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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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CoMUT Resource Report Resource Website 1+ mentions |
CoMUT (RRID:SCR_027745) | software library, software resource, software toolkit, source code | Software Python library for creating comutation plots to visualize genomic and phenotypic information. Used for visualizing genomic and phenotypic information via comutation plots. | genomic DNA, phenotype, visualizing genomic and phenotypic information, comutation plots, | NCI R01 CA227388; NCI R37 CA222574; NCI U01 CA233100; NIGMS T32 GM008313; NSF |
PMID:32502231 | Free, Available for download, Freely available | SCR_027745 | 2026-09-12 01:05:35 | 4 | |||||||||
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HiTIMED Resource Report Resource Website |
HiTIMED (RRID:SCR_028180) | software application, software resource, source code | Software DNA methylation-based algorithm, to estimate cell proportions in tumor microenvironment. Profiles tumor, immune, and angiogenic components, allowing researchers to study tumor composition and its clinical implications using archival biospecimens. | estimate cell proportions, cell type resolution, tumor microenvironment, tumor-type-specific DNA methylation data, | NCI P30 CA168524; NCI P50 CA097257; NCI R01 CA207360; NCI R01CA216265; NIGMS P20 GM130423; NIGMS P20GM103428; NIGMS P20GM104416 |
PMID:36348337 | Free, Available for download, Freely available | SCR_028180 | Hierarchical Tumor Immune Microenvironment Epigenetic Deconvolution | 2026-09-12 01:05:45 | 0 | ||||||||
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OncoDB Resource Report Resource Website 50+ mentions |
OncoDB (RRID:SCR_028340) | data or information resource, database | Database offers integrated multi-omic data for patients across 33 cancer types. It encompasses gene expression, DNA methylation, somatic mutations, proteomic profiles, and chromatin accessibility, drawing from TCGA, GTEx, and CPTAC projects. Users can compare gene expression, DNA methylation, and protein levels between tumor and normal tissues, identifying differentially expressed genes and proteins, and examining gene-to-gene correlations. Provides oncogene mutation profiles and allows for survival analysis based on gene expression and methylation, linked to clinical parameters. Facilitates exploration of multi-omic correlations, such as gene expression with DNA methylation, and their variations with mutation status. Extends its analytical capabilities to include six major oncoviruses, offering insights into their impact on gene expression, methylation, and patient survival. | cancer patients data, gene expression, DNA methylation, somatic mutations, proteomic profiles, chromatin accessibility, | NCI R01CA287778; NIDCR R01DE026471; NIGMS R35GM141535 |
PMID:34718715 PMID:40995640 |
Free, Freely available, | SCR_028340 | OncoDB2.0 | 2026-09-12 01:05:48 | 84 | ||||||||
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Mitochondrial Function and In Vivo Imaging Core Resource Report Resource Website |
Mitochondrial Function and In Vivo Imaging Core (RRID:SCR_028891) | MF-II Core | access service resource, core facility, service resource | The Mitochondrial Function and In Vivo Imaging (MF-II) Core provides specialized expertise, advanced instrumentation, and comprehensive services for assessing mitochondrial function, metabolism, cardiopulmonary physiology, and in vivo structure and function. The Core supports cardiovascular, pulmonary, and vascular research through high-resolution metabolic and mitochondrial analyses, noninvasive imaging, hemodynamic assessment, and established preclinical disease models. The MF-II Core works collaboratively with investigators to provide experimental design consultation, technical expertise, data acquisition, and analysis to generate high-quality, reproducible data. | Mitochondrial Function, Mitochondrial Bioenergetics, Cellular Metabolism, Oxygen Consumption, Glycolysis, High-Resolution Respirometry, Seahorse XFe96, Oroboros, Echocardiography, Cardiac Function, Hemodynamics, In Vivo Imaging, Micro-CT, PET Imaging, Laser Doppler, Cardiopulmonary Physiology, Preclinical Imaging, Animal Models, Pulmonary Hypertension, Cardiovascular Biology | NIGMS P30GM149398 | SCR_028891 | 2026-09-12 01:06:02 | 0 | ||||||||||
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GLIMMPSE Resource Report Resource Website 1+ mentions |
GLIMMPSE (RRID:SCR_016297) | data access protocol, software resource, web service | Web based software tool that calculates power and sample size for study designs with normally distributed outcomes. Permits power calculations for clinical trials, randomized experiments, and observational studies with clustering, repeated measures, and both, and almost any testable hypothesis. GLIMMPSE Version 3 release back end has been refactored in Python, interface has been simplified, requiring user decisions about only one topic per screen, new menu improves specification of both between-participant and within-participant hypothese, recursive algorithm permits computing covariances for up to ten levels of clustering. | power, multivariate, linear, models, Gaussian, error, Java, web, calculate | NIGMS R01 GM121081; NIGMS R25 GM111901; NLM G13 LM011879 |
