot, Krystal M.; Hoff, Erika

2014-01-01

Relations between bilingual children's patterns of conversational code-switching (responding to one language with another), the balance of their dual language input, and their expressive and receptive proficiency in two languages were examined in 115 2½-year-old simultaneous Spanish-English bilinguals in the U.S. Children were more likely to…

Simulation of Devices with Molecular Potentials

DTIC Science & Technology

2013-12-22

10] W. R. Frensley, Wigner - function model of a resonant-tunneling semiconductor de- vice, Phys. Rev. B, 36 (1987), pp. 1570–1580. 6 [11] M. J...develop the principal investigator’s Wigner -Poisson code and extend that code to deal with longer devices and more complex barrier profiles. Over...Research Triangle Park, NC 27709-2211 Molecular Confirmation, Sparse Interpolation, Wigner -Poisson Equation, Parallel Algorithms REPORT DOCUMENTATION PAGE 11

Advances in RNA Structure Determination | Center for Cancer Research

Cancer.gov

The recent years have witnessed a revolution in the field of RNA structure and function. Until recently the main contribution of RNA in cellular and disease functions was considered to be a role defined by the central dogma, namely DNA codes for mRNAs, which in turn encode for proteins, a notion facilitated by non-coding ribosomal RNA and tRNA. It was also assumed at the time

Productivity Enhancement Program (PEP) for the Power Plant Division, Naval Air Rework Facility, North Island, San Diego. Preliminary Data Required.

DTIC Science & Technology

1984-02-01

97322 C9 571H0 NOTE 1--Ht» 360214-77 M.ORKID MDRA i D - \\—r— .ofjTxx .05r51-8* 62 ZBJA 0 ZANA D YBFA 0 : : 1.S508-P81 2F-SEE...Navy Recruiting Command (Code 20) Commanding Officer, Naval Aerospace Medical Institute (Library Code 12) (2) Commanding Officer Naval Technical

DoD STINFO Manager Training Course STINFO Documentation

DTIC Science & Technology

2002-05-01

nawcws2.wsmr.army.mil PENNSYLVANIA ONR Manufacturing Technology Det Carderock Div NAVSURFWARCEN Attn: Philip M. Broudy (Code 20) John Bozewicz (Code 911...Available NTIS; 91N33013.) AD-A252 069 11 Pinelli, Thomas E.; Madeline Henderson; Ann P. Bishop; and Philip Doty. Chronology of Selected Literature...Mindy L Kotler . "Japanese Tech- nological Innovation: Implications for Large Commercial Aircraft and Knowledge Diffusion." Paper presented at the

Planned Monolayer Assemblies by Adsorption

DTIC Science & Technology

1988-09-01

RESEARCH OFFICE OF TBE U.S. ARMY Xcndn, Engan aONRAcM NUMBE DAJA45-84-C-0055 acntractor: The Weizmn InstituteAttn: Ms. N. Guter Office of Research ...ORGANIZATION The Weizmann Inst’,a#. of (if appficable) European Research office ScienceUSARDSG-UK) Sk. ADDRESS (Wiy State, and ZIP Code) 7b. ADDRESS (City...State. and ZIP Code) Department of Isotope Research Box 65 76100 Rehoyot FPO NY 09510-1500 IsraelJ

Calculation of Eddy Currents In the CTH Vacuum Vessel and Coil Frame

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

A. Zolfaghari, A. Brooks, A. Michaels, J. Hanson, and G. Hartwell

2012-09-25

Knowledge of eddy currents in the vacuum vessel walls and nearby conducting support structures can significantly contribute to the accuracy of Magnetohydrodynamics (MHD) equilibrium reconstruction in toroidal plasmas. Moreover, the magnetic fields produced by the eddy currents could generate error fields that may give rise to islands at rational surfaces or cause field lines to become chaotic. In the Compact Toroidal Hybrid (CTH) device (R0 = 0.75 m, a = 0.29 m, B ≤ 0.7 T), the primary driver of the eddy currents during the plasma discharge is the changing flux of the ohmic heating transformer. Electromagnetic simulations are usedmore » to calculate eddy current paths and profile in the vacuum vessel and in the coil frame pieces with known time dependent currents in the ohmic heating coils. MAXWELL and SPARK codes were used for the Electromagnetic modeling and simulation. MAXWELL code was used for detailed 3D finite-element analysis of the eddy currents in the structures. SPARK code was used to calculate the eddy currents in the structures as modeled with shell/surface elements, with each element representing a current loop. In both cases current filaments representing the eddy currents were prepared for input into VMEC code for MHD equilibrium reconstruction of the plasma discharge. __________________________________________________« less

Firing rate modulation of human motor units in different muscles during isometric contraction with various forces.

PubMed

Seki, K; Narusawa, M

1996-05-06

To examine the factors affecting the control of human motor units, rate coding strategies of the motor units were investigated in upper limb and intrinsic hand muscles during voluntary isometric contraction of steady force levels up to 80% of maximal voluntary contraction. Numerous spike trains from single motor units were recorded from the m. first dorsal interosseous (FDI) and the m. biceps brachii (BB) of eight human subjects by means of tungsten micro-electrodes, and the mean firing rate (MFR) was calculated for each subject and inter-individual comparisons made. The MFRs of the FDI were larger than that of the BB at the higher force level, and substantial differences were not found between these muscles at the lower force level. The slope of the linear regression line of MFRs vs. exerted forces for the FDI was more than twice that for the BB. Therefore, isometric force control of the FDI depends more on the rate coding strategy. The difference in rate coding between the FDI and BB motor units may be determined by factors other than muscle fiber composition, because both muscles are known to possess a similar composition of fiber types. Possible mechanisms underlying these characteristics of rate coding strategy are considered in this report.

Group 12 Thiolates: Syntheses, Characterization and Decomposition Pathways

DTIC Science & Technology

1994-03-08

Stadard Form 298 (Rev 2-89) P ,e~cnwd by ANSI Std 1319. 1 94 3 1 1 180 92_1_ OFFICE OF NAVAL RESEARCH GRANT N00014-92-J-1820 R&T Code 4135035---01...Malik, M. Motevalli. P . O’Brian, Organometallics 10, 730 (1991). 3. M. Bochmann, K. J. Webb. M. Harman. M. B. Hursthouse, Angew. Chem. Int. Engl. Ed...29, 100 (1990). 4. M. Bochmann. K. J. Webb. M. B. Hursthouse, M. Mazid, J. Chem. Soc., Dalton Trans. 1991, 2317. 5. J. G. Brennan. T. Siegrist, P . J

76 FR 9636 - Public Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2011-02-18

... DEPARTMENT OF THE TREASURY United States Mint Public Meeting ACTION: Notification of Citizens Coinage Advisory Committee March 1, 2011, Public Meeting. SUMMARY: Pursuant to United States Code, Title... (CCAC) public meeting scheduled for March 1, 2011. Date: March 1, 2011. Time: 10 a.m. to 1 p.m. Location...

Tearing Mode Stability of Evolving Toroidal Equilibria

NASA Astrophysics Data System (ADS)

Pletzer, A.; McCune, D.; Manickam, J.; Jardin, S. C.

2000-10-01

There are a number of toroidal equilibrium (such as JSOLVER, ESC, EFIT, and VMEC) and transport codes (such as TRANSP, BALDUR, and TSC) in our community that utilize differing equilibrium representations. There are also many heating and current drive (LSC and TORRAY), and stability (PEST1-3, GATO, NOVA, MARS, DCON, M3D) codes that require this equilibrium information. In an effort to provide seamless compatibility between the codes that produce and need these equilibria, we have developed two Fortran 90 modules, MEQ and XPLASMA, that serve as common interfaces between these two classes of codes. XPLASMA provides a common equilibrium representation for the heating and current drive applications while MEQ provides common equilibrium and associated metric information needed by MHD stability codes. We illustrate the utility of this approach by presenting results of PEST-3 tearing stability calculations of an NSTX discharge performed on profiles provided by the TRANSP code. Using the MEQ module, the TRANSP equilibrium data are stored in a Fortran 90 derived type and passed to PEST3 as a subroutine argument. All calculations are performed on the fly, as the profiles evolve.

Foxo3 activity promoted by non-coding effects of circular RNA and Foxo3 pseudogene in the inhibition of tumor growth and angiogenesis.

PubMed

Yang, W; Du, W W; Li, X; Yee, A J; Yang, B B

2016-07-28

It has recently been shown that the upregulation of a pseudogene specific to a protein-coding gene could function as a sponge to bind multiple potential targeting microRNAs (miRNAs), resulting in increased gene expression. Similarly, it was recently demonstrated that circular RNAs can function as sponges for miRNAs, and could upregulate expression of mRNAs containing an identical sequence. Furthermore, some mRNAs are now known to not only translate protein, but also function to sponge miRNA binding, facilitating gene expression. Collectively, these appear to be effective mechanisms to ensure gene expression and protein activity. Here we show that expression of a member of the forkhead family of transcription factors, Foxo3, is regulated by the Foxo3 pseudogene (Foxo3P), and Foxo3 circular RNA, both of which bind to eight miRNAs. We found that the ectopic expression of the Foxo3P, Foxo3 circular RNA and Foxo3 mRNA could all suppress tumor growth and cancer cell proliferation and survival. Our results showed that at least three mechanisms are used to ensure protein translation of Foxo3, which reflects an essential role of Foxo3 and its corresponding non-coding RNAs.

Spectroscopics database for warm Xenon and Iron in Astrophysics and Laboratory Astrophysics conditions

NASA Astrophysics Data System (ADS)

Busquet, Michel; Klapisch, Marcel; Bar-Shalom, Avi; Oreg, Josse

2010-11-01

The main contribution to spectral properties of astrophysics mixtures come often from Iron. On the other hand, in the so-called domain of ``Laboratory Astrophysics,'' where astrophysics phenomena are scaled down to the laboratory, Xenon (and Argon) are commonly used gases. At so called ``warm'' temperatures (T=5-50eV), L-shell Iron and M-shell Xenon present a very large number of spectral lines, originating from billions of levels. More often than not, Local Thermodynamical Equilibrium is assumed, leading to noticeable simplification of the computation. Nevertheless, complex and powerful atomic structure codes are required. We take benefit of powerful statistics and numerics, included in our atomic structure codes, STA[1] and HULLAC[2], to generate the required spectra. Recent improvements in both fields (statistics, numerics and convergence control) allow obtaining large databases (ro x T grid of > 200x200 points, and > 10000 frequencies) for temperature down to a few eV. We plan to port these improvements in the NLTE code SCROLL[3]. [1] A.Bar-Shalom, et al, Phys. Rev. A 40, 3183 (1989) [2] M.Busquet,et al, J.Phys. IV France 133, 973-975 (2006); A.Bar-Shalom, M.Klapisch, J.Oreg, J.Oreg, JQSRT 71, 169, (2001) [3] A.Bar-Shalom, et al, Phys. Rev. E 56, R70 (1997)

Proteogenomics produces comprehensive and highly accurate protein-coding gene annotation in a complete genome assembly of Malassezia sympodialis

PubMed Central

Tellgren-Roth, Christian; Baudo, Charles D.; Kennell, John C.; Sun, Sheng; Billmyre, R. Blake; Schröder, Markus S.; Andersson, Anna; Holm, Tina; Sigurgeirsson, Benjamin; Wu, Guangxi; Sankaranarayanan, Sundar Ram; Siddharthan, Rahul; Sanyal, Kaustuv; Lundeberg, Joakim; Nystedt, Björn; Boekhout, Teun; Dawson, Thomas L.; Heitman, Joseph

2017-01-01

Abstract Complete and accurate genome assembly and annotation is a crucial foundation for comparative and functional genomics. Despite this, few complete eukaryotic genomes are available, and genome annotation remains a major challenge. Here, we present a complete genome assembly of the skin commensal yeast Malassezia sympodialis and demonstrate how proteogenomics can substantially improve gene annotation. Through long-read DNA sequencing, we obtained a gap-free genome assembly for M. sympodialis (ATCC 42132), comprising eight nuclear and one mitochondrial chromosome. We also sequenced and assembled four M. sympodialis clinical isolates, and showed their value for understanding Malassezia reproduction by confirming four alternative allele combinations at the two mating-type loci. Importantly, we demonstrated how proteomics data could be readily integrated with transcriptomics data in standard annotation tools. This increased the number of annotated protein-coding genes by 14% (from 3612 to 4113), compared to using transcriptomics evidence alone. Manual curation further increased the number of protein-coding genes by 9% (to 4493). All of these genes have RNA-seq evidence and 87% were confirmed by proteomics. The M. sympodialis genome assembly and annotation presented here is at a quality yet achieved only for a few eukaryotic organisms, and constitutes an important reference for future host-microbe interaction studies. PMID:28100699

Calculation of Dose for Skyshine Radiation From a 45 MeV Electron LINAC

NASA Astrophysics Data System (ADS)

Hori, M.; Hikoji, M.; Takahashi, H.; Takahashi, K.; Kitaichi, M.; Sawamura, S.; Nojiri, I.

