Software
PubMed MeSh Term
Overview
subject area of
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A COMPARATIVE-EVALUATION OF HEART-RATE REACTIVITY DURING MATH AND A STANDARD MENTAL ARITHMETIC TASK Journal Article
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A Computational Workflow for the Automated Generation of Models of Genetic Designs Journal Article
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A Method for High Fidelity Optogenetic Control of Individual Pyramidal Neurons In vivo Journal Article
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A Methodology to Annotate Systems Biology Markup Language Models with the Synthetic Biology Open Language Journal Article
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A NUMERICAL FRAMEWORK FOR COMPUTING STEADY STATES OF STRUCTURED POPULATION MODELS AND THEIR STABILITY Journal Article
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A Real-Time Capable Software-Defined Receiver Using GPU for Adaptive Anti-Jam GPS Sensors Journal Article
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A Simple Method for Estimating Informative Node Age Priors for the Fossil Calibration of Molecular Divergence Time Analyses Journal Article
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A Simulated MS/MS Library for Spectrum-to-spectrum Searching in Large Scale Identification of Proteins Journal Article
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A Validator and Converter for the Synthetic Biology Open Language Journal Article
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A fast and accurate method for detection of IBD shared haplotypes in genome-wide SNP data Journal Article
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A generative model for the behavior of RNA polymerase Journal Article
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A method of mapping protein sumoylation sites by mass spectrometry using a modified small ubiquitin-like modifier 1 (SUMO-1) and a computational program Journal Article
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A new open-source tool for measuring 3D osteocyte lacunar geometries from confocal laser scanning microscopy reveals age-related changes to lacunar size and shape in cortical mouse bone Journal Article
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A standard-enabled workflow for synthetic biology Journal Article
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Analysis of MAP Kinases by Hydrogen Exchange Mass Spectrometry Journal Article
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Applying eye movement miscue analysis to the reading patterns of children with language impairment Journal Article
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Applying knowledge-driven mechanistic inference to toxicogenomics Conference Proceeding
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Automated discovery of functional generality of human gene expression programs. Journal Article
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Behavior change interventions: the potential of ontologies for advancing science and practice Journal Article
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CTF determination and correction for low dose tomographic tilt series Journal Article
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Call for transparency of COVI D-19 models Journal Article
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CodaChrome: a tool for the visualization of proteome conservation across all fully sequenced bacterial genomes Journal Article
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Communicating Structure and Function in Synthetic Biology Diagrams Journal Article
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Comparison of label-free methods for quantifying human proteins by shotgun proteomics Journal Article
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Computational Modeling for Biomimetic Sensors Journal Article
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ConFind: a robust tool for conserved sequence identification Journal Article
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Contributions of episodic retrieval and mentalizing to autobiographical thought: Evidence from functional neuroimaging, resting-state connectivity, and fMRI meta-analyses Journal Article
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Creased hydrogels as active platforms for mechanical deformation of cultured cells Journal Article
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Designing a Collaborative Visual Analytics Tool for Social and Technological Change Prediction Journal Article
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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks Journal Article
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Dynamic Modeling of Cellular Populations within iBioSim Journal Article
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Efficient Analysis of Systems Biology Markup Language Models of Cellular Populations Using Arrays Conference Proceeding
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Efficient estimation of sensory thresholds with ML-PEST Journal Article
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Evidence for Association Between Low Frequency Variants in CHRNA6/CHRNB3 and Antisocial Drug Dependence Journal Article
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Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data Journal Article
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Extending SynBioHub's Functionality with Plugins Journal Article
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FITTING GENETIC MODELS WITH LISREL - HYPOTHESIS-TESTING Journal Article
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FOLDING OF CIRCULARLY PERMUTED TRANSFER-RNAS Journal Article
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Fast-Find: A novel computational approach to analyzing combinatorial motifs Journal Article
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Forgetting of Foreign-Language Skills: A Corpus-Based Analysis of Online Tutoring Software Journal Article
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GIGGLE: a search engine for large-scale integrated genome analysis. Journal Article
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GRADED MENTAL ARITHMETIC AS AN ACTIVE PSYCHOLOGICAL CHALLENGE Journal Article