PMID:24403868 PMID:40901910 |
Free, Freely available | SCR_016297 | , GLIMMPSE Version 3 | 2026-09-16 10:44:56 | 9 | ||||||||
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Structure-function linkage database Resource Report Resource Website 10+ mentions |
Structure-function linkage database (RRID:SCR_001375) | SFLD | data or information resource, database | A database of hierarchical classification of enzymes that relates specific sequence-structure features to specific chemical capabilities. The SFLD classifies evolutionarily related enzymes according to shared chemical functions and maps these shared functions to conserved active site features. The classification is hierarchical, where broader levels encompass more distantly related proteins with fewer shared features. It thus serves as the analysis and archive site for superfamilies targeted by the Enzyme Function Initiative, and is developed by the Babbitt Laboratory in collaboration with the UCSF Resource for Biocomputing, Visualization, and Informatics. The resource also provides a collection of tools and data for investigating sequence-structure-function relationships and hypothesizing function. | software, enzyme, structure-function relationship, blast, reaction, superfamily, hidden markov model, sequence alignment, protein similarity network, sequence, structure, function |
uses: UCSF Chimera has parent organization: Resource for Biocomputing Visualization and Informatics |
NIGMS R01GM60595; NIGMS P01GM071790; NIGMS U54GM093342 |
PMID:18428763 PMID:16489747 |
Free, Freely available, | nlx_152532 | SCR_001375 | 2026-09-12 12:55:25 | 18 | ||||||
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Sherlock Resource Report Resource Website 50+ mentions |
Sherlock (RRID:SCR_001628) | Sherlock | data or information resource, service resource | Service to discover disease genes in GWAS using eQTL signature matching by simply submitting your list of GWAS associations (SNPs and p-values). It is important to upload all SNPs in your association study, not just the top hits. Sherlock may be able to group multiple lower-confidence SNPs to discover functionally-important genes. | genome-wide association study, expression quantitative trait locus, disease gene, snp, gene expression, gene, disease, association, p-value, cis, trans, genetic variation, mapping, phenotype, FASEB list | has parent organization: University of California at San Francisco; California; USA | NIGMS R01GM070808; NIGMS U19GM61390; NIGMS P50 GM081879 |
PMID:23643380 | Free, Freely available | nlx_153895 | SCR_001628 | 2026-09-12 12:55:28 | 90 | ||||||
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ALFRED Resource Report Resource Website 50+ mentions |
ALFRED (RRID:SCR_001730) | ALFRED | data or information resource, data repository, database, service resource, storage service resource | A public curated compilation of allele frequency data on anthropologically defined human population samples linked to the molecular genetics-human genome databases. Only data on well defined population samples that are large enough to yield reasonably accurate frequencies and for polymorphisms sufficiently defined to be replicable can be included in ALFRED. Researchers wishing to have their data entered into ALFRED should contact them. Initially, ALFRED contained primarily data generated in the laboratories of K.K. and J.R. Kidd in the Department of Genetics at Yale, including extensive unpublished data. Data from the published literature are being entered into ALFRED in a systematic way, with a focus on polymorphisms studied in many different populations. ALFRED is distinct from such databases as dbSNP, which catalogs sequence variation. ALFRED's focus is on allele frequencies in diverse anthropologically defined populations. It is not a compendium of human DNA polymorphisms but of frequencies of selected polymorphisms with an emphasis on those that have been studied in multiple populations. All of the data in ALFRED are considered to be in the public domain and available for use in research and teaching. ALFRED provides easy searching options including versatile "Keyword search" and also has numerous summary tables providing quick overviews of contents by chromosome, population, average heterozygosity, Fst and others, all available under various tabs from the ALFRED homepage. | allele frequency, dna polymorphism, haplotype, high throughput, genome, population, sample, education, polymorphism, allele, chromosome, heterozygosity, fst, loci, pathway, genetics, FASEB list | has parent organization: Yale School of Medicine; Connecticut; USA | NIGMS P01GM 57672 | PMID:19325849 PMID:11125124 PMID:12209575 |