1996-11-01

Dose estimation for skyshine plays an important role in the evaluation of the environment around nuclear facilities. We performed calculations for the skyshine radiation from a Hokkaido University 45 MeV linear accelerator using a general purpose user's version of the EGS4 Monte Carlo Code. To verify accuracy of the code, the simulation results have been compared with our experimental results, in which a gated counting method was used to measure low-level pulsed leakage radiation. In experiment, measurements were carried out up to 600 m away from the LINAC. The simulation results are consistent with the experimental values at the distance between 100 and 400 m from the LINAC. However, agreements of both results up to 100 m from the LINAC are not as good because of the simplification of geometrical modeling in the simulation. It could be said that it is useful to apply this version to the calculation for skyshine.

Design optimization of axisymmetric bodies in nonuniform transonic flow

NASA Technical Reports Server (NTRS)

Lan, C. Edward

1989-01-01

An inviscid transonic code capable of designing an axisymmetric body in a uniform or nonuniform flow was developed. The design was achieved by direct optimiation by coupling an analysis code with an optimizer. Design examples were provided for axisymmetric bodies with fineness ratios of 8.33 and 5 at different Mach numbers. It was shown that by reducing the nose radius and increasing the afterbody thickness of initial shapes obtained from symmetric NACA four-digit airfoil contours, wave drag could be reduced by 29 percent for a body of fineness ratio 8.33 in a nonuniform transonic flow of M = 0.98 to 0.995. The reduction was 41 percent for a body of fineness ratio 5 in a uniform transonic flow of M = 0.925 and 65 percent for the same body but in a nonuniform transonic flow of M = 0.90 to 0.95.

Object-oriented code SUR for plasma kinetic simulation

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

Levchenko, V.D.; Sigov, Y.S.

1995-12-31

We have developed a self-consistent simulation code based on object-oriented model of plasma (OOMP) for solving the Vlasov/Poisson (V/P), Vlasov/Maxwell (V/M), Bhatnagar-Gross-Krook (BGK) as well as Fokker-Planck (FP) kinetic equations. The application of an object-oriented approach (OOA) to simulation of plasmas and plasma-like media by means of splitting methods permits to uniformly describe and solve the wide circle of plasma kinetics problems, including those being very complicated: many-dimensional, relativistic, with regard for collisions, specific boundary conditions etc. This paper gives the brief description of possibilities of the SUR code, as a concrete realization of OOMP.

An Adaptive Approach to a 2.4 kb/s LPC Speech Coding System.

DTIC Science & Technology

1985-07-01

laryngeal cancer ). Spectral estimation is at the foundation of speech analysis for all these goals and accurate AR model estimation in noise is...S ,5 mWnL NrinKt ) o ,-G p (d va Rmea.imn flU: 5() WOM Lu M(G)INUNM 40 4KeemS! MU= 1 UD M5) SIGHSM A SO= WAGe . M. (d) I U NS maIm ( IW vis MAMA

Functional Effects of Genetic Polymorphisms in the N-acetyltransferase 1 Coding and 3′ Untranslated Regions

PubMed Central

Zhu, Yuanqi; States, J. Christopher; Wang, Yang; Hein, David W.

2011-01-01

BACKGROUND The functional effects of N-acetyltransferase 1 (NAT1) polymorphisms and haplotypes are poorly understood, compromising the validity of associations reported with diseases including birth defects and numerous cancers. METHODS We investigated the effects of genetic polymorphisms within the NAT1 coding region and the 3′-untranslated region (3′-UTR) and their associated haplotypes on N- and O-acetyltransferase catalytic activities, and NAT1 mRNA and protein levels following recombinant expression in COS-1 cells. RESULTS 1088T>A (rs1057126; 3′-UTR) and 1095C>A (rs15561; 3′-UTR) each slightly reduced NAT1 catalytic activity and NAT1 mRNA and protein levels. A 9-base pair (TAATAATAA) deletion between nucleotides 1065-1090 (3′-UTR) reduced NAT1 catalytic activity and NAT1 mRNA and protein levels. In contrast, a 445G>A (rs4987076; V149I), 459G>A (rs4986990; T153T), 640T>G (rs4986783; S214A) coding region haplotype present in NAT1*11 increased NAT1 catalytic activity and NAT1 protein, but not NAT1 mRNA levels. A combination of the 9-base pair (TAATAATAA) deletion and the 445G>A, 459G>A, 640T>G coding region haplotypes, both present in NAT1*11, appeared to neutralize the opposing effects on NAT1 protein and catalytic activity, resulting in levels of NAT1 protein and catalytic activity that did not differ significantly from the NAT1*4 reference. CONCLUSIONS Since 1095C>A (3′-UTR) is the sole polymorphism present in NAT1*3, our data suggests that NAT1*3 is not functionally equivalent to the NAT1*4 reference. Furthermore, our findings provide biological support for reported associations of 1088T>A and 1095C>A polymorphisms with birth defects. PMID:21290563

Missed surgical intensive care unit billing: potential financial impact of 24/7 faculty presence.

PubMed

Hendershot, Kimberly M; Bollins, John P; Armen, Scott B; Thomas, Yalaunda M; Steinberg, Steven M; Cook, Charles H

2009-07-01

To efficiently capture evaluation and management (E&M) and procedural billing in our surgical intensive care unit (SICU), we have developed an electronic billing system that links to the electronic medical record (EMR). In this system, only notes electronically signed and coded by an attending generate billing charges. We hypothesized that capture of missed billing during nighttime and weekends might be sufficient to subsidize 24/7 in-house attending coverage. A retrospective chart EMR review was performed of the EMRs for all SICU patients during a 2-month period. Note type, date, time, attending signature, and coding were analyzed. Notes without attending signature, diagnosis, or current procedural terminology (CPT) code were considered incomplete and identified as "missed billing." Four hundred and forty-three patients had 465 admissions generating 2,896 notes. Overall, 76% of notes were signed and coded by an attending and billed. Incomplete (not billed) notes represented an overall missed billing opportunity of $159,138 for the 2-month time period (approximately $954,000 annually). Unbilled E&M encounters during weekdays totaled $54,758, whereas unbilled E&M and procedures from weeknights and weekends totaled $88,408 ($44,566 and $43,842, respectively). Missed billing after-hours thus represents approximately $530K annually, extrapolating to approximately $220K in collections from our payer mix. Surprisingly, missed E&M and procedural billing during weekdays totaled $70,730 (approximately $425K billing, approximately $170K collections annually), and typically represented patients seen, but transferred from the SICU before attending documentation was completed. Capture of nighttime and weekend ICU collections alone may be insufficient to add faculty or incentivize in-house coverage, but could certainly complement other in-house derived revenues to such ends. In addition, missed daytime billing in busy modern ICUs can be substantial, and use of an EMR to identify missed billing opportunities can help create solutions to recover these revenues.

Injury Severity Score coding: Data analyst v. emerging m-health technology.

PubMed

Spence, R T; Zargaran, E; Hameed, M; Fong, D; Shangguan, E; Martinez, R; Navsaria, P; Nicol, A

2016-09-08

The cost of Abbreviated Injury Scale (AIS) coding has limited its utility in areas of the world with the highest incidence of trauma. We hypothesised that emerging mobile health (m-health) technology could offer a cost-effective alternative to the current gold-standard AIS mechanism in a high-volume trauma centre in South Africa. A prospectively collected sample of consecutive patients admitted following a traumatic injury that required an operation during a 1-month period was selected for the study. AISs and Injury Severity Scores (ISSs) were generated by clinician-entered data using an m-health application (ISS eTHR) as well as by a team of AIS coders at Vancouver General Hospital, Canada (ISS VGH). Rater agreements for ISSs were analysed using Bland-Altman plots with 95% limits of agreement (LoA) and kappa statistics of the ISSs grouped into ordinal categories. Reliability was analysed using a two-way mixed-model intraclass correlation coefficient (ICC). Calibration and discrimination of univariate logistic regression models built to predict in-hospital complications using ISSs coded by the two methods were also compared. Fifty-seven patients were managed operatively during the study period. The mean age of the cohort was 27.2 years (range 14 - 62), and 96.3% were male. The mechanism of injury was penetrating in 93.4% of cases, of which 52.8% were gunshot injuries. The LoA fell within -8.6 - 9.4. The mean ISS difference was 0.4 (95% CI -0.8 - 1.6). The kappa statistic was 0.53. The ICC of the individual ISS was 0.88 (95% CI 0.81 - 0.93) and the categorical ISS was 0.81 (95% CI 0.68 - 0.87). Model performance to predict in-hospital complications using either the ISS eTHR or the ISS VGH was equivalent. ISSs calculated by the eTHR and gold-standard coding were comparable. Emerging m-health technology provides a cost-effective alternative for injury severity scoring.

Navy’s Advanced Aircraft Armament System Program Concept Objectives

DTIC Science & Technology

1983-10-01

12-1 00 NAVY’S ADVANCED AIRCRAFT ARMAMENT SYSTEM PROGRAM CONCEPT OBJECTIVES T. M . Leese and J. F. Haney Naval Weapons Center Code 31403 China...STORE FLWNT LIFE RECONFIOURATION ♦ UWMST OMHTH ninoairv M — MANN HUCTHM ^♦■ SILECT ALTERNATE • STORE 0PTI0M ■ REOUCIO CK« W0RKL0A0 • . README...mOVEMENTS INÜTEO FUIWUTY MM AM tTATWM COMPLEX AUTOMATIC LACK OF OIT RESTRICTIVE MLNIRV M FLUWAITV IUCSMVI Figure 1. Carrier aircraft

PACCMIT/PACCMIT-CDS: identifying microRNA targets in 3′ UTRs and coding sequences

PubMed Central

Šulc, Miroslav; Marín, Ray M.; Robins, Harlan S.; Vaníček, Jiří

2015-01-01

The purpose of the proposed web server, publicly available at http://paccmit.epfl.ch, is to provide a user-friendly interface to two algorithms for predicting messenger RNA (mRNA) molecules regulated by microRNAs: (i) PACCMIT (Prediction of ACcessible and/or Conserved MIcroRNA Targets), which identifies primarily mRNA transcripts targeted in their 3′ untranslated regions (3′ UTRs), and (ii) PACCMIT-CDS, designed to find mRNAs targeted within their coding sequences (CDSs). While PACCMIT belongs among the accurate algorithms for predicting conserved microRNA targets in the 3′ UTRs, the main contribution of the web server is 2-fold: PACCMIT provides an accurate tool for predicting targets also of weakly conserved or non-conserved microRNAs, whereas PACCMIT-CDS addresses the lack of similar portals adapted specifically for targets in CDS. The web server asks the user for microRNAs and mRNAs to be analyzed, accesses the precomputed P-values for all microRNA–mRNA pairs from a database for all mRNAs and microRNAs in a given species, ranks the predicted microRNA–mRNA pairs, evaluates their significance according to the false discovery rate and finally displays the predictions in a tabular form. The results are also available for download in several standard formats. PMID:25948580

Chorioamnionitis Occurring in Women With Preterm Rupture of the Fetal Membranes Is Associated With a Dynamic Increase in mRNAs Coding Cytokines in the Maternal Circulation

