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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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University of Lyon; France Resource Report Resource Website 1+ mentions |
University of Lyon; France (RRID:SCR_010178) | university | University of Lyon, located in Lyon and Saint-Étienne, France, is a center for higher education and research comprising 11 members and 24 associated institutions. | is parent organization of: I3-CRB: Interoperable IT Infrastructure for Biological Resources Centres / Biobanks - France | nlx_30442 | http://www.univ-lyon2.fr/international-/ | SCR_010178 | 2026-08-15 11:23:51 | 1 | ||||||||||
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San Diego State University; California; USA Resource Report Resource Website 1+ mentions |
San Diego State University; California; USA (RRID:SCR_009874) | SDSU | university | Public research university in San Diego, California. Founded in 1897 as San Diego Normal School, it is the third-oldest university in the 23-member California State University system. | is parent organization of: PRINSEQ | nlx_156724, Wikidata:Q913861, ISNI:0000 0001 0790 1491, Crossref funder ID:100007099, grid.263081.e | https://ror.org/0264fdx42 | SCR_009874 | San Diego State University | 2026-08-15 11:23:50 | 1 | ||||||||
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IsoEM Resource Report Resource Website 10+ mentions |
IsoEM (RRID:SCR_009993) | IsoEM | software resource | Software package that can be used to infer isoform and gene expression levels from high-throughput transcriptome sequencing (RNA-Seq) data. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Connecticut; Connecticut; USA |
biotools:isoem, OMICS_01278 | https://bio.tools/isoem | SCR_009993 | 2026-08-15 11:24:01 | 10 | ||||||||
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Centre for Reviews and Dissemination Resource Report Resource Website 10+ mentions |
Centre for Reviews and Dissemination (RRID:SCR_010267) | CRD | institution | A research department of the University of York provides research-based information about the effects of health and social care interventions via their databases. The institute undertakes systematic reviews evaluating research evidence on health and public health questions of national and international importance. | evidence review, research review, public health, evidence synthesis, FASEB list | is related to: PROSPERO | National Institute for Health Research UK | Public, Available to the research community | nlx_156926 | http://www.york.ac.uk/ | SCR_010267 | University of York Centre for Reviews and Dissemination | 2026-08-15 11:24:02 | 40 | |||||
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Phyre Resource Report Resource Website 500+ mentions |
Phyre (RRID:SCR_010270) | algorithm | A structure prediction system to reliably detect remote homologies. | has parent organization: Imperial College London; London; United Kingdom | PMID:19247286 | nlx_156932 | SCR_010270 | Protein Homology/Anology Recognition Engine | 2026-08-15 11:23:59 | 758 | |||||||||
|
BIOBASE Corporation Resource Report Resource Website 100+ mentions |
BIOBASE Corporation (RRID:SCR_010271) | commercial organization | THIS RESOURCE IS OUT OF SERVICE, documented on February 1st,2022. BIOBASE offers academic and non-profit organizations free access to TRANSFAC?? non-professional version with much reduced functionality and content compared to our professional database. | FASEB list |
is related to: Human Gene Mutation Database is parent organization of: Genome Trax is parent organization of: TRANSPATH is parent organization of: Gene Regulation Programs is parent organization of: TRANSCompel is parent organization of: Gene Regulation Databases |
THIS RESOURCE IS OUT OF SERVICE | nlx_156933 | SCR_010271 | 2026-08-15 11:24:02 | 184 | |||||||||
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BitSeq Resource Report Resource Website 10+ mentions |
BitSeq (RRID:SCR_009904) | BitSeq | software resource | A software application for inferring expression levels of individual transcripts from sequencing (RNA-Seq) data and estimating differential expression (DE) between conditions. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
DOI:10.1093/bioinformatics/btv483 DOI:10.1093/bioinformatics/bts260 |
, OMICS_01269, biotools:bitseq | https://bio.tools/bitseq, https://sources.debian.org/src/bitseq/, | SCR_009904 | 2026-08-15 11:23:58 | 20 | |||||||