Free, Freely Available | nif-0000-02541, r3d100012700 | https://doi.org/10.17616/R3GZ2J | SCR_001730 | The ALlele FREquency Database, ALlele FREquency Database | 2026-09-12 12:55:30 | 74 | ||||
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ASAP Resource Report Resource Website 50+ mentions |
ASAP (RRID:SCR_001849) | ASAP | data or information resource, data repository, database, service resource, storage service resource | Database and web interface developed to store, update and distribute genome sequence data and gene expression data. ASAP was designed to facilitate ongoing community annotation of genomes and to grow with genome projects as they move from the preliminary data stage through post-sequencing functional analysis. The ASAP database includes multiple genome sequences at various stages of analysis, and gene expression data from preliminary experiments. Use of some of this preliminary data is conditional, and it is the users responsibility to read the data release policy and to verify that any use of specific data obtained through ASAP is consistent with this policy. There are four main routes to viewing the information in ASAP: # a summary page, # a form to query the genome annotations, # a form to query strain collections, and # a form to query the experimental data. Navigational buttons appear on every page allowing users to jump to any of these four points., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene expression, genome, genome sequence, multiple genome sequence, post sequencing functional analysis, preliminary experiment, blast, annotation, data analysis service |
is used by: NIF Data Federation is listed by: SoftCite is related to: AmiGO has parent organization: University of Wisconsin-Madison; Wisconsin; USA |
USDA 2001-52100-11316; NIGMS GM62994-02; NIGMS GM35682-15A1 |
PMID:12519969 | Free, Freely available | nif-0000-02571, r3d100010666 | https://omictools.com/asap-3-tool | SCR_001849 | A Systematic Annotation Package for Community Analysis of Genome, ASAP: a systematic annotation package for community analysis of genomes, A systematic annotation package for community analysis of genomes | 2026-09-12 12:55:32 | 53 | ||||
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PhosphoSitePlus: Protein Modification Site Resource Report Resource Website 1000+ mentions |
PhosphoSitePlus: Protein Modification Site (RRID:SCR_001837) | PSP | data or information resource, knowledge environment resource, portal | A freely accessible on-line systems biology resource devoted to all aspects of protein modification, as well as other post-translational modifications. It provides valuable and unique tools for both cell biologists and mass spectroscopists. PhosphoSite is a human- and mouse-centric database. It includes features such as: viewing the locations of modified residues on molecular models; browsing and searching MS2 records by disease, tissue, and cell line; submitting lists of peptides to identify previously reported genes; searching by sub-cellular localization, treatment, tissues, cell types, cell lines and diseases, and protein types and protein domains; searching for experimentally-verified kinase substrates and viewing preferred substrate motifs; and viewing MS2 spectra for peptides and sites not previously published. | portal, mass spectroscopist, molecular model, mouse, post translational, subcellular localization, protein modification, post-translational modification, protein phosphorylation, protein structure, protein function, ubiquitinylation, acetylation, cellular component, cell type, visualization, data repository, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian is related to: Cytoscape is related to: ConsensusPathDB has parent organization: Cell Signaling Technology |
NCI ; NIAAA R44 AA014848; NIGMS R43 GM65768 |
PMID:22135298 | Free, Freely available | biotools:phosphositeplus, nif-0000-10399 | https://bio.tools/phosphositeplus | SCR_001837 | PhosphoSitePlus, PhosphoSite | 2026-09-12 12:55:32 | 1003 | ||||
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SPP Resource Report Resource Website 1+ mentions |
SPP (RRID:SCR_001790) | data analysis software, data processing software, software application, software resource | R analysis and processing package for Illumina platform Chip-Seq data. | chip seq data, illummina, r package, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite |
NHGRI U01HG004258; NIGMS R01GM082798; NCRR UL1RR024920 |
DOI:10.1038/nbt.1508 | Free, Available for download, Freely available | OMICS_00425, biotools:spp | https://bio.tools/spp | https://sites.google.com/a/brown.edu/bioinformatics-in-biomed/spp-r-from-chip-seq | SCR_001790 | SPP Package | 2026-09-12 12:55:31 | 9 | ||||
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Transporter Classification Database Resource Report Resource Website 100+ mentions |