PubMed Central

Gordon, Lavinia; Kapoor, Jada; Walker, Susan P.; Whitehead, Clare; Kaitu’u-Lino, Tu’uhevaha J.; Pell, Gabrielle; Hannan, Natalie J.; Tong, Stephen

2015-01-01

Background: Preterm prelabor rupture of the fetal membranes (PPROM) is a significant contributor to the morbidity and mortality of preterm birth, particularly in the setting of chorioamnionitis. No sensitive or specific diagnostic or predictive test currently exists for the accurate diagnosis of chorioamnionitis. Our aim was to measure messenger RNA (mRNA) coding cytokines in the maternal blood and examine whether they were increased in association with chorioamnionitis at delivery. Methods/Results: We performed a prospective cohort study of women recruited with PPROM at a mean gestational age of 28.9 weeks at risk of developing chorioamnionitis. Blood was sampled from participants, and the expression of mRNA coding for proinflammatory genes was measured in women with and without chorioamnionitis at the time of delivery as well as gestation-matched healthy controls. Expression was measured using quantitative polymerase chain reaction (PCR) and also digital PCR. Interleukin 1β (IL1B) mRNA expression in maternal blood was elevated in women with chorioamnionitis compared to gestation-matched controls. Importantly, among women admitted with PPROM, digital PCR confirmed a significant increase in IL1B expression in maternal blood in women with chorioamnionitis compared to women without chorioamnionitis. Polymerase chain reaction array revealed that CD14, nuclear factor of κ light polypeptide gene enhancer in B-cells 1 (NFKB1), and tumor necrosis factor receptor super family-interacting serine–threonine kinase 1 mRNA were significantly increased in women with chorioamnionitis compared to controls. Digital PCR confirmed that NFKB1 mRNA was significantly increased in patients with chorioamnionitis compared to controls and that CD14 levels increased over time in patients with PPROM having chorioamnionitis. Conclusion: Measuring circulating proinflammatory mRNA in women with PPROM may distinguish those with chorioamnionitis from those without, in turn providing better targeted therapies and appropriate timing of delivery. PMID:25616398

IET area plot and utilities plan. Includes drainage. Ralph M. ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

IET area plot and utilities plan. Includes drainage. Ralph M. Parsons 902-4-ANP-U-310. Date: February 1954. Approved by INEEL Classification Office for public release. INEEL code no. 035-0100-00-693-106898 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

77 FR 14369 - Granting of Request for Early Termination of the Waiting Period Under the Premerger Notification...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-03-09

... Partners HI, L.P.; The Pep Boys- Manny, Moe & Jack; Gores Capital Partners III, L.P. 02/23/2012 20120338 G.... Donald S. Clark, Secretary. [FR Doc. 2012-5606 Filed 3-8-12; 8:45 a.m.] BILLING CODE 6750-01-M ...

78 FR 21197 - Notice of Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2013-04-09

.... 2013-08152 Filed 4-8-13; 8:45 am] BILLING CODE 6820-AR-P ...: Date/Time: Friday, April 19, 2013 (9:00 a.m.-3:00 p.m.). Location: 2301 Constitution Avenue NW., Washington, DC 20037. Status: Open Session--Portions may be closed pursuant to Subsection (c) of Section 552...

MCNP capabilities for nuclear well logging calculations

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

Forster, R.A.; Little, R.C.; Briesmeister, J.F.

The Los Alamos Radiation Transport Code System (LARTCS) consists of state-of-the-art Monte Carlo and discrete ordinates transport codes and data libraries. This paper discusses how the general-purpose continuous-energy Monte Carlo code MCNP ({und M}onte {und C}arlo {und n}eutron {und p}hoton), part of the LARTCS, provides a computational predictive capability for many applications of interest to the nuclear well logging community. The generalized three-dimensional geometry of MCNP is well suited for borehole-tool models. SABRINA, another component of the LARTCS, is a graphics code that can be used to interactively create a complex MCNP geometry. Users can define many source and tallymore » characteristics with standard MCNP features. The time-dependent capability of the code is essential when modeling pulsed sources. Problems with neutrons, photons, and electrons as either single particle or coupled particles can be calculated with MCNP. The physics of neutron and photon transport and interactions is modeled in detail using the latest available cross-section data.« less

Intact coding region of the serotonin transporter gene in obsessive-compulsive disorder

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

Altemus, M.; Murphy, D.L.; Greenberg, B.

1996-07-26

Epidemiologic studies indicate that obsessive-compulsive disorder is genetically transmitted in some families, although no genetic abnormalities have been identified in individuals with this disorder. The selective response of obsessive-compulsive disorder to treatment with agents which block serotonin reuptake suggests the gene coding for the serotonin transporter as a candidate gene. The primary structure of the serotonin-transporter coding region was sequenced in 22 patients with obsessive-compulsive disorder, using direct PCR sequencing of cDNA synthesized from platelet serotonin-transporter mRNA. No variations in amino acid sequence were found among the obsessive-compulsive disorder patients or healthy controls. These results do not support a rolemore » for alteration in the primary structure of the coding region of the serotonin-transporter gene in the pathogenesis of obsessive-compulsive disorder. 27 refs.« less

Probabilistic Structural Analysis Methods (PSAM) for select space propulsion system components

NASA Technical Reports Server (NTRS)

1991-01-01

The fourth year of technical developments on the Numerical Evaluation of Stochastic Structures Under Stress (NESSUS) system for Probabilistic Structural Analysis Methods is summarized. The effort focused on the continued expansion of the Probabilistic Finite Element Method (PFEM) code, the implementation of the Probabilistic Boundary Element Method (PBEM), and the implementation of the Probabilistic Approximate Methods (PAppM) code. The principal focus for the PFEM code is the addition of a multilevel structural dynamics capability. The strategy includes probabilistic loads, treatment of material, geometry uncertainty, and full probabilistic variables. Enhancements are included for the Fast Probability Integration (FPI) algorithms and the addition of Monte Carlo simulation as an alternate. Work on the expert system and boundary element developments continues. The enhanced capability in the computer codes is validated by applications to a turbine blade and to an oxidizer duct.

On the error probability of general tree and trellis codes with applications to sequential decoding

NASA Technical Reports Server (NTRS)

Johannesson, R.

1973-01-01

An upper bound on the average error probability for maximum-likelihood decoding of the ensemble of random binary tree codes is derived and shown to be independent of the length of the tree. An upper bound on the average error probability for maximum-likelihood decoding of the ensemble of random L-branch binary trellis codes of rate R = 1/n is derived which separates the effects of the tail length T and the memory length M of the code. It is shown that the bound is independent of the length L of the information sequence. This implication is investigated by computer simulations of sequential decoding utilizing the stack algorithm. These simulations confirm the implication and further suggest an empirical formula for the true undetected decoding error probability with sequential decoding.

GRID-seq reveals the global RNA-chromatin interactome

PubMed Central

Li, Xiao; Zhou, Bing; Chen, Liang; Gou, Lan-Tao; Li, Hairi; Fu, Xiang-Dong

2017-01-01

Higher eukaryotic genomes are bound by a large number of coding and non-coding RNAs, but approaches to comprehensively map the identity and binding sites of these RNAs are lacking. Here we report a method to in situ capture global RNA interactions with DNA by deep sequencing (GRID-seq), which enables the comprehensive identification of the entire repertoire of chromatin-interacting RNAs and their respective binding sites. In human, mouse and Drosophila cells, we detected a large set of tissue-specific coding and non-coding RNAs that are bound to active promoters and enhancers, especially super-enhancers. Assuming that most mRNA-chromatin interactions indicate the physical proximity of a promoter and an enhancer, we constructed a three-dimensional global connectivity map of promoters and enhancers, revealing transcription activity-linked genomic interactions in the nucleus. PMID:28922346

Coding/modulation trade-offs for Shuttle wideband data links

NASA Technical Reports Server (NTRS)

Batson, B. H.; Huth, G. K.; Trumpis, B. D.

1974-01-01

This paper describes various modulation and coding schemes which are potentially applicable to the Shuttle wideband data relay communications link. This link will be capable of accommodating up to 50 Mbps of scientific data and will be subject to a power constraint which forces the use of channel coding. Although convolutionally encoded coherent binary PSK is the tentative signal design choice for the wideband data relay link, FM techniques are of interest because of the associated hardware simplicity and because an FM system is already planned to be available for transmission of television via relay satellite to the ground. Binary and M-ary FSK are considered as candidate modulation techniques, and both coherent and noncoherent ground station detection schemes are examined. The potential use of convolutional coding is considered in conjunction with each of the candidate modulation techniques.

Identification and characterization of long noncoding RNAs and mRNAs expression profiles related to postnatal liver maturation of breeder roosters using Ribo-zero RNA sequencing.

PubMed

Wu, Shengru; Liu, Yanli; Guo, Wei; Cheng, Xi; Ren, Xiaochun; Chen, Si; Li, Xueyuan; Duan, Yongle; Sun, Qingzhu; Yang, Xiaojun

2018-06-27

The liver is mainly hematopoietic in the embryo, and converts into a major metabolic organ in the adult. Therefore, it is intensively remodeled after birth to adapt and perform adult functions. Long non-coding RNAs (lncRNAs) are involved in organ development and cell differentiation, likely they have potential roles in regulating postnatal liver development. Herein, in order to understand the roles of lncRNAs in postnatal liver maturation, we analyzed the lncRNAs and mRNAs expression profiles in immature and mature livers from one-day-old and adult (40 weeks of age) breeder roosters by Ribo-Zero RNA-Sequencing. Around 21,939 protein-coding genes and 2220 predicted lncRNAs were expressed in livers of breeder roosters. Compared to protein-coding genes, the identified chicken lncRNAs shared fewer exons, shorter transcript length, and significantly lower expression levels. Notably, in comparison between the livers of newborn and adult breeder roosters, a total of 1570 mRNAs and 214 lncRNAs were differentially expressed with the criteria of log 2 fold change > 1 or < - 1 and P values < 0.05, which were validated by qPCR using randomly selected five mRNAs and five lncRNAs. Further GO and KEGG analyses have revealed that the differentially expressed mRNAs were involved in the hepatic metabolic and immune functional changes, as well as some biological processes and pathways including cell proliferation, apoptotic and cell cycle that are implicated in the development of liver. We also investigated the cis- and trans- regulatory effects of differentially expressed lncRNAs on its target genes. GO and KEGG analyses indicated that these lncRNAs had their neighbor protein coding genes and trans-regulated genes associated with adapting of adult hepatic functions, as well as some pathways involved in liver development, such as cell cycle pathway, Notch signaling pathway, Hedgehog signaling pathway, and Wnt signaling pathway. This study provides a catalog of mRNAs and lncRNAs related to postnatal liver maturation of chicken, and will contribute to a fuller understanding of biological processes or signaling pathways involved in significant functional transition during postnatal liver development that differentially expressed genes and lncRNAs could take part in.

Genome sequence of Thalassospira xiamenensis type strain M-5.

PubMed

Lai, Qiliang; Shao, Zongze

2012-12-01

Thalassospira xiamenensis M-5(T) was isolated from the surface water of a waste oil pool at the oil storage dock in the city of Xiamen, Fujian Province, China. Here, we present the draft genome of strain M-5(T), which contains 4,705,237 bp with a G+C content of 54.65% and contains 4,343 protein-coding genes and 46 tRNA genes.