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U.S. Department of Labor Resource Report Resource Website 1+ mentions |
U.S. Department of Labor (RRID:SCR_010157) | DOL | institution | Fosters, promotes, and develops the welfare of the wage earners, job seekers, and retirees of the United States; improves working conditions; advances opportunities for profitable employment; and assures work-related benefits and rights. | grid.420412.1, nlx_151864, ISNI: 0000 0001 2097 824X, Wikidata: Q628807, Crossref funder ID: 100000778 | https://ror.org/05mbkbj54 | SCR_010157 | US Dept. of Labor, US DOL, US Department of Labor, United States Department of Labor | 2026-08-15 11:23:58 | 1 | |||||||||
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Johns Hopkins University; Maryland; USA Resource Report Resource Website 10+ mentions |
Johns Hopkins University; Maryland; USA (RRID:SCR_010247) | JHU | university | Johns Hopkins University is private research university in Baltimore, Maryland. Founded in 1876, university was named for its first benefactor, American entrepreneur, abolitionist, and philanthropist Johns Hopkins. | private, university, Baltimore, Maryland |
uses: DIRECT2experts is affiliated with: Diabetes Research Centers is related to: Alzheimers Disease Genetics Consortium is related to: International AMD Genetics Consortium is related to: ABX Guide is related to: Clinical and Translational Science Awards Consortium is parent organization of: SynaptomeDB is parent organization of: Johns Hopkins University School of Medicine; Baltimore, Maryland; USA is parent organization of: sim4cc is parent organization of: MRI Studio is parent organization of: CKID A Prospective Cohort Study of Kidney Disease in Children is parent organization of: Nonalcoholic Steatohepatitis Clinical Research Network is parent organization of: ASprofile is parent organization of: GlimmerHMM is parent organization of: Neurogenetics and Behavior Center is parent organization of: Human Proteinpedia is parent organization of: Schramm Lab Spinal Cord Atlases is parent organization of: NetPath is parent organization of: Academic Drug Discovery Consortium is parent organization of: CardioVascular Research Grid (CVRG) is parent organization of: Johns Hopkins University; Undergraduate Neuroscience Program is parent organization of: Bowtie is parent organization of: FLASH is parent organization of: TMAJ is parent organization of: Gastroparesis Clinical Research Consortium is parent organization of: HPRD - Human Protein Reference Database is parent organization of: Atlweb: Alternatives to Animal Testing is parent organization of: Center for Inherited Disease Research is parent organization of: The Protein Coil Library is parent organization of: HIV Guide is parent organization of: Johns Hopkins School of Medicine Department of Molecular and Comparative Pathobiology is parent organization of: Classic Articles in Visual Perception is parent organization of: Experimental Man Blog is parent organization of: MYC Cancer Gene is parent organization of: JIST: Java Image Science Toolkit is parent organization of: DOTS WM tract segmentation is parent organization of: JHU Proj. in Applied Medical Imaging is parent organization of: LDDMM is parent organization of: Johns Hopkins Bloomberg School of Public Health; Maryland; USA is parent organization of: Genetic Resources Core Facility is parent organization of: LS-SNP/PDB is parent organization of: JHU Deep Sequencing and Microarray Core is parent organization of: Glimmer is parent organization of: Johns Hopkins University Labs and Facilities is parent organization of: CRAVAT is parent organization of: John Hopkins University, In-Vivo Cellular Molecular Imaging Center is parent organization of: RosettaDock is parent organization of: CoGAPS is parent organization of: Blox is parent organization of: National Resource for Quantitative Functional MRI is parent organization of: Myrna is parent organization of: CAWorks is parent organization of: Principal Components Analysis of Scalar, Vector, and Mesh Vertex Data is parent organization of: Longitudinal MS Lesion Imaging Archive is parent organization of: Image Synthesis Tools is parent organization of: Atlases of amygdala and hippocampus for pediatric populations is parent organization of: HISAT2 is parent organization of: neurodata is parent organization of: Johns Hopkins University Integrated Imaging Center Core Facility is parent organization of: Center for Computational Biology at JHU is parent organization of: TopHat is parent organization of: PyRosetta is parent organization of: Ecosystem for Multi-modal Brain-behavior Experimentation and Research is parent organization of: Brain Observatory Storage Service and Database (BossDB) is parent organization of: Johns Hopkins University School of Medicine Genetic Resources Core Facility |