Transporter Classification Database (RRID:SCR_004490) | TCDB, TC | analysis service resource, data analysis service, data analysis software, data or information resource, data processing software, data repository, database, production service resource, service resource, software application, software resource, source code, storage service resource | Curated, relational database containing sequence, classification, structural, functional and evolutionary information about transport systems from variety of living organisms based on IUBMB-approved transporter classification (TC) system. Descriptions, TC numbers, and examples of over 600 families of transport proteins are provided. TC system is analogous to Enzyme Commission (EC) system for classification of enzymes, except that it incorporates both functional and phylogenetic information. TCDB users may submit their own sequenced proteins and descriptions for inclusion into database. The software tools used are all freely available for download. These programs are used for analysis of Protein and DNA sequences. Programs require UNIX server to run. | membrane transport, protein sequence, transporter, bio.tools, FASEB list |
is recommended by: National Library of Medicine is listed by: bio.tools is listed by: Debian has parent organization: University of California at San Diego; California; USA |
NIGMS GM1077402 | PMID:19022853 PMID:16381841 |
Free, Freely available | nlx_47724, biotools:tcdb | https://bio.tools/tcdb | SCR_004490 | Transporter Classification Database | 2026-09-12 12:56:13 | 343 | ||||
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U-Compare Resource Report Resource Website 1+ mentions |
U-Compare (RRID:SCR_004911) | U-Compare | data processing software, service resource, software application, software resource, text-mining software, workflow software | An integrated text mining / natural language processing system based on the Unstructured Information Management Architecture (UIMA) Framework. It allows interoperability of text mining tools and allows the creation of text mining workflows, comparison and visualization of tools. U-Compare can be launched straight from the web or downloaded. As the name implies comparison of components and workflows is a central feature of the system. U-Compare allows sets of components to be run in parallel on the same inputs and then automatically generates statistics for all possible combinations of these components. Once a workflow has been created in U-Compare it can be exported and shared with other users or used with other UIMA compatible tools and so in addition to comparison, U-Compare also functions as a general purpose workflow creation tool. It contains a repository of 50+ biomedical text mining components. These components are included in the U-Compare single-click-to-launch package, ready to use by just drag-and-drop. You can also use this repository independent from the U-Compare system. Link with Taverna It has a link with Taverna for scientific workflows, http://bioinformatics.oxfordjournals.org/content/26/19/2486.abstract, where you can use U-Compare and its workflow from within the Taverna workflow. There are two ways, the U-Compare Taverna plugin and the U-Compare command line mode as a Taverna activity. We have recently integrated it with Peter Murray-Rust''''s OSCAR for Chemistry (see http://www.nactem.ac.uk/cheta/) Web Demo: http://www.nactem.ac.uk/software/cheta/ | statistics, text mining, natural language processing, interoperability, comparison, workflow, computational linguistics |
is listed by: FORCE11 is related to: Taverna is related to: Chemistry Using Text Annotations is related to: Oscar3 has parent organization: University of Tokyo; Tokyo; Japan has parent organization: National Centre for Text Mining has parent organization: University of Colorado Denver; Colorado; USA |
NIGMS R01 GM083649-04; NLM R01 LM008111-07; NIGMS R01GM083649; NLM R01LM008111; NLM R01LM009254 |
PMID:19414535 | nlx_87780 | SCR_004911 | 2026-09-12 12:56:18 | 5 | |||||||
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PANTHER Resource Report Resource Website 5000+ mentions |
PANTHER (RRID:SCR_004869) | PANTHER | analysis service resource, controlled vocabulary, data analysis service, data or information resource, database, ontology, production service resource, service resource | System that classifies genes by their functions, using published scientific experimental evidence and evolutionary relationships to predict function even in absence of direct experimental evidence. Orthologs view is curated orthology relationships between genes for human, mouse, rat, fish, worm, and fly., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | hidden markov model, human, mouse, genome, protein, gene, function, pathway, ortholog, phylogenetic tree, gene ortholog, protein family, gene function, evolution, data set, molecular function, biological process, cellular component, transcript, FASEB list |