High-Performance Psychometrics: The Parallel-E Parallel-M Algorithm for Generalized Latent Variable Models. Research Report. ETS RR-16-34

ERIC Educational Resources Information Center

von Davier, Matthias

2016-01-01

This report presents results on a parallel implementation of the expectation-maximization (EM) algorithm for multidimensional latent variable models. The developments presented here are based on code that parallelizes both the E step and the M step of the parallel-E parallel-M algorithm. Examples presented in this report include item response…

A&M. TAN633. Hot cell floor plans, elevations, sections. Hole schedule ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

A&M. TAN-633. Hot cell floor plans, elevations, sections. Hole schedule (penetrations through concrete). Swing-door details. Ralph M. Parsons 1229-13-ANP/GE-3-633-A-3. Date: December 1956. Approved by INEEL Classification Office for public release. INNEL index code no. 034-0633-00-693-107317 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

75 FR 13251 - Notice of Mineral County Resource Advisory Committee Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2010-03-19

... Self-Determination Act of 2000 (Pub. L. 106-393, as amended by H.R. 1424 January 3, 2008) the Lolo... at 6 p.m. until 8:30 p.m. in Superior, Montana for a business meeting. The meeting is open to the... Sweeney, Designated Federal Official. [FR Doc. 2010-6034 Filed 3-18-10; 8:45 am] BILLING CODE 3410-11-M ...

HYBRIDIZATION PROPERTIES OF DNA SEQUENCES DIRECTING THE SYNTHESIS OF MESSENGER RNA AND HETEROGENEOUS NUCLEAR RNA

PubMed Central

Greenberg, Jay R.; Perry, Robert P.

1971-01-01

The relationship of the DNA sequences from which polyribosomal messenger RNA (mRNA) and heterogeneous nuclear RNA (NRNA) of mouse L cells are transcribed was investigated by means of hybridization kinetics and thermal denaturation of the hybrids. Hybridization was performed in formamide solutions at DNA excess. Under these conditions most of the hybridizing mRNA and NRNA react at values of Dot (DNA concentration multiplied by time) expected for RNA transcribed from the nonrepeated or rarely repeated fraction of the genome. However, a fraction of both mRNA and NRNA hybridize at values of Dot about 10,000 times lower, and therefore must be transcribed from highly redundant DNA sequences. The fraction of NRNA hybridizing to highly repeated sequences is about 1.7 times greater than the corresponding fraction of mRNA. The hybrids formed by the rapidly reacting fractions of both NRNA and mRNA melt over a narrow temperature range with a midpoint about 11°C below that of native L cell DNA. This indicates that these hybrids consist of partially complementary sequences with approximately 11% mismatching of bases. Hybrids formed by the slowly reacting fraction of NRNA melt within 4°–6°C of native DNA, indicating very little, if any, mismatching of bases. Hybrids of the slowly reacting components of mRNA, formed under conditions of sufficiently low RNA input, have a high thermal stability, similar to that observed for hybrids of the slowly reacting NRNA component. However, when higher inputs of mRNA are used, hybrids are formed which have a strikingly lower thermal stability. This observation can be explained by assuming that there is sufficient similarity among the relatively rare DNA sequences coding for mRNA so that under hybridization conditions, in which these DNA sequences are not truly in excess, reversible hybrids exhibiting a considerable amount of mispairing are formed. The fact that a comparable phenomenon has not been observed for NRNA may mean that there is less similarity among the relatively rare DNA sequences coding for NRNA than there is among the rare sequences coding for mRNA. PMID:4999767

Conference on Stochastic Processes and Their Applications (18) Held in Madison, Wisconsin on 25 June - 1 July 1989

DTIC Science & Technology

1989-07-01

chairman), A. de Acosta, M. Bramson, P.Glynn, F. Kelly, M. Pinsky , and R. Williams. Local arrangements were handled by D. Griffeath, T. Kurtz, J...other research support. Accession For NTIS GRA&I DTIC TAB LI Uiwunounced 0] Just I f obtion By Distribution/- AveI1nbilit y Codes tI l m m ir m mmmln...A. de Acosta 14 Bramson P. Glynn F. Kelly M. Pinsky P. Williams h ii Table of Contents Daily Schedule of Events

Neural Coding Mechanisms in Gustation.

DTIC Science & Technology

1980-09-15

world is composed of four primary tastes ( sweet , sour, salty , and bitter), and that each of these is carried by a separate and private neural line, thus...ted sweet -sour- salty -bitter types. The mathematical method of analysis was hierarchical cluster analysis based on the responses of many neurons (20 to...block number) Taste Neural coding Neural organization Stimulus organization Olfaction AB TRACT M~ea -i .rvm~ .1* N necffas and idmatity by block mmnbwc

Environmental Characterization for Target Acquisition. Report 2. Analysis of Thermal and Visible Imagery

DTIC Science & Technology

1993-11-01

4 Im age M etrics .......................................... 8 Analysis Procedures .................................... 14 3...trgtI’oi4.1 top) then ter jit I" to ,amtqts -i do eno; A26 Appendx A Metices Image Processing S,)ftware Source Code AGANETRIC 4 OF 8 Vat 1.J. k., I I integer...A 4 •A--TIC - OF 8 Appendx A Wbkri Image Prooiing Software Source Code A31 AGACOMPT I OF 3

JPRS Report: East Asia, Southeast Asia, LPDR Criminal Code, Courts, and Criminal Procedure.

DTIC Science & Technology

1991-03-05

1941 - 1991 JPRS Repor East Asia Southeast Asia LPDR Criminal Code, Courts, and Criminal Procedure mom m £C QUALITY »ra^r...prostitution, will be impris- oned for three to five years. Article 124. Incest . Anyone who has sexual intercourse with parents, step- parents...This consists of facts which indicate whether there have been actions dangerous to society, the guilt of the per- sons who undertook the

NRL Review for 1993

DTIC Science & Technology

1993-05-01

RESEARCH Code 1001 Dr. T. Coffey ASSOCIATE DIRECTORS OF RESEARCH OFFICE FOR STRATEGIC PLANNING Code 1003 Or W.M Tolles II I I/.... I BUSINESS GENERAL...of its strategic vision, we agreed that together towards NRL’s strength lies in its broad, multi- the best solution. " disciplinary character and the...peace, crisis or war, American leaders can continue to contribute in several have always turned to the Sea Services areas as America’s corporate

Return Difference Feedback Design for Robust Uncertainty Tolerance in Stochastic Multivariable Control Systems.

DTIC Science & Technology

1982-11-01

D- R136 495 RETURN DIFFERENCE FEEDBACK DESIGN FOR ROBUSTj/ UNCERTAINTY TOLERANCE IN STO..(U) UNIVERSITY OF SOUTHERN CALIFORNIA LOS ANGELES DEPT OF...State and ZIP Code) 7. b6 ADORESS (City. Staft and ZIP Code) Department of Electrical Engineering -’M Directorate of Mathematical & Information Systems ...13. SUBJECT TERMS Continur on rverse ineeesaty and identify by block nmber) FIELD GROUP SUE. GR. Systems theory; control; feedback; automatic control

Navy Occupational Health Information System (NOHIMS). Globals and Routines. Version 3.2

DTIC Science & Technology

1988-04-01

ENViKONMENTAL HEALTH CENTER CODE 4443, BLDC 143 CODE 40, BLDG X-353 WASHINGTON NAVY YARD NAVAL STATION, WASHINGTON, DC 20374 NORFOLK, VA 23511-6695 6. PRODUCT...Keywords, identifiers, etc.) *Software, OCCUPATIONAL HEALTH MEDICAL EXAMS HAZARDOUS MATERIAL CONTROL ENVIRONMENTAL EXPOSURE 8. DATES OF COVERAGE (For one...Property Control No.) W04. Recordin Oate 05. File Identifier or Descriptive Title 06. Short Title Year M~.ot Iay .NAVY OCCUPATIONAL HEALTH INFORMATION

Return with Honor: Code of Conduct Training in the National Military Strategy Security Environment

DTIC Science & Technology

2004-09-01

maximize the number of deaths and injuries among the most vulnerable civilians, such as children, women and the elderly… The terrorist leaders - who do...Return with Honor: Code of Conduct Training in the National Military Strategy Security Environment 6. AUTHOR(S) Major Laura M. Ryan 5. FUNDING NUMBERS ...7. PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES) Naval Postgraduate School Monterey, CA 93943-5000 8. PERFORMING ORGANIZATION REPORT NUMBER

Point Spread Function and Transmittance Analyses for Conical and Hexapod Secondary Mirror Support Towers for the Next Generation Space Telescope (NGST)

NASA Technical Reports Server (NTRS)

Wilkerson, Gary W.; Pitalo, Stephen K.

1999-01-01

Different secondary mirror support towers were modeled on the CODE V optical design/analysis program for the NGST Optical Telescope Assembly (OTA) B. The vertices of the NGST OTA B primary and secondary mirrors were separated by close to 9.0 m. One type of tower consisted of a hollow cone 6.0 m long, 2.00 m in diameter at the base, and 0.704 m in diameter at its top. The base of the cone was considered attached to the primary's reaction structure through a hole in the primary. Extending up parallel to the optical axis from the top of this cylinder were eight blades (pyramidal struts) 3.0 m long. A cross section of each these long blades was an isosceles triangle with a base of 0.010 m and a height of 0.100 m with the sharpest part of each triangle pointing inward. The eight struts occurred every 45 deg. The other type of tower was purely a hexapod arrangement and had no blades or cones. The hexapod consisted simply of six, very thin, circular struts, leaving in pairs at 12:00, 4:00, and 8:00 at the primary and traversing to the outer edge of the back of the secondary mount. At this mount, two struts arrived at each of 10:00, 2:00, and 6:00. The struts were attached to the primary mirror in a ring 3.5 m in diameter. They reached the back of the secondary mount, a circle 0.704 m in diameter. Transmittance analyses at two levels were performed on the secondary mirror support towers. Detailed transmittances were accomplished by the use of the CODE V optical design/analysis program and were compared to transmittance calculations that were almost back-of-the-envelope. Point spread function (PSF) calculations, including both diffraction and aberration effects, were performed on CODE V. As one goes out from the center of the blur (for a point source), the two types of support towers showed little difference between their PSF intensities until one reaches about the 3% level. Contours can be delineated on CODE V down to about 10 (exp -8) times the peak intensity, fine detailing the differences in the wings of the PSF. Between the first type of tower and the hexapod tower, below 3% of the peak intensity, the PSF contour maps well delineated significant differences in the outer portions of the PSFS. Such differences in the wings of the PSF significantly impact the resolution of brown dwarfs or extra solar planets from their star. The hexapod tower provided the best PSF.

The Paraoxonase 1 Gene c.-108C>T SNP in the Promoter Is Associated with Risk for Glioma in Mexican Patients, but Not the p.L55M or p.Q192R Polymorphisms in the Coding Region.

PubMed

González-Herrera, Lizbeth; Gamas-Trujillo, Pablo Alejandro; Medina-Escobedo, Gilberto; Oaxaca-Castillo, David; Pérez-Mendoza, Gerardo; Williams-Jacquez, Dayana; Canto-Cetina, Thelma; Vargas-García, Rubén Darío

2015-09-01

To evaluate the association of the paraoxonase 1 (PON1) gene polymorphisms c.-108C>T, p.L55M, and p.Q192R with the risk of glioma in Southeast Mexico. Decreased PON1 activity caused by polymorphisms has been observed in gliomas, thus supporting the theory that PON1 is involved in tumorigenesis in the brain. Sixty-seven glioma patients and 58 control individuals were included. Three PON1 polymorphisms were genotyped by real-time PCR allelic discrimination using TaqMan probes: c.-108C>T in the promoter region, p.Q192R and p.L55M, both of which were in the coding region. Allele, genotype, and haplotype frequencies were assessed in cases and controls to test for statistical associations (STATA 10.2 package). Significant differences were found for the PON1 c.-108C>T polymorphism between the cases and controls. Compared to the controls the cases were more likely to be CT heterozygous (p =  0.002) or TT homozygous (p = 0.036); similarly cases were more likely to possess a T allele (p = 0.032). In contrast, the p.L55M and p.Q192R polymorphisms did not show significant differences between the glioma cases and controls (p > 0.05). The PON1 c.-108C>T polymorphism in the promoter region is associated with genetic risk for glioma. Conversely, p.L55M and p.Q192R polymorphisms in the coding region do not seem to have an influence in this population.

Air kerma calibration factors and chamber correction values for PTW soft x-ray, NACP and Roos ionization chambers at very low x-ray energies.