nlx_97251, , Wikidata: Q193727, GRID: grid.21107.35, ISNI: 0000 0001 2171 931, Crossref Funder ID: 100007880 | https://ror.org/00za53h95 | SCR_010247 | 2026-08-15 11:24:02 | 21 | ||||||||
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VassarStats Resource Report Resource Website 1000+ mentions |
VassarStats (RRID:SCR_010263) | software resource | Tools for performing statistical computation including: Clinical Research Calculators Probabilities Distributions Frequency Data Proportions Ordinal Data Correlation & Regression t-Tests & Procedures ANOVA ANCOVA | has parent organization: Vassar College; New York; USA | nlx_156916 | SCR_010263 | VassarStats: Website for Statistical Computation | 2026-08-15 11:24:02 | 1062 | ||||||||||
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TrueSight Resource Report Resource Website 1+ mentions |
TrueSight (RRID:SCR_009835) | TrueSight | software resource | Self-training Algorithm for Splice Junction Detection using RNA-seq. | is listed by: OMICtools | OMICS_01258 | SCR_009835 | 2026-08-15 11:23:50 | 2 | ||||||||||
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Royal College of Surgeons in Ireland; Dublin; Ireland Resource Report Resource Website 1+ mentions |
Royal College of Surgeons in Ireland; Dublin; Ireland (RRID:SCR_009786) | RCSI | university | Private university responsible for the medical speciality of surgery throughout Ireland. |
is related to: Biomedical Diagnostics Institute is parent organization of: Dublin Brain Bank is parent organization of: EPIGEN |
ISNI:0000 0004 0488 7120, grid.4912.e, nlx_143526, Wikidata:Q1124228 | https://ror.org/01hxy9878 | SCR_009786 | Royal College of Surgeons in Ireland | 2026-08-15 11:23:50 | 1 | ||||||||
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Swiss Commission for Technology and Innovation Resource Report Resource Website 1+ mentions |
Swiss Commission for Technology and Innovation (RRID:SCR_010084) | CTI | government granting agency | SCR_010084 | Commission for Technology and Innovation CTI, Commission for Technology and Innovation, Swiss Commission for Technology Innovation, Swiss Commission for Technology and Innovation CTI | 2026-08-15 11:24:01 | 1 | ||||||||||||
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Computational Biology and Functional Genomics Laboratory at Harvard Resource Report Resource Website 100+ mentions |
Computational Biology and Functional Genomics Laboratory at Harvard (RRID:SCR_010240) | software resource | A computational biology laboratory that builds and redistributes genetic software tools. |
has parent organization: Harvard University; Cambridge; United States is parent organization of: GeneSigDB |
nlx_156871 | SCR_010240 | Quackenbush Lab | 2026-08-15 11:24:02 | 221 | ||||||||||
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ABMapper Resource Report Resource Website 1+ mentions |
ABMapper (RRID:SCR_010242) | ABMapper | software resource | A portable, easy-to-use package for spliced alignment, junction site detection, and reads mapping. The core module was written in C++ and wrapped in PERL scripts. | is listed by: OMICtools | OMICS_01238 | SCR_010242 | ABMapper: A suffix-array based spliced alignment tool | 2026-08-15 11:23:51 | 1 | |||||||||
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University of California at San Francisco; California; USA Resource Report Resource Website 10+ mentions |
University of California at San Francisco; California; USA (RRID:SCR_010605) | UCSF | university | Public research university in San Francisco, California. Part of University of California system. Dedicated entirely to health sciences. Major center of medical and biological research and teaching. Ranked as one of top universities in biomedical field in USA and around world. | institution, university, health science, medical, biological, teaching, center, biomedical |