is used by: NIF Data Federation is used by: YPED is used by: EMBRYS is related to: Gene Ontology is related to: Pathway Commons is related to: KOBAS has parent organization: University of Southern California; Los Angeles; USA is parent organization of: PANTHER Evolutionary analysis of coding SNPs |
NIGMS GM081084 | PMID:23193289 PMID:20015972 PMID:12952881 |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_015893, nlx_84521 | SCR_004869 | PANTHER Classification System, Protein ANalysis THrough Evolutionary Relationships Classification System, Protein ANalysis THrough Evolutionary Relationships, PANTHER (Protein ANalysis THrough Evolutionary Relationships) Classification System | 2026-09-12 12:56:17 | 8830 | |||||
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Polbase Resource Report Resource Website |
Polbase (RRID:SCR_006107) | data or information resource, data repository, database, service resource, storage service resource | Repository of biochemical, genetic, and structural information about DNA Polymerases. Polbase is designed to compile detailed results of polymerase experimentation, presenting them in a dynamic view to inform further research. After validation, results from references are displayed in context with relevant experimental details and are always traceable to their source publication. Polbase is connected to other resources, including PubMed, UniProt and the RCSB Protein Data Bank, to provide multi-faceted views of polymerase knowledge. In addition to a simple web interface, Polbase data is exposed for custom analysis by external software. | dna polymerase repository, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is related to: PubMed is related to: UniProt has parent organization: New England Biolabs |
Small Business Innovation Research ; NIGMS 1R44GM087021 |
PMID:21993301 | Free, Open unspecified license, Acknowledgement required | biotools:polbase, nlx_151580 | https://bio.tools/polbase | SCR_006107 | DNA Polymerase Database | 2026-09-12 12:56:35 | 0 | |||||
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QTL Archive Resource Report Resource Website 1+ mentions |
QTL Archive (RRID:SCR_006213) | QTL Archive | data or information resource, data repository, data set, service resource, storage service resource | Raw data from various QTL (quantitative trait loci) studies using rodent inbred line crosses. Data are available in the .csv format used by R/qtl and pseudomarker programs. In some cases analysis scripts and/or results are posted to accompany the data. These data are provided as a courtesy to the genetic mapping community and may be used for purposes of developing or testing new analysis methods or software and for meta-analysis of quantitative traits. The authors of the datasets retain individual ownership of the data. As a courtesy to the authors, please alert them in advance of any publications that result from reanalysis of these data or obtain permission prior to redistribution of data or results. In all data sets and files, the marker locations have been translated to Cox build 37 coordinates unless otherwise stated. Please consider contributing your data to the QTL Archive. | quantitative trait locus, inbred rat strain, phenotype, cross, genetics, inbreeding, genetic marker, quantitative genetics |
is listed by: re3data.org has parent organization: Jackson Laboratory |
NIGMS R01 GM070683 | The community can contribute to this resource | r3d100010571, nlx_151757 | https://doi.org/10.17616/R3C02Z | http://qtlarchive.org/ | SCR_006213 | Quantitative Trait Loci (QTL) Archive, Quantitative Trait Loci Archive | 2026-09-12 12:56:36 | 6 | ||||
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PSICQUIC Registry Resource Report Resource Website 10+ mentions |
PSICQUIC Registry (RRID:SCR_006389) | PSICQUIC | data access protocol, software resource, web service | Web service with well defined methods to enable programmatic access to molecular interactions. Standard for computational access to molecular interaction data resources. | molecular interaction, soap, rest, miql, programmatic access to molecular interactions |
is used by: mentha is related to: Interaction Reference Index is related to: IMEx - The International Molecular Exchange Consortium is related to: Reactome is related to: InnateDB has parent organization: HUPO Proteomics Standards Initiative |
European Bioinformatics Institute for Chemogenomics Databases ; European Union Apoptosis Systems Biology Applied to Cancer and AIDS ; European Union Experimental Network for Functional Integration ; European Union Proteomics Standards Initiative and International Molecular Exchange ; European Union Serving Life-science Information for the Next Generation ; Foundation for the National Institutes of Health and Genome British Columbia ; German National Genome Research Network ; Italian Association for Cancer Research ; NIGMS R01GM071909; Wellcome Trust Strategic Award to the European Molecular Biology Laboratory |