PubMed

Ipe, N E; Rosser, K E; Moretti, C J; Manning, J W; Palmer, M J

2001-08-01

This paper evaluates the characteristics of ionization chambers for the measurement of absorbed dose to water using very low-energy x-rays. The values of the chamber correction factor, k(ch), used in the IPEMB 1996 code of practice for the UK secondary standard ionization chambers (PTW type M23342 and PTW type M23344), the Roos (PTW type 34001) and NACP electron chambers are derived. The responses in air of the small and large soft x-ray chambers (PTW type M23342 and PTW type M23344) and the NACP and Roos electron ionization chambers were compared. Besides the soft x-ray chambers, the NACP and Roos chambers can be used for very low-energy x-ray dosimetry provided that they are used in the restricted energy range for which their response does not change by more than 5%. The chamber correction factor was found by comparing the absorbed dose to water determined using the dosimetry protocol recommended for low-energy x-rays with that for very low-energy x-rays. The overlap energy range was extended using data from Grosswendt and Knight. Chamber correction factors given in this paper are chamber dependent, varying from 1.037 to 1.066 for a PTW type M23344 chamber, which is very different from a value of unity given in the IPEMB code. However, the values of k(ch) determined in this paper agree with those given in the DIN standard within experimental uncertainty. The authors recommend that the very low-energy section of the IPEMB code is amended to include the most up-to-date values of k(ch).

On splice site prediction using weight array models: a comparison of smoothing techniques

NASA Astrophysics Data System (ADS)

Taher, Leila; Meinicke, Peter; Morgenstern, Burkhard

2007-11-01

In most eukaryotic genes, protein-coding exons are separated by non-coding introns which are removed from the primary transcript by a process called "splicing". The positions where introns are cut and exons are spliced together are called "splice sites". Thus, computational prediction of splice sites is crucial for gene finding in eukaryotes. Weight array models are a powerful probabilistic approach to splice site detection. Parameters for these models are usually derived from m-tuple frequencies in trusted training data and subsequently smoothed to avoid zero probabilities. In this study we compare three different ways of parameter estimation for m-tuple frequencies, namely (a) non-smoothed probability estimation, (b) standard pseudo counts and (c) a Gaussian smoothing procedure that we recently developed.

Simulation of the Mg(Ar) ionization chamber currents by different Monte Carlo codes in benchmark gamma fields

NASA Astrophysics Data System (ADS)

Lin, Yi-Chun; Liu, Yuan-Hao; Nievaart, Sander; Chen, Yen-Fu; Wu, Shu-Wei; Chou, Wen-Tsae; Jiang, Shiang-Huei

2011-10-01

High energy photon (over 10 MeV) and neutron beams adopted in radiobiology and radiotherapy always produce mixed neutron/gamma-ray fields. The Mg(Ar) ionization chambers are commonly applied to determine the gamma-ray dose because of its neutron insensitive characteristic. Nowadays, many perturbation corrections for accurate dose estimation and lots of treatment planning systems are based on Monte Carlo technique. The Monte Carlo codes EGSnrc, FLUKA, GEANT4, MCNP5, and MCNPX were used to evaluate energy dependent response functions of the Exradin M2 Mg(Ar) ionization chamber to a parallel photon beam with mono-energies from 20 keV to 20 MeV. For the sake of validation, measurements were carefully performed in well-defined (a) primary M-100 X-ray calibration field, (b) primary 60Co calibration beam, (c) 6-MV, and (d) 10-MV therapeutic beams in hospital. At energy region below 100 keV, MCNP5 and MCNPX both had lower responses than other codes. For energies above 1 MeV, the MCNP ITS-mode greatly resembled other three codes and the differences were within 5%. Comparing to the measured currents, MCNP5 and MCNPX using ITS-mode had perfect agreement with the 60Co, and 10-MV beams. But at X-ray energy region, the derivations reached 17%. This work shows us a better insight into the performance of different Monte Carlo codes in photon-electron transport calculation. Regarding the application of the mixed field dosimetry like BNCT, MCNP with ITS-mode is recognized as the most suitable tool by this work.

Parallel representation of stimulus identity and intensity in a dual pathway model inspired by the olfactory system of the honeybee.

PubMed

Schmuker, Michael; Yamagata, Nobuhiro; Nawrot, Martin Paul; Menzel, Randolf

2011-01-01

The honeybee Apis mellifera has a remarkable ability to detect and locate food sources during foraging, and to associate odor cues with food rewards. In the honeybee's olfactory system, sensory input is first processed in the antennal lobe (AL) network. Uniglomerular projection neurons (PNs) convey the sensory code from the AL to higher brain regions via two parallel but anatomically distinct pathways, the lateral and the medial antenno-cerebral tract (l- and m-ACT). Neurons innervating either tract show characteristic differences in odor selectivity, concentration dependence, and representation of mixtures. It is still unknown how this differential stimulus representation is achieved within the AL network. In this contribution, we use a computational network model to demonstrate that the experimentally observed features of odor coding in PNs can be reproduced by varying lateral inhibition and gain control in an otherwise unchanged AL network. We show that odor coding in the l-ACT supports detection and accurate identification of weak odor traces at the expense of concentration sensitivity, while odor coding in the m-ACT provides the basis for the computation and following of concentration gradients but provides weaker discrimination power. Both coding strategies are mutually exclusive, which creates a tradeoff between detection accuracy and sensitivity. The development of two parallel systems may thus reflect an evolutionary solution to this problem that enables honeybees to achieve both tasks during bee foraging in their natural environment, and which could inspire the development of artificial chemosensory devices for odor-guided navigation in robots.

Structured Set Intra Prediction With Discriminative Learning in a Max-Margin Markov Network for High Efficiency Video Coding

PubMed Central

Dai, Wenrui; Xiong, Hongkai; Jiang, Xiaoqian; Chen, Chang Wen

2014-01-01

This paper proposes a novel model on intra coding for High Efficiency Video Coding (HEVC), which simultaneously predicts blocks of pixels with optimal rate distortion. It utilizes the spatial statistical correlation for the optimal prediction based on 2-D contexts, in addition to formulating the data-driven structural interdependences to make the prediction error coherent with the probability distribution, which is desirable for successful transform and coding. The structured set prediction model incorporates a max-margin Markov network (M3N) to regulate and optimize multiple block predictions. The model parameters are learned by discriminating the actual pixel value from other possible estimates to maximize the margin (i.e., decision boundary bandwidth). Compared to existing methods that focus on minimizing prediction error, the M3N-based model adaptively maintains the coherence for a set of predictions. Specifically, the proposed model concurrently optimizes a set of predictions by associating the loss for individual blocks to the joint distribution of succeeding discrete cosine transform coefficients. When the sample size grows, the prediction error is asymptotically upper bounded by the training error under the decomposable loss function. As an internal step, we optimize the underlying Markov network structure to find states that achieve the maximal energy using expectation propagation. For validation, we integrate the proposed model into HEVC for optimal mode selection on rate-distortion optimization. The proposed prediction model obtains up to 2.85% bit rate reduction and achieves better visual quality in comparison to the HEVC intra coding. PMID:25505829

European Science Notes (ESN) Information Bulletin. Reports on Current European/Middle Eastern Science,

DTIC Science & Technology

1987-12-01

mRNA), lular viruses within a few hours in dif- and Sl-analysis showed that anti-IgM and ferent body fluids and may be used for phorbol esters...suppressed mRNA coding for general virus diagnosis. the secreted form of IgM, showing that Thiophilic adsorption for the puri- these additives affect...constructs were and can be an alternative method to pro- utilized containing the prokaryotic CAT - tein A affinity chromatography, especial- gene

Tudor-staphylococcal nuclease regulates the expression and biological function of alkylglycerone phosphate synthase via nuclear factor-κB and microRNA-127 in human glioma U87MG cells.

PubMed

Zhang, Yongqiang; Jia, Jun; Li, Ying; Chen, Yan-Ge; Huang, Huan; Qiao, Yang; Zhu, Yu

2018-06-01

Glioma is one of the malignant tumor types detrimental to human health; therefore, it is important to find novel targets and therapeutics for this tumor. The downregulated expression of Tudor-staphylococcal nuclease (SN) and alkylglycerone phosphate synthase (AGPS) can decrease cancer malignancy, and the overexpression of them can the increase viability and migration potential of various tumor cell types; however, the role of AGPS in the proliferation and migration of glioma, and the association of Tudor-SN and AGPS in human glioma is not clear. In the present study, it was determined that AGPS silencing suppressed the proliferation and migration potential of glioma U87MG cells, and suppressed the expression of the circular RNAs circ-ubiquitin-associated protein 2, circ-zinc finger protein 292 and circ-homeodomain-interacting protein kinase 3, and the long non-coding RNAs H19 imprinted maternally expressed transcript (non-protein coding), colon cancer-associated transcript 1 (non-protein coding) and hepatocellular carcinoma upregulated long non-coding RNA. Furthermore, Tudor-SN silencing suppressed the expression of AGPS; however, nuclear factor (NF)-κB and microRNA (miR)-127 retrieval experiments partially reduced the expression of AGPS. Additionally, it was determined that Tudor-SN silencing suppressed the activity of the mechanistic target of rapamycin (mTOR) signaling pathway, and NF-κB and miR-127 retrieval experiments partially reduced the activity of mTOR. Therefore, it was considered that NF-κB and miR-127 may be the mediators of Tudor-SN-regulated AGPS via the mTOR signaling pathway. These results improve on our knowledge of the mechanisms underlying Tudor-SN and AGPS in human glioma.

Hamming and Accumulator Codes Concatenated with MPSK or QAM

NASA Technical Reports Server (NTRS)

Divsalar, Dariush; Dolinar, Samuel

2009-01-01

In a proposed coding-and-modulation scheme, a high-rate binary data stream would be processed as follows: 1. The input bit stream would be demultiplexed into multiple bit streams. 2. The multiple bit streams would be processed simultaneously into a high-rate outer Hamming code that would comprise multiple short constituent Hamming codes a distinct constituent Hamming code for each stream. 3. The streams would be interleaved. The interleaver would have a block structure that would facilitate parallelization for high-speed decoding. 4. The interleaved streams would be further processed simultaneously into an inner two-state, rate-1 accumulator code that would comprise multiple constituent accumulator codes - a distinct accumulator code for each stream. 5. The resulting bit streams would be mapped into symbols to be transmitted by use of a higher-order modulation - for example, M-ary phase-shift keying (MPSK) or quadrature amplitude modulation (QAM). The novelty of the scheme lies in the concatenation of the multiple-constituent Hamming and accumulator codes and the corresponding parallel architectures of the encoder and decoder circuitry (see figure) needed to process the multiple bit streams simultaneously. As in the cases of other parallel-processing schemes, one advantage of this scheme is that the overall data rate could be much greater than the data rate of each encoder and decoder stream and, hence, the encoder and decoder could handle data at an overall rate beyond the capability of the individual encoder and decoder circuits.

Comparison of Code Predictions to Test Measurements for Two Orifice Compensated Hydrostatic Bearings at High Reynolds Numbers

NASA Technical Reports Server (NTRS)

Keba, John E.

1996-01-01

Rotordynamic coefficients obtained from testing two different hydrostatic bearings are compared to values predicted by two different computer programs. The first set of test data is from a relatively long (L/D=1) orifice compensated hydrostatic bearing tested in water by Texas A&M University (TAMU Bearing No.9). The second bearing is a shorter (L/D=.37) bearing and was tested in a lower viscosity fluid by Rocketdyne Division of Rockwell (Rocketdyne 'Generic' Bearing) at similar rotating speeds and pressures. Computed predictions of bearing rotordynamic coefficients were obtained from the cylindrical seal code 'ICYL', one of the industrial seal codes developed for NASA-LeRC by Mechanical Technology Inc., and from the hydrodynamic bearing code 'HYDROPAD'. The comparison highlights the difference the bearing has on the accuracy of the predictions. The TAMU Bearing No. 9 test data is closely matched by the predictions obtained for the HYDROPAD code (except for added mass terms) whereas significant differences exist between the data from the Rocketdyne 'Generic' bearing the code predictions. The results suggest that some aspects of the fluid behavior in the shorter, higher Reynolds Number 'Generic' bearing may not be modeled accurately in the codes. The ICYL code predictions for flowrate and direct stiffness approximately equal those of HYDROPAD. Significant differences in cross-coupled stiffness and the damping terms were obtained relative to HYDROPAD and both sets of test data. Several observations are included concerning application of the ICYL code.