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GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit. Journal Article
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GeneEvolve: a fast and memory efficient forward-time simulator of realistic whole-genome sequence and SNP data Journal Article
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Genome-wide mapping of mutations at single-nucleotide resolution for protein, metabolic and genome engineering Journal Article
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Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample Journal Article
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Grow Where You Thrive, or Where Only You Can Survive? An Analysis of Performance Curve Evolution in a Clade with Diverse Habitat Affinities Journal Article
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HUMAN NONMUSCLE MYOSIN HEAVY-CHAIN MESSENGER-RNA - GENERATION OF DIVERSITY THROUGH ALTERNATIVE POLYADENYLYLATION Journal Article
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Handwriting Analysis Indicates Spontaneous Dyskinesias in Neuroleptic Naive Adolescents at High Risk for Psychosis Journal Article
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Harmonizing semantic annotations for computational models in biology Journal Article
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Harnessing technology to improve formative assessment of student conceptions in STEM: forging a national network. Journal Article
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Hierarchical Partial Matching and Segmentation of Interacting Cells Journal Article
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Human Proteinpedia enables sharing of human protein data Journal Article
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IWBDA 2012 Special Issue Journal Article
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Improved validation of peptide MS/MS assignments using spectral intensity prediction Journal Article
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Improving Students' Long-Term Knowledge Retention Through Personalized Review Journal Article
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Influence of Distal Resistance and Proximal Stiffness on Hemodynamics and RV Afterload in Progression and Treatments of Pulmonary Hypertension: A Computational Study with Validation Using Animal Models Journal Article
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Instant spectral assignment for advanced decision tree-driven mass spectrometry Journal Article
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IsoformResolver: A Peptide-Centric Algorithm for Protein Inference Journal Article
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JSBML 1.0: providing a smorgasbord of options to encode systems biology models Journal Article
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LIMITED SAMPLING OF CONFORMATIONAL SPACE BY THE DISTANCE GEOMETRY ALGORITHM - IMPLICATIONS FOR STRUCTURES GENERATED FROM NMR DATA Journal Article
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Large area mass analyzer instrument for the chemical analysis of interstellar dust particles Journal Article
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Lessons learned from comparing molecular dynamics engines on the SAMPL5 dataset Journal Article
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Mapping and characterization of structural variation in 17,795 human genomes Journal Article
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Measuring the Absolute Abundance of the Smad Transcription Factors Using Quantitative Immunoblotting Journal Article
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Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications Journal Article
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Modeling 3-D compliant blood flow with fosls Journal Article
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Modeling Extended Twin Family Data II: Power Associated With Different Family Structures Journal Article
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MotifCluster: an interactive online tool for clustering and visualizing sequences using shared motifs Journal Article
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Motion Tracker: Camera-Based Monitoring of Bodily Movements Using Motion Silhouettes Journal Article
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PhyloGeoViz: a web-based program that visualizes genetic data on maps Journal Article
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Plant community responses to experimental warming across the tundra biome Journal Article
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Practical methods for deuterium exchange/mass spectrometry. Journal Article
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PrimerProspector: de novo design and taxonomic analysis of barcoded polymerase chain reaction primers Journal Article
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Proposed Data Model for the Next Version of the Synthetic Biology Open Language Journal Article
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QIIME allows analysis of high-throughput community sequencing data Journal Article
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Quantifying the Impact of Chimera MS/MS Spectra on Peptide Identification in Large-Scale Proteomics Studies Journal Article
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Rebranding Exercise: There's an App for That Journal Article
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Recommendations for utilizing and reporting population genetic analyses: the reproducibility of genetic clustering using the program STRUCTURE Journal Article
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Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Journal Article
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Review of ozone and temperature lidar validations performed within the framework of the Network for the Detection of Stratospheric Change Journal Article
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Robust sequence selection method used to develop the FluChip diagnostic microarray for influenza virus Journal Article
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Role of a heterogeneous free state in the formation of a specific RNA-theophylline complex Journal Article