PMID:21716279 | Free, Freely available | nlx_152188, nlx_152189, SCR_006392 | http://code.google.com/p/psicquic/ | SCR_006389 | Protemics Standard Initiative Common QUery InterfaCe, PSI common query interface | 2026-09-12 12:56:39 | 30 | ||||
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LIPID Metabolites And Pathways Strategy Resource Report Resource Website 1000+ mentions |
LIPID Metabolites And Pathways Strategy (RRID:SCR_006579) | LIPID MAPS | data or information resource, database, narrative resource, standard specification | Multi-institutional supported website and database that provides access to large number of globally used lipidomics resources. Internationally led the field of lipid curation, classification, and nomenclature since 2003. Produces new open-access databases, informatics tools and lipidomics-focused training activities will be generated and made publicly available for researchers studying lipids in health and disease. | lipid, pathway, classification, metabolomics, metabolite, FASEB list |
is listed by: NIDDK Information Network (dkNET) has parent organization: University of California at San Diego; California; USA is parent organization of: LIPID MAPS Proteome Database is parent organization of: LIPID MAPS Structure Database |
Glue Grant ; NIGMS |
Free, Freely available | nif-0000-00368, SCR_026208, r3d100012315 | https://doi.org/10.17616/R3WW7G | SCR_006579 | , LIPID Maps database, LIPID Metabolites And Pathways Strategy database, LIPID Maps | 2026-09-12 12:56:42 | 1473 | |||||
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SkateBase Resource Report Resource Website 10+ mentions |
SkateBase (RRID:SCR_005302) | SkateBase | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | Portal supporting the North East Bioinformatics Collaborative''s project to sequence the genome of the Little Skate. Provided is a clearinghouse for Little Skate Genome Project and other publicly available Skate and Ray (Batoidea) genome data, and tools for data visualization and analysis. Little Skate Genome Project The little skate (Leucoraja erinacea) is a chondrichthyan (cartilaginous) fish native to the east coast of North America. Elasmobranchs (Skates, Rays, and Sharks) exhibit many fundamental vertebrate characteristics, including a neural crest, jaws and teeth, an adaptive immune system, and a pressurized circulatory system. These characteristics have been exploited to promote understanding about human physiology, immunology, stem cell biology, toxicology, neurobiology and regeneration. The development of standardized experimental protocols in elasmobranchs such as L. erinacea and the spiny dogfish shark (Squalus acanthias) has further positioned these organisms as important biomedical and developmental models. Despite this distinction, the only reported chondrichthyan genome is the low coverage (1.4x) draft genome of the elephant shark (Callorhinchus milii). To close the evolutionary gaps in available elasmobranch genome sequence data, and generate critical genomic resources for future biomedical study, the genome of L. erinacea is being sequenced by the North East Bioinformatics Collaborative (NEBC). As close evolutionary relatives, the little skate sequence will facilitate studies that employ dogfish shark and other elasmobranchs as model organisms. Skate tools include the SkateBLAST and the Skate Genome Browsers: Little Skate Mitochondrion, Thorny Skate Mitochondrion, and Ocellate Spot Skate Mitochondrion. | little skate, leucoraja erinacea, sequence, genome, mitochondrion, thorny skate, ocellate spot skate, FASEB list |
has parent organization: North East Cyberinfrastructure Consortium has parent organization: University of Delaware; Delaware; USA has parent organization: University of Delaware Skate Genome Project |
NIGMS 3P20GM103446-12S1 | nlx_144350 | SCR_005302 | 2026-09-12 12:56:24 | 40 | ||||||||
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FLASH Resource Report Resource Website 1000+ mentions |
FLASH (RRID:SCR_005531) | FLASh | data analysis software, data processing software, sequence analysis software, software application, software resource | Open source software tool to merge paired-end reads from next-generation sequencing experiments. Designed to merge pairs of reads when original DNA fragments are shorter than twice length of reads. Can improve genome assemblies and transcriptome assembly by merging RNA-seq data. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite is related to: shovill is related to: CLIP-Explorer has parent organization: Johns Hopkins University; Maryland; USA |
NHGRI R01 HG006677; NIGMS R01 GM083873; NLM R01 LM006845 |
PMID:21903629 | Free, Available for download, Freely available | biotools:flash, OMICS_01047 | https://sourceforge.net/projects/flashpage/files/, https://bio.tools/flash, https://sources.debian.org/src/flash/ | SCR_005531 | Fast Length Adjustment of SHort reads, Fast Length Adjustment of Short reads | 2026-09-12 12:56:27 | 2461 |
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