CopM is a novel copper-binding protein involved in copper resistance in Synechocystis sp. PCC 6803.

PubMed

Giner-Lamia, Joaquín; López-Maury, Luis; Florencio, Francisco J

2015-02-01

Copper resistance system in the cyanobacterium Synechocystis sp. PCC 6803 comprises two operons, copMRS and copBAC, which are expressed in response to copper in the media. copBAC codes for a heavy-metal efflux-resistance nodulation and division (HME-RND) system, while copMRS codes for a protein of unknown function, CopM, and a two-component system CopRS, which controls the expression of these two operons. Here, we report that CopM is a periplasmic protein able to bind Cu(I) with high affinity (KD ~3 × 10(-16) ). Mutants lacking copM showed a sensitive copper phenotype similar to mutants affected in copB, but lower than mutants of the two-component system CopRS, suggesting that CopBAC and CopM constitute two independent resistance mechanisms. Moreover, constitutive expression of copM is able to partially suppress the copper sensitivity of the copR mutant strain, pointing out that CopM per se is able to confer copper resistance. Furthermore, constitutive expression of copM was able to reduce total cellular copper content of the copR mutant to the levels determined in the wild-type (WT) strain. Finally, CopM was localized not only in the periplasm but also in the extracellular space, suggesting that CopM can also prevent copper accumulation probably by direct copper binding outside the cell. © 2014 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.

CopM is a novel copper-binding protein involved in copper resistance in Synechocystis sp. PCC 6803

PubMed Central

Giner-Lamia, Joaquín; López-Maury, Luis; Florencio, Francisco J

2015-01-01

Copper resistance system in the cyanobacterium Synechocystis sp. PCC 6803 comprises two operons, copMRS and copBAC, which are expressed in response to copper in the media. copBAC codes for a heavy-metal efflux–resistance nodulation and division (HME-RND) system, while copMRS codes for a protein of unknown function, CopM, and a two-component system CopRS, which controls the expression of these two operons. Here, we report that CopM is a periplasmic protein able to bind Cu(I) with high affinity (KD ∼3 × 10−16). Mutants lacking copM showed a sensitive copper phenotype similar to mutants affected in copB, but lower than mutants of the two-component system CopRS, suggesting that CopBAC and CopM constitute two independent resistance mechanisms. Moreover, constitutive expression of copM is able to partially suppress the copper sensitivity of the copR mutant strain, pointing out that CopM per se is able to confer copper resistance. Furthermore, constitutive expression of copM was able to reduce total cellular copper content of the copR mutant to the levels determined in the wild-type (WT) strain. Finally, CopM was localized not only in the periplasm but also in the extracellular space, suggesting that CopM can also prevent copper accumulation probably by direct copper binding outside the cell. PMID:25545960

Comparative analyses of the mitochondrial genome of the sheep ked Melophagus ovinus (Diptera: Hippoboscidae) from different geographical origins in China.

PubMed

Tang, Jia-Min; Li, Fen; Cheng, Tian-Yin; Duan, De-Yong; Liu, Guo-Hua

2018-05-22

The sheep ked Melophagus ovinus is mainly found in Europe, Northwestern Africa, and Asia. Although M. ovinus is an important ectoparasite of sheep in many countries, the population genetics, molecular biology, and systematics of this ectoparasite remain poorly understood. Herein, we determined the mitochondrial (mt) genome of M. ovinus from Gansu Province, China (MOG) and compared with that of M. ovinus Xinjiang Uygur Autonomous Region, China (MOX). The mt genome sequence (15,044 bp) of M. ovinus MOG was significantly shorter (529 bp) than M. ovinus MOX. Nucleotide sequence difference in the whole mt genome except for non-coding region was 0.37% between M. ovinus MOG and MOX. For the 13 protein-coding genes, comparison revealed sequence divergences at both the nucleotide (0-1.1%) and amino acid (0-0.59%) levels between M. ovinus MOG and MOX, respectively. Interestingly, the cox1 gene of M. ovinus MOX is predicted to employ unusual mt start codons AAA, which has not been predicted previously for any parasite genome. Phylogenetic analyses showed that M. ovinus (Hippoboscoidea) is related to the superfamilies Oestroidea + Muscoidea. Our results have also indicated the paraphylies of the four families (Anthomyiidae, Calliphoridae, Muscidae, and Oestridae) and two superfamilies (Oestroidea and Muscoidea). This mt genome of M. ovinus provides useful molecular markers for studies into the population genetics, molecular biology, and systematics of this ectoparasite.

Identification of novel mRNAs and lncRNAs associated with mouse experimental colitis and human inflammatory bowel disease.

PubMed

Rankin, Carl Robert; Theodorou, Evangelos; Law, Ivy Ka Man; Rowe, Lorraine; Kokkotou, Efi; Pekow, Joel; Wang, Jiafang; Martin, Martin G; Pothoulakis, Charalabos; Padua, David Miguel

2018-06-28

Inflammatory bowel disease (IBD) is a complex disorder that is associated with significant morbidity. While many recent advances have been made with new diagnostic and therapeutic tools, a deeper understanding of its basic pathophysiology is needed to continue this trend towards improving treatments. By utilizing an unbiased, high-throughput transcriptomic analysis of two well-established mouse models of colitis, we set out to uncover novel coding and non-coding RNAs that are differentially expressed in the setting of colonic inflammation. RNA-seq analysis was performed using colonic tissue from two mouse models of colitis, a dextran sodium sulfate induced model and a genetic-induced model in mice lacking IL-10. We identified 81 coding RNAs that were commonly altered in both experimental models. Of these coding RNAs, 12 of the human orthologs were differentially expressed in a transcriptomic analysis of IBD patients. Interestingly, 5 of the 12 of human differentially expressed genes have not been previously identified as IBD-associated genes, including ubiquitin D. Our analysis also identified 15 non-coding RNAs that were differentially expressed in either mouse model. Surprisingly, only three non-coding RNAs were commonly dysregulated in both of these models. The discovery of these new coding and non-coding RNAs expands our transcriptional knowledge of mouse models of IBD and offers additional targets to deepen our understanding of the pathophysiology of IBD.

Validity of International Classification of Diseases (ICD) coding for dengue infections in hospital discharge records in Malaysia.

PubMed

Woon, Yuan-Liang; Lee, Keng-Yee; Mohd Anuar, Siti Fatimah Zahra; Goh, Pik-Pin; Lim, Teck-Onn

2018-04-20

Hospitalization due to dengue illness is an important measure of dengue morbidity. However, limited studies are based on administrative database because the validity of the diagnosis codes is unknown. We validated the International Classification of Diseases, 10th revision (ICD) diagnosis coding for dengue infections in the Malaysian Ministry of Health's (MOH) hospital discharge database. This validation study involves retrospective review of available hospital discharge records and hand-search medical records for years 2010 and 2013. We randomly selected 3219 hospital discharge records coded with dengue and non-dengue infections as their discharge diagnoses from the national hospital discharge database. We then randomly sampled 216 and 144 records for patients with and without codes for dengue respectively, in keeping with their relative frequency in the MOH database, for chart review. The ICD codes for dengue were validated against lab-based diagnostic standard (NS1 or IgM). The ICD-10-CM codes for dengue had a sensitivity of 94%, modest specificity of 83%, positive predictive value of 87% and negative predictive value 92%. These results were stable between 2010 and 2013. However, its specificity decreased substantially when patients manifested with bleeding or low platelet count. The diagnostic performance of the ICD codes for dengue in the MOH's hospital discharge database is adequate for use in health services research on dengue.

Evaluation of playground injuries based on ICD, E codes, international classification of external cause of injury codes (ICECI), and abbreviated injury scale coding systems.

PubMed

Tan, N C; Ang, A; Heng, D; Chen, J; Wong, H B

2007-01-01

The survey is aimed to describe the epidemiology of playground related injuries in Singapore based on the ICD-9, AIS/ ISS and PTS scoring systems, and mechanisms and causes of such injuries according to E codes and ICECI codes. A cross-sectional questionnaire survey examined children (< 16 years old), who sought treatment for or died of unintentional injuries in the ED of three hospitals, two primary care centers and the sole Forensic Medicine Department of Singapore. A data dictionary was compiled using guidelines from CDC/WHO. The ISS, AIS and PTS, ICD-9, ICECI v1 and E codes were used to describe the details of the injuries. 19,094 childhood injuries were recorded in the database, of which 1617 were playground injuries (8.5%). The injured children (mean age=6.8 years, SD 2.9 years) were predo-minantly male (M:F ratio = 1.71:1). Falls were the most frequent in-juries (70.7%) using ICECI. 25.0% of injuries involved radial and ulnar fractures (ICD-9 code). 99.4% of these injuries were minor, with PTS scores of 9-12. Children aged 6-10 years, were prone to upper limb injuries (71.1%) based on AIS. The use of international coding systems in injury surveillance facilitated standardisation of description and comparison of playground injuries.

Distributed polar-coded OFDM based on Plotkin's construction for half duplex wireless communication

NASA Astrophysics Data System (ADS)

Umar, Rahim; Yang, Fengfan; Mughal, Shoaib; Xu, HongJun

2018-07-01

A Plotkin-based polar-coded orthogonal frequency division multiplexing (P-PC-OFDM) scheme is proposed and its bit error rate (BER) performance over additive white gaussian noise (AWGN), frequency selective Rayleigh, Rician and Nakagami-m fading channels has been evaluated. The considered Plotkin's construction possesses a parallel split in its structure, which motivated us to extend the proposed P-PC-OFDM scheme in a coded cooperative scenario. As the relay's effective collaboration has always been pivotal in the design of cooperative communication therefore, an efficient selection criterion for choosing the information bits has been inculcated at the relay node. To assess the BER performance of the proposed cooperative scheme, we have also upgraded conventional polar-coded cooperative scheme in the context of OFDM as an appropriate bench marker. The Monte Carlo simulated results revealed that the proposed Plotkin-based polar-coded cooperative OFDM scheme convincingly outperforms the conventional polar-coded cooperative OFDM scheme by 0.5 0.6 dBs over AWGN channel. This prominent gain in BER performance is made possible due to the bit-selection criteria and the joint successive cancellation decoding adopted at the relay and the destination nodes, respectively. Furthermore, the proposed coded cooperative schemes outperform their corresponding non-cooperative schemes by a gain of 1 dB under an identical condition.

Monte Carlo calculation of dose rate conversion factors for external exposure to photon emitters in soil

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

Clovas, A.; Zanthos, S.; Antonopoulos-Domis, M.

2000-03-01

The dose rate conversion factors {dot D}{sub CF} (absorbed dose rate in air per unit activity per unit of soil mass, nGy h{sup {minus}1} per Bq kg{sup {minus}1}) are calculated 1 m above ground for photon emitters of natural radionuclides uniformly distributed in the soil. Three Monte Carlo codes are used: (1) The MCNP code of Los Alamos; (2) The GEANT code of CERN; and (3) a Monte Carlo code developed in the Nuclear Technology Laboratory of the Aristotle University of Thessaloniki. The accuracy of the Monte Carlo results is tested by the comparison of the unscattered flux obtained bymore » the three Monte Carlo codes with an independent straightforward calculation. All codes and particularly the MCNP calculate accurately the absorbed dose rate in air due to the unscattered radiation. For the total radiation (unscattered plus scattered) the {dot D}{sub CF} values calculated from the three codes are in very good agreement between them. The comparison between these results and the results deduced previously by other authors indicates a good agreement (less than 15% of difference) for photon energies above 1,500 keV. Antithetically, the agreement is not as good (difference of 20--30%) for the low energy photons.« less

Open-source framework for documentation of scientific software written on MATLAB-compatible programming languages

NASA Astrophysics Data System (ADS)

Konnik, Mikhail V.; Welsh, James

2012-09-01

Numerical simulators for adaptive optics systems have become an essential tool for the research and development of the future advanced astronomical instruments. However, growing software code of the numerical simulator makes it difficult to continue to support the code itself. The problem of adequate documentation of the astronomical software for adaptive optics simulators may complicate the development since the documentation must contain up-to-date schemes and mathematical descriptions implemented in the software code. Although most modern programming environments like MATLAB or Octave have in-built documentation abilities, they are often insufficient for the description of a typical adaptive optics simulator code. This paper describes a general cross-platform framework for the documentation of scientific software using open-source tools such as LATEX, mercurial, Doxygen, and Perl. Using the Perl script that translates M-files MATLAB comments into C-like, one can use Doxygen to generate and update the documentation for the scientific source code. The documentation generated by this framework contains the current code description with mathematical formulas, images, and bibliographical references. A detailed description of the framework components is presented as well as the guidelines for the framework deployment. Examples of the code documentation for the scripts and functions of a MATLAB-based adaptive optics simulator are provided.