is affiliated with: Diabetes Research Centers is related to: NCIRE is related to: ONE Study is related to: Alzheimers Disease Genetics Consortium is related to: Beta Cell Biology Consortium is related to: Clinical and Translational Science Awards Consortium is related to: Diabetic Foot Consortium has parent organization: University of California; California; USA is parent organization of: DOCK is parent organization of: MochiView is parent organization of: Kravitz Dataset 2 is parent organization of: uManager is parent organization of: UCSF Brain Tumor Tissue Bank is parent organization of: CryptoBase is parent organization of: Resource for Biocomputing Visualization and Informatics is parent organization of: Hyperpolarized MRI Technology Resource Center is parent organization of: Sherlock is parent organization of: Center for Imaging of Neurodegenerative Diseases is parent organization of: WikiPathways is parent organization of: International Gene Trap Consortium is parent organization of: Microstructural correlation toolbox is parent organization of: NUTMEG is parent organization of: AltAnalyze - Alternative Splicing Analysis Tool is parent organization of: Integrative Modeling Platform is parent organization of: UCSF Spot is parent organization of: Allelic Variations of The XP Genes is parent organization of: Edinburgh Postnatal Depression Scale is parent organization of: AIDS and Cancer Specimen Resource is parent organization of: UCSF DNA Bank is parent organization of: Babel is parent organization of: UCSF DataShare is parent organization of: Scientific Data Sharing Project is parent organization of: ModBase is parent organization of: UCSF Laboratory for Visual Neuroscience is parent organization of: UCSF AIDS Specimen Bank is parent organization of: Gene Map Annotator and Pathway Profiler is parent organization of: ExPANdS is parent organization of: UCSF Center for AIDS Prevention Studies (CAPS) is parent organization of: HOLLOW is parent organization of: MAPPFinder is parent organization of: iBioSeminars is parent organization of: Bioelectromagnetism Matlab Toolbox is parent organization of: UCSF Brain Tumor Tissue Bank is parent organization of: Krogan Lab Interactome Database is parent organization of: BayGenomics is parent organization of: CanPredict is parent organization of: MODELLER is parent organization of: DeRisi Lab is parent organization of: CTSpedia is parent organization of: Kravitz Dataset1 is parent organization of: UCSF Helen Diller Family Comprehensive Cancer Center is parent organization of: Clinical Research Resource HUB is parent organization of: National Bio-Organic Biomedical Mass Spectrometry Resource Center is parent organization of: Program to Reduce Incontinence by Diet and Exercise is parent organization of: Brain Health Registry is parent organization of: The Li Lab at UCSF is parent organization of: UCSF Nikon Imaging Center is parent organization of: UCSF School of Medicine; California; USA is parent organization of: Microarrays.org is parent organization of: University of California, San Francisco School of Pharmacy is parent organization of: PRICE is parent organization of: HMMSplicer is parent organization of: ArrayOligoSelector is parent organization of: stepNorm is parent organization of: National Center for X-ray Tomography is parent organization of: SURPI is parent organization of: Research Network in Early Experience and Brain Development is parent organization of: Resource for Genetic Epidemiology Research on Adult Health and Aging is parent organization of: PSCBS is parent organization of: Sparky is parent organization of: Cytokine Registry is parent organization of: Protein Prospector is parent organization of: University of California San Francisco Diabetes Research Center Mouse Genetics Core Facility is parent organization of: University of California San Francisco Diabetes Research Center Islet Production Core Facility is parent organization of: University of California San Francisco Parnassus Flow Cytometry Core Facility is parent organization of: University of California San Francisco Diabetes Research Center Lentiviral RNAi Core Facility is parent organization of: University of California San Francisco Diabetes Research Center Microscopy Core Facility is parent organization of: University of California San Francisco Diabetes Research Center is parent organization of: University of California San Francisco Diabetes Research Center Mouse Metabolism Core is parent organization of: University of California San Francisco Nutrition and Obesity Research Center Mouse Metabolism and Imaging Core is parent organization of: University of California San Francisco Nutrition