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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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SpliceDB Resource Report Resource Website 1+ mentions |
SpliceDB (RRID:SCR_006262) | SpliceDB | data or information resource, data set | Database of canonical and non-canonical mammalian splice sites. The information about verified splice site sequences for canonical and non-canonical sites is presented with the supporting evidence. Weight matrices were built for the major splice groups, which can be incorporated into gene prediction programs. | gene, expressed sequence tag, splice, canonical, non-canonical, splice site, sequence, data set, splice site sequence |
is listed by: OMICtools is listed by: 3DVC is related to: GenBank has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom |
PMID:11125105 PMID:11058137 |
nlx_151853, OMICS_01892 | http://linux1.softberry.com/berry.phtml?topic=splicedb | http://genomic.sanger.ac.uk/spldb/SpliceDB.htm | SCR_006262 | SpliceDB: canonical and non-canonical splice site sequences in mammalian genes | 2026-02-17 10:01:02 | 2 | |||||
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La Jolla Institute for Allergy and Immunology Functional Genomics Core Facility Resource Report Resource Website |
La Jolla Institute for Allergy and Immunology Functional Genomics Core Facility (RRID:SCR_014836) | service resource, access service resource, core facility | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 5, 2024. Core facility that combines large-scale automation and high-throughput capabilities with gene disruption techniques to pinpoint the function of individual genes and find new ways to disrupt genetic triggers of disease. The research capabilities are aimed towards finding new treatments for immune-related diseases. | human genomics, genomics, gene, disruption techniques, disease, research, immune system, autoimmune | THIS RESOURCE IS NO LONGER IN SERVICE. | SCR_014836 | 2026-02-17 10:02:56 | 0 | |||||||||||
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Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility (IGC) Resource Report Resource Website 500+ mentions |
Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility (IGC) (RRID:SCR_014842) | SALK IGC, IGC | service resource, access service resource, core facility | Core facility established to assist the Salk community with integrating genomics data into their research. The primary focus of the core is to provide analysis support for next-generation sequencing applications. | core facility, gene, genomic, genomic data, analysis, consultation, applications | NCI CA014195; Helmsley Trust ; Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility |
Open | SCR_014842 | , Integrative Genomics, Salk, Core Facility, Institute, Razavi Newman, UCSD, Bioinformatics | 2026-02-17 10:02:43 | 940 | ||||||||
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Nebraska University Medical Center Mouse Genome Engineering Core Facility Resource Report Resource Website 1+ mentions |
Nebraska University Medical Center Mouse Genome Engineering Core Facility (RRID:SCR_017755) | service resource, access service resource, core facility | Core Facility provides expertise and advice for experimental design of transgenic or gene knockout experiments, including DNA construct production and genotyping assays, makes reagents available for generation of transgene or gene targeting constructs, and performs all experimental aspects, which include pronuclear injection of transgene constructs, generation of recombinant mouse ES cells, blastocyst injection, and embryo transfer surgeries, for generation or rederivation of genetically manipulated mouse strains. Transgenic founder mice or chimeric animals with targeted alleles are then transferred to individual investigator for analysis. | Transgenic, gene, knockout, mice, experiment, DNA, construction, production, genotyping, assay, construct, injection, recombinant, ES cell, blastocyst, embryo, surgery, chimeric, animal, analysis, service, core | Open | ABRF_277 | SCR_017755 | UNMC Mouse Genome Engineering Core Facility | 2026-02-17 10:03:38 | 1 | |||||||||
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Albert Einstein College of Medicine shRNA Core Facility Resource Report Resource Website 1+ mentions |