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SBML Level 3: an extensible format for the exchange and reuse of biological models Journal Article
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SBOL Visual: A Graphical Language for Genetic Designs Journal Article
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SBOL-OWL: An Ontological Approach for Formal and Semantic Representation of Synthetic Biology Information Journal Article
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SBOLDesigner 2: An Intuitive Tool for Structural Genetic Design Journal Article
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SBOLExplorer: Data Infrastructure and Data Mining for Genetic Design Repositories Journal Article
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SITEHOUND-web: a server for ligand binding site identification in protein structures Journal Article
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SV-plaudit: A cloud-based framework for manually curating thousands of structural variants Journal Article
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Searching for and predicting the activity of sites for DNA binding proteins: compilation and analysis of the binding sites for Escherichia coli integration host factor (IHF). Journal Article
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Self-assembly of a metal-ion-bound monolayer of trigonal connectors on mercury: An electrochemical Langmuir trough Journal Article
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Sexual infidelity in a national survey of American women: Differences in prevalence and correlates as a function of method of assessment Journal Article
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Sharing Structure and Function in Biological Design with SBOL 2.0 Journal Article
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SitePainter: a tool for exploring biogeographical patterns Journal Article
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Solution structure of tRNA(Val) from refinement of homology model against residual dipolar coupling and SAXS data Journal Article
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Specifying Combinatorial Designs with the Synthetic Biology Open Language (SBOL) Journal Article
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Stabilization of an optical microscope to 0.1 nm in three dimensions Journal Article
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Stochastic Lanczos estimation of genomic variance components for linear mixed-effects models Journal Article
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Structure of the BamC Two-Domain Protein Obtained by Rosetta with a Limited NMR Data Set Journal Article
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Synthetic Biology Open Language (SBOL) Version 2.2.0 Journal Article
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Synthetic Biology Open Language Visual (SBOL Visual) Version 2.0 Journal Article
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Synthetic biology open language (SBOL) version 3.0.0 Journal Article
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Systems Biology Markup Language (SBML) Level 3 Package: Distributions, Version 1, Release 1 Journal Article
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TESTING STRUCTURAL EQUATION MODELS FOR TWIN DATA USING LISREL Journal Article
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THESEUS: maximum likelihood superpositioning and analysis of macromolecular structures Journal Article
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Testing for physical validity in molecular simulations Journal Article
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The Development of a Novel High Throughput Computational Tool for Studying Individual and Collective Cellular Migration Journal Article
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The Distributed Annotation System Journal Article
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The MiPACQ clinical question answering system. Conference Proceeding
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The National Longitudinal Study of Adolescent to Adult Health (Add Health) Sibling Pairs Genome-Wide Data Journal Article
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The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology Journal Article
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The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core Journal Article
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The adjoint of CMAQ Journal Article
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The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE). Journal Article
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The mathematics of SELEX against complex targets Journal Article
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Three dimensional tracking of fluorescent microparticles using a photon-limited double-helix response system Journal Article
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Three-Dimensional Root Phenotyping with a Novel Imaging and Software Platform Journal Article
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UniFrac: an effective distance metric for microbial community comparison Journal Article
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Using Internet search engines to estimate word frequency Journal Article
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Using parentage analysis to examine gene flow and spatial genetic structure Journal Article
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Using the nucleotide substitution rate matrix to detect horizontal gene transfer Journal Article
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iBioSim 3: A Tool for Model-Based Genetic Circuit Design Journal Article
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iBioSim: a tool for the analysis and design of genetic circuits Journal Article
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pySBOL: A Python Package for Genetic Design Automation and Standardization Journal Article
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sboljs: Bringing the Synthetic Biology Open Language to the Web Browser Journal Article
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svtools: population-scale analysis of structural variation Journal Article
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