and Obesity Research Center Human Metabolism Core is parent organization of: University of California San Francisco Nutrition and Obesity Research Center Genetics and Genomics Core is parent organization of: University of California San Francisco Nutrition and Obesity Research Center is parent organization of: Cystic Fibrosis Center - University of California San Francisco is parent organization of: UCSF ChimeraX is parent organization of: MotionCor2 is parent organization of: Clonotator is parent organization of: FoXS is parent organization of: covidcounties.org is parent organization of: DoubletFinder is parent organization of: syndRomics is parent organization of: PhotometryBox is parent organization of: University of California at San Francisco Immunology Lab Core Facility is parent organization of: Similarity Ensemble Approach is parent organization of: University of California at San Francisco Advanced Microscopy Core Facility is parent organization of: University of California San Francisco Clinical Cancer Genomics Laboratory Core Facility is parent organization of: UCSF Helen Diller Family Comprehensive Cancer Center Flow and Cell Sorting Core Facility |
nlx_57854, GRID grid.266102.1; ISNI 0000 0001 2297 6811; Crossref Funder ID 100008069; Wikidata Q1061104 | https://ror.org/043mz5j54 | SCR_010605 | UC San Francisco, The University of California, San Francisco, University of California San Francisco, University of California at San Francisco | 2026-08-15 11:24:05 | 13 | |||||||
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vipR Resource Report Resource Website 50+ mentions |
vipR (RRID:SCR_010685) | vipR | software resource | A software program to screen for sequence variants (SNPs, deletions) in sequence data generated by high-throughput-sequencing platforms. |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_00081 | SCR_010685 | 2026-08-15 11:24:09 | 60 | ||||||||||
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MaSuRCA Resource Report Resource Website 100+ mentions |
MaSuRCA (RRID:SCR_010691) | MaSuRCA | software resource | A whole genome assembly software that combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Maryland; Maryland; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00020, biotools:masurca | https://bio.tools/masurca | SCR_010691 | 2026-08-15 11:23:58 | 468 | |||||||
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Life Extension Foundation Resource Report Resource Website |
Life Extension Foundation (RRID:SCR_010574) | institution | Established in 1980, the Life Extension Foundation is a nonprofit organization, whose long-range goal is to radically extend the healthy human lifespan by discovering scientific methods to control aging and eradicate disease. The largest organization of its kind in the world, the Life Extension Foundation has always been at the forefront of discovering new scientific breakthroughs for use in developing novel disease prevention and treatment protocols to improve the quality and length of human life. Through its private funding of research programs aimed at identifying and developing new therapies to slow and even reverse the aging process, the Life Extension Foundation seeks to reduce, and ultimately eliminate, such age-related killers as heart disease, stroke, cancer and Alzheimer''s disease. Long-time members are keenly aware of the scientific research that Life Extension Foundation funds to develop validated methods to slow and reverse the aging process. Less known is Life Extension''s multi-prong program to develop safer and more effective cancer therapies. One reason we focus so heavily on cancer research is that this dreaded disease represents a roadblock in our ability to develop effective means to combat aging. | is parent organization of: Life Extension | Aging | ISNI: 0000 0001 0300 2958, nlx_41735, grid.490868.b | https://ror.org/02vzd2x77 | SCR_010574 | 2026-08-15 11:24:05 | 0 | |||||||||
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Gossamer Resource Report Resource Website 1+ mentions |
Gossamer (RRID:SCR_010612) | Gossamer | software resource | A software application for the de novo assembly of genomes from fragments of DNA that specifically attacks the question of scalability. | is listed by: OMICtools | OMICS_00017 | SCR_010612 | Gossamer: A Space-Efficient Genome Assembler | 2026-08-15 11:24:09 | 1 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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