Athermalization of infrared dual field optical system based on wavefront coding

NASA Astrophysics Data System (ADS)

Jiang, Kai; Jiang, Bo; Liu, Kai; Yan, Peipei; Duan, Jing; Shan, Qiu-sha

2017-02-01

Wavefront coding is a technology which combination of the optical design and digital image processing. By inserting a phase mask closed to the pupil plane of the optical system the wavefront of the system is re-modulated. And the depth of focus is extended consequently. In reality the idea is same as the athermalization theory of infrared optical system. In this paper, an uncooled infrared dual field optical system with effective focal as 38mm/19mm, F number as 1.2 of both focal length, operating wavelength varying from 8μm to 12μm was designed. A cubic phase mask was used at the pupil plane to re-modulate the wavefront. Then the performance of the infrared system was simulated with CODEV as the environment temperature varying from -40° to 60°. MTF curve of the optical system with phase mask are compared with the outcome before using phase mask. The result show that wavefront coding technology can make the system not sensitive to thermal defocus, and then realize the athermal design of the infrared optical system.

A New Approach in Coal Mine Exploration Using Cosmic Ray Muons

NASA Astrophysics Data System (ADS)

Darijani, Reza; Negarestani, Ali; Rezaie, Mohammad Reza; Fatemi, Syed Jalil; Akhond, Ahmad

2016-08-01

Muon radiography is a technique that uses cosmic ray muons to image the interior of large scale geological structures. The muon absorption in matter is the most important parameter in cosmic ray muon radiography. Cosmic ray muon radiography is similar to X-ray radiography. The main aim in this survey is the simulation of the muon radiography for exploration of mines. So, the production source, tracking, and detection of cosmic ray muons were simulated by MCNPX code. For this purpose, the input data of the source card in MCNPX code were extracted from the muon energy spectrum at sea level. In addition, the other input data such as average density and thickness of layers that were used in this code are the measured data from Pabdana (Kerman, Iran) coal mines. The average thickness and density of these layers in the coal mines are from 2 to 4 m and 1.3 gr/c3, respectively. To increase the spatial resolution, a detector was placed inside the mountain. The results indicated that using this approach, the layers with minimum thickness about 2.5 m can be identified.

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

Ceglio, N.M.; George, E.V.; Brooks, K.M.

The first successful demonstration of high resolution, tomographic imaging of a laboratory plasma using coded imaging techniques is reported. ZPCI has been used to image the x-ray emission from laser compressed DT filled microballoons. The zone plate camera viewed an x-ray spectral window extending from below 2 keV to above 6 keV. It exhibited a resolution approximately 8 ..mu..m, a magnification factor approximately 13, and subtended a radiation collection solid angle at the target approximately 10/sup -2/ sr. X-ray images using ZPCI were compared with those taken using a grazing incidence reflection x-ray microscope. The agreement was excellent. In addition,more » the zone plate camera produced tomographic images. The nominal tomographic resolution was approximately 75 ..mu..m. This allowed three dimensional viewing of target emission from a single shot in planar ''slices''. In addition to its tomographic capability, the great advantage of the coded imaging technique lies in its applicability to hard (greater than 10 keV) x-ray and charged particle imaging. Experiments involving coded imaging of the suprathermal x-ray and high energy alpha particle emission from laser compressed microballoon targets are discussed.« less

A Comparative Study on Safe Pile Capacity as Shown in Table 1 of IS 2911 (Part III): 1980

NASA Astrophysics Data System (ADS)

Pakrashi, Somdev

2017-06-01

Code of practice for design and construction of under reamed pile foundations: IS 2911 (Part-III)—1980 presents one table in respect of safe load for bored cast in situ under reamed piles in sandy and clayey soils including black cotton soils, stem dia. of pile ranging from 20 to 50 cm and its effective length being 3.50 m. A comparative study, was taken up by working out safe pile capacity for one 400 dia., 3.5 m long bored cast in situ under reamed pile based on subsoil properties obtained from soil investigation work as well as subsoil properties of different magnitudes of clayey, sandy soils and comparing the same with the safe pile capacity shown in Table 1 of that IS Code. The study reveals that safe pile capacity computed from subsoil properties, barring a very few cases, considerably differs from that shown in the aforesaid code and looks forward for more research work and study to find out a conclusive explanation of this probable anomaly.

Shaded seafloor relief, backscatter strength, and surficial geology; German Bank, Scotian Shelf, offshore Nova Scotia

USGS Publications Warehouse

Todd, B.J.; Valentine, Page C.

2010-01-01

This map is part of a three-map series of German Bank, located on the Scotian Shelf off southern Nova Scotia.  This map is the product of a number of surveys (1997-2003) that used a multibeam sonar system to map 5321 km2 of the seafloor.  Other surveys collected geological data for scientific interpretation.  This map sheet shows the seafloor topography of German Bank in shaded-relief view and seafloor depth (coded by colour) at a scale of 1:1000,000.  Topographic contours generated from the multibeam data are shown (in white) on the colour-coded multibeam topography at a depth interval of 20 m.  Bathymetic contours (in blue) outside the multibeam survey area, presented at a depth interval of 10 m, are from the Natural Resource Map series (Canadian Hydrographic Service, 1967, 1971a, 1971b, 1972). Sheet 2 shows coloured backscatter strength in shaded-relief view.  Sheet 3 shows seafloor topography in shaded-relief view with colour-coded surficial geological units.

Production of scandium-44 m and scandium-44 g with deuterons on calcium-44: cross section measurements and production yield calculations.

PubMed

Duchemin, C; Guertin, A; Haddad, F; Michel, N; Métivier, V

2015-09-07

HIGHLIGHTS • Production of Sc-44 m, Sc-44 g and contaminants. • Experimental values determined using the stacked-foil technique. • Thick-Target production Yield (TTY) calculations. • Comparison with the TALYS code version 1.6.Among the large number of radionuclides of medical interest, Sc-44 is promising for PET imaging. Either the ground-state Sc-44 g or the metastable-state Sc-44 m can be used for such applications, depending on the molecule used as vector. This study compares the production rates of both Sc-44 states, when protons or deuterons are used as projectiles on an enriched Calcium-44 target. This work presents the first set of data for the deuteron route. The results are compared with the TALYS code. The Thick-Target production Yields of Sc-44 m and Sc-44 g are calculated and compared with those for the proton route for three different scenarios: the production of Sc-44 g for conventional PET imaging, its production for the new 3 γ imaging technique developed at the SUBATECH laboratory and the production of a Sc-44 m/Sc-44 g in vivo generator for antibody labelling.

Translation of vph mRNA in Streptomyces lividans and Escherichia coli after removal of the 5' untranslated leader.

PubMed

Wu, C J; Janssen, G R

1996-10-01

The Streptomyces vinaceus viomycin phosphotransferase (vph) mRNA contains an untranslated leader with a conventional Shine-Dalgarno homology. The vph leader was removed by ligation of the vph coding sequence to the transcriptional start site of a Streptomyces or an Escherichia coli promoter, such that transcription would initiate at the first position of the vph start codon. Analysis of mRNA demonstrated that transcription initiated primarily at the A of the vph AUG translational start codon in both Streptomyces lividans and E. coli; cells expressing the unleadered vph mRNA were resistant to viomycin indicating that the Shine-Dalgarno sequence, or other features contained within the leader, was not necessary for vph translation. Addition of four nucleotides (5'-AUGC-3') onto the 5' end of the unleadered vph mRNA resulted in translation initiation from the vph start codon and the AUG triplet contained within the added sequence. Translational fusions of vph sequence to a Tn5 neo reporter gene indicated that the first 16 codons of vph coding sequence were sufficient to specify the translational start site and reading frame for expression of neomycin resistance in both E. coli and S. lividans.

Low-Power Embedded DSP Core for Communication Systems

NASA Astrophysics Data System (ADS)

Tsao, Ya-Lan; Chen, Wei-Hao; Tan, Ming Hsuan; Lin, Maw-Ching; Jou, Shyh-Jye

2003-12-01

This paper proposes a parameterized digital signal processor (DSP) core for an embedded digital signal processing system designed to achieve demodulation/synchronization with better performance and flexibility. The features of this DSP core include parameterized data path, dual MAC unit, subword MAC, and optional function-specific blocks for accelerating communication system modulation operations. This DSP core also has a low-power structure, which includes the gray-code addressing mode, pipeline sharing, and advanced hardware looping. Users can select the parameters and special functional blocks based on the character of their applications and then generating a DSP core. The DSP core has been implemented via a cell-based design method using a synthesizable Verilog code with TSMC 0.35[InlineEquation not available: see fulltext.]m SPQM and 0.25[InlineEquation not available: see fulltext.]m 1P5M library. The equivalent gate count of the core area without memory is approximately 50 k. Moreover, the maximum operating frequency of a[InlineEquation not available: see fulltext.] version is 100 MHz (0.35[InlineEquation not available: see fulltext.]m) and 140 MHz (0.25[InlineEquation not available: see fulltext.]m).

Sequence of rat alpha- and gamma-casein mRNAs: evolutionary comparison of the calcium-dependent rat casein multigene family.

PubMed Central

Hobbs, A A; Rosen, J M

1982-01-01

The complete sequences of rat alpha- and gamma-casein mRNAs have been determined. The 1402-nucleotide alpha- and 864-nucleotide gamma-casein mRNAs both encode 15 amino acid signal peptides and mature proteins of 269 and 164 residues, respectively. Considerable homology between the 5' non-coding regions, and the regions encoding the signal peptides and the phosphorylation sites, in these mRNAs as compared to several other rodent casein mRNAs, was observed. Significant homology was also detected between rat alpha- and bovine alpha s1-casein. Comparison of the rodent and bovine sequences suggests that the caseins evolved at about the time of the appearance of the primitive mammals. This may have occurred by intragenic duplication of a nucleotide sequence encoding a primitive phosphorylation site, -(Ser)n-Glu-Glu-, and intergenic duplication resulting in the small casein multigene family. A unique feature of the rat alpha-casein sequence is an insertion in the coding region containing 10 repeated elements of 18 nucleotides each. This insertion appears to have occurred 7-12 million years ago, just prior to the divergence of rat and mouse. Images PMID:6298707

Modeling Well Sampled Composite Spectral Energy Distributions of Distant Galaxies via an MCMC-driven Inference Framework

NASA Astrophysics Data System (ADS)

Pasha, Imad; Kriek, Mariska; Johnson, Benjamin; Conroy, Charlie

2018-01-01

Using a novel, MCMC-driven inference framework, we have modeled the stellar and dust emission of 32 composite spectral energy distributions (SEDs), which span from the near-ultraviolet (NUV) to far infrared (FIR). The composite SEDs were originally constructed in a previous work from the photometric catalogs of the NEWFIRM Medium-Band Survey, in which SEDs of individual galaxies at 0.5 < z < 2.0 were iteratively matched and sorted into types based on their rest-frame UV-to-NIR photometry. In a subsequent work, MIPS 24 μm was added for each SED type, and in this work, PACS 100 μm, PACS160 μm, SPIRE 25 μm, and SPIRE 350 μm photometry have been added to extend the range of the composite SEDs into the FIR. We fit the composite SEDs with the Prospector code, which utilizes an MCMC sampling to explore the parameter space for models created by the Flexible Stellar Population Synthesis (FSPS) code, in order to investigate how specific star formation rate (sSFR), dust temperature, and other galaxy properties vary with SED type.This work is also being used to better constrain the SPS models within FSPS.

STRING: A new drifter for HF radar validation.

NASA Astrophysics Data System (ADS)

Rammou, Anna-Maria; Zervakis, Vassilis; Bellomo, Lucio; Kokkini, Zoi; Quentin, Celine; Mantovani, Carlo; Kalampokis, Alkiviadis

2015-04-01

High-Frequency radars (HFR) are an effective mean of remotely monitoring sea-surface currents, based on recording the Doppler-shift of radio-waves backscattered on the sea surface. Validation of HFRs' measurements takes place via comparisons either with in-situ Eulerian velocity data (usually obtained by surface current-meters attached on moorings) or to Lagrangian velocity fields (recorded by surface drifters). The most common surface drifter used for this purpose is the CODE-type drifter (Davis, 1985), an industry-standard design to record the vertical average velocity of the upper 1 m layer of the water column. In this work we claim that the observed differences between the HFR-derived velocities and Lagrangian measurements can be attributed not just to the different spatial scales recorded by the above instruments but also due to the fact that while the HFR-derived velocity corresponds to exponentially weighted vertical average of the velocity field from the surface to 1 m depth (Stewart and Joy, 1974) the velocity estimated by the CODE drifters corresponds to boxcar-type weighted vertical average due to the orthogonal shape of the CODE drifters' sails. After analyzing the theoretical behavior of a drifter under the influence of wind and current, we proceed to propose a new design of exponentially-shaped sails for the drogues of CODE-based drifters, so that the HFR-derived velocities and the drifter-based velocities will be directly comparable, regarding the way of vertically averaging the velocity field.The new drifter, codenamed STRING, exhibits identical behavior to the classical CODE design under relatively homogeneous conditions in the upper 1 m layer, however it is expected to follow a significantly different track in conditions of high vertical shear and stratification. Thus, we suggest that the new design is the instrument of choice for validation of HFR installations, as it can be used in all conditions and behaves identically to CODEs when vertical shear is insignificant. Finally, we present results from three experiments using both drifter types in HFR-covered regions of the Eastern Mediterranean. More experiments are planned, incorporating design improvements dictated by the results of the preliminary field tests. This work was held in the framework of the project "Specifically Targeted for Radars INnovative Gauge (STRING)", funded by the Greek-French collaboration programme "Plato".

The poly(A) tail length of casein mRNA in the lactating mammary gland changes depending upon the accumulation and removal of milk.

PubMed Central

Kuraishi, T; Sun, Y; Aoki, F; Imakawa, K; Sakai, S

2000-01-01

The length of casein mRNA from the lactating mouse mammary gland, as assessed on Northern blots, is shorter after weaning, but is elongated following the removal of milk. In order to investigate this phenomenon, the molecular structures of beta- and gamma-casein mRNAs were analysed. The coding and non-coding regions of the two forms were the same length, but the long form of casein mRNA had a longer poly(A) tail than the short form (P<0.05). In order to examine the stability of casein mRNA under identical conditions, casein mRNAs with the long and short poly(A) tails were incubated in the rabbit reticulocyte lysate (RRL) cell-free translation system. Casein mRNA with the long poly(A) tail had a longer half-life than that with the short tail (P<0.05). The beta- and gamma-casein mRNAs were first degraded into 0.92 and 0.81 kb fragments respectively. With undegraded mRNA, the poly(A) tail shortening by exoribonuclease was not observed until the end of the incubation. Northern blot analysis showed that casein mRNA with the long poly(A) tail was protected efficiently from endoribonucleases. We conclude that the length of the poly(A) tail of casein mRNA in the lactating mammary gland changes depending upon the accumulation and removal of the gland's milk, and we show that the longer poly(A) tail potentially protects the mRNA from degradation by endoribonucleases. PMID:10749689

Response of the first wetted wall of an IFE reactor chamber to the energy release from a direct-drive DT capsule

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

Medin, Stanislav A.; Basko, Mikhail M.; Orlov, Yurii N.

2012-07-11

Radiation hydrodynamics 1D simulations were performed with two concurrent codes, DEIRA and RAMPHY. The DEIRA code was used for DT capsule implosion and burn, and the RAMPHY code was used for computation of X-ray and fast ions deposition in the first wall liquid film of the reactor chamber. The simulations were run for 740 MJ direct drive DT capsule and Pb thin liquid wall reactor chamber of 10 m diameter. Temporal profiles for DT capsule leaking power of X-rays, neutrons and fast {sup 4}He ions were obtained and spatial profiles of the liquid film flow parameter were computed and analyzed.

Selection and Evaluation of a Real Time Monitoring System for the Bigeye Bomb Fill/Close Production Facility. Phase 2

DTIC Science & Technology

1989-06-01

and ZIP Code ) 10 SOURCE OF FUNDING NU MBERS I O KUI PROGRAM PRO ECCT TASKWOKUI E L E M E N T N O . N O .I 1 2 0 N O A 5 A C C E S S I O N N OlI I1 TITLE... source of by-products formation. Generating Data for Mathematical Modeling of Real Vapor Phase Reaction Systems (tremendously speeds multi -level, multi ...SMCC-RI1 6c AD RS(Ciry,. State, and ZIP Code ) SCRRI 7b. ADDRESS (City, State, and ZIP Code ) IA!hrueýýt Proving Ground, MD 21010-54213 a.NMOFFUNI.DNG

Array coding for large data memories

NASA Technical Reports Server (NTRS)

Tranter, W. H.

1982-01-01

It is pointed out that an array code is a convenient method for storing large quantities of data. In a typical application, the array consists of N data words having M symbols in each word. The probability of undetected error is considered, taking into account three symbol error probabilities which are of interest, and a formula for determining the probability of undetected error. Attention is given to the possibility of reading data into the array using a digital communication system with symbol error probability p. Two different schemes are found to be of interest. The conducted analysis of array coding shows that the probability of undetected error is very small even for relatively large arrays.

Use of high order, periodic orbits in the PIES code

NASA Astrophysics Data System (ADS)

Monticello, Donald; Reiman, Allan

2010-11-01

We have implemented a version of the PIES code (Princeton Iterative Equilibrium SolverootnotetextA. Reiman et al 2007 Nucl. Fusion 47 572) that uses high order periodic orbits to select the surfaces on which straight magnetic field line coordinates will be calculated. The use of high order periodic orbits has increase the robustness and speed of the PIES code. We now have more uniform treatment of in-phase and out-of-phase islands. This new version has better convergence properties and works well with a full Newton scheme. We now have the ability to shrink islands using a bootstrap like current and this includes the m=1 island in tokamaks.

Method of laser beam coding for control systems

NASA Astrophysics Data System (ADS)

Pałys, Tomasz; Arciuch, Artur; Walczak, Andrzej; Murawski, Krzysztof

2017-08-01

The article presents the method of encoding a laser beam for control systems. The experiments were performed using a red laser emitting source with a wavelength of λ = 650 nm and a power of P ≍ 3 mW. The aim of the study was to develop methods of modulation and demodulation of the laser beam. Results of research, in which we determined the effect of selected camera parameters, such as image resolution, number of frames per second on the result of demodulation of optical signal, is also shown in the paper. The experiments showed that the adopted coding method provides sufficient information encoded in a single laser beam (36 codes with the effectiveness of decoding at 99.9%).

FET. Control and equipment building (TAN630). Sections. Ralph M. Parsons ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

FET. Control and equipment building (TAN-630). Sections. Ralph M. Parsons 1229-2 ANP/GE-5-630-A-4. Date: March 1957. Approved by INEEL Classification Office for public release. INEEL index code no. 036-0630-00-693-107083 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

ADM. Warehouse (TAN604). Elevations and sections. Ralph M. Parsons 9022ANP604A ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

ADM. Warehouse (TAN-604). Elevations and sections. Ralph M. Parsons 902-2-ANP-604-A 56. Date: December 1952. Approved by INEEL Classification Office for public release. INEEL index code no. 035-0604-00-693-106728 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

FET. Chlorination building, TAN637. Elevations, section. Ralph M. Parsons 12292 ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

FET. Chlorination building, TAN-637. Elevations, section. Ralph M. Parsons 1229-2 ANP/GE-5-637-A-S-H&V-1. Date: March 1957. Approved by INEEL Classification Office for public release. INEEL index code no. 036-0637-00-693-107148 - Idaho National Engineering Laboratory, Test Area North, Scoville, Butte County, ID

76 FR 76457 - Sunshine Act Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-07

... Announcement: [76 FR 74835, December 1, 2011]. STATUS: Open Meeting. PLACE: 100 F Street, NE., Washington, DC...: Cancellation of Meeting. The Open Meeting scheduled for Tuesday, December 6, 2011 at 10 a.m. has been cancelled... 2, 2011. Elizabeth M. Murphy, Secretary. [FR Doc. 2011-31484 Filed 12-5-11; 11:15 am] BILLING CODE...

Processes of Sibling Influence in Adolescence: Individual and Family Correlates

ERIC Educational Resources Information Center

Whiteman, Shawn D.; Christiansen, Abigail

2008-01-01

This study examined the nature and correlates of adolescents' perceptions of sibling influence. Participants included 2 siblings (firstborn age M = 17.34; second-born age M = 14.76 years) from 191 maritally intact families. Adolescents' perceptions of sibling influence were measured via coded responses to open-ended questions about whether their…

50 CFR Table 16 to Part 679 - Area Codes and Descriptions for Use With State of Alaska ADF&G Commercial Operator's Annual...

Code of Federal Regulations, 2013 CFR

2013-10-01

...&GRegulations Alaska PeninsulaSouth Peninsula (MS) North Peninsula (MN) King Crab:AK Peninsula/Aleutian Islands Salmon MM M 5 AAC 34.5005 AAC 12.100 (Aleutians) 5 AAC 09.100 (AK Peninsula) Herring M 5 AAC 27.600...

50 CFR Table 16 to Part 679 - Area Codes and Descriptions for Use With State of Alaska ADF&G Commercial Operator's Annual...

Code of Federal Regulations, 2014 CFR

2014-10-01

...&GRegulations Alaska PeninsulaSouth Peninsula (MS) North Peninsula (MN) King Crab:AK Peninsula/Aleutian Islands Salmon MM M 5 AAC 34.5005 AAC 12.100 (Aleutians) 5 AAC 09.100 (AK Peninsula) Herring M 5 AAC 27.600...

50 CFR Table 16 to Part 679 - Area Codes and Descriptions for Use With State of Alaska ADF&G Commercial Operator's Annual...

Code of Federal Regulations, 2012 CFR

2012-10-01

...&GRegulations Alaska PeninsulaSouth Peninsula (MS) North Peninsula (MN) King Crab:AK Peninsula/Aleutian Islands Salmon MM M 5 AAC 34.5005 AAC 12.100 (Aleutians) 5 AAC 09.100 (AK Peninsula) Herring M 5 AAC 27.600...

A Comparison of Deformation Textures and Mechanical Properties Predicted by Different Crystal Plasticity Codes

DTIC Science & Technology

2008-04-01

ensemble (TEX), from which pole figures can be calculated, and the effective Taylor factor (M) for the ensemble. All employ a form of the Voce hardening...strain rate, using a strain-rate sensitivity exponent, m = 1/n. Both hardening and non-hardening conditions were investigated using an empirical Voce

76 FR 14434 - Meetings of Humanities Panel

Federal Register 2010, 2011, 2012, 2013, 2014

2011-03-16

... FURTHER INFORMATION CONTACT: Michael P. McDonald, Advisory Committee Management Officer, National... subsections (c)(4), and (6) of section 552b of Title 5, United States Code. 1. Date: April 1, 2011. Time: 9 a... January 12, 2011 deadline. 2. Date: April 4, 2011. Time: 9 a.m. to 5 p.m. Location: Room 421. Program...