Albert Einstein College of Medicine shRNA Core Facility (RRID:SCR_017846) | service resource, access service resource, core facility | Core Facility was closed in November 2016. Services of shRNA Core were redistibuted to other existing facilities at Einstein.Gene Modulation Services: CRISPR, RNAi and ORF. CRISPR-Cas9 services for cell lines will now be performed in Gene Modification Facility. Gene Modification Facility already offers CRISPR services for genetic modification of mice and will utilize this scientific expertise to provide CRISPR services for the gene modification of cell lines as well. You can access these services through core's site in iLab.The human and mouse whole genome shRNA library has been relocated to the Molecular Cytogenetic Core. The core staff will pull requested shRNA and ORF clones from our collection for investigators. You can access this service through the core's site in iLab.Access and operation of the Operetta instrument for high-content imaging will now be coordinated through the Macromolecular Therapeutics Development Facility (MTDF). You can access this service through the core's site in iLab. Lentivirus prep from shRNA and CRSPR constructs can be obtained from our Gene Therapy Core from clones obtained from the Molecular Cytogenetic Core. You can access this service through the core's site in iLab. | shRNA, gene, modulation, CRISPR, RNAi, ORF, service, core, ABRF | is listed by: ABRF CoreMarketplace | ABRF_654 | SCR_017846 | shRNA Core Facility | 2026-02-17 10:03:20 | 1 | |||||||||
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Massachusetts Institute of Technology Koch Institute Preclinical Modeling Core Facility Resource Report Resource Website |
Massachusetts Institute of Technology Koch Institute Preclinical Modeling Core Facility (RRID:SCR_017899) | service resource, access service resource, core facility | Core provides service support to all MIT investigators who utilize specialized in vitro cells such as stem cells, organoids, or primary cell lines and/or novel mouse models to study human diseases such as cancer. Projects involve generation of new model system, such as CRISPR-mediated gene editing in mouse to introduce mutation that mimics one found in patients. Helps with projects required optimization of finicky cell cultures and other challenges.Provides customizable set of service options to match specific needs of each project, including consultative advice and troubleshooting, complete tissue culture and microinjection services within our facilities or hands-on training to enable investigators to perfom these experiments either at their own laboratory or within our facilities.Services Include:Gene Targeting genomic modification through traditional or CRISPR/Cas9 locus targeting, assistance with targeting strategies and vector designs;Embryonic Stem Cells generation of new ES lines from mouse strains, importation and testing of lines from outside sources, differentiation of ES lines into specific cell lineages or cell types and more;Microinjection injection of mouse ES cells into blastocysts to generate chimeras and injection of DNA, RNA or CRISPR RNPs into the pronucleus of fertilized mouse eggs to generate transgenic and edited mice;Specialized Tissue Culture establishemnt of new primary cell cultures from a tumor, tissue or organ; Isolation of fibroblasts (MEFs) from mice for culture and analysis;Tissue Culture for Xenograft and Syngenic Modeling optimization, validation and testing of cell lines for orthotopic placement into mice, coordinated with Preclinical Testing Facility;Repository of Reagent Mice Commonly used wild type mice such as C57BL/6j as well as KrasG12D-based models of cancers are maintained on campus for efficient distrubution;Training and Troubleshooting for all aspects of embryonic stem cells, primary cultures, animal breeding etc.;Serum, DMEM, LIF and other media components that have been tested and verified for use with ES cells. | Preclinical, modeling, system, in vitro, cell, stem, organoid, primary, mouse, human, disease, CRISP, gene, editing, mutation, patient, microinjection, training, service, core, ABRF | is listed by: ABRF CoreMarketplace | Restricted | ABRF_766 | SCR_017899 | Preclinical Modeling Facility | 2026-02-17 10:03:41 | 0 | ||||||||
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Loyola University Genomics Core Facility Resource Report Resource Website |
Loyola University Genomics Core Facility (RRID:SCR_017857) | LGF | service resource, access service resource, core facility | Core provides next-generation sequencing capabilities using Illumina MiSeq. Helps with experimental design, quality control analysis, library preparation, and data analysis. MiSeq desktop sequencer allows to access applications such as targeted gene sequencing, metagenomics, small genome sequencing, targeted gene expression, amplicon sequencing, and HLA typing.MiSeq is capable of delivering up to 15 Gb of output with 25 million sequencing reads and 2x300 basepair read lengths. | Next, generation, sequencing, Illumina MiSeq, experimental, design, quality, control, analysis, library, preparation, data, targeted, gene, metagenomics, genome, expression, amplicon, HLA, typing, service, core, ABRF | is listed by: ABRF CoreMarketplace | Restricted | ABRF_678 | SCR_017857 | Loyola Genomics Facility | 2026-02-17 10:03:40 | 0 | |||||||
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University of Washington Transgenic Resources Program Core Facility Resource Report Resource Website 1+ mentions |
University of Washington Transgenic Resources Program Core Facility (RRID:SCR_017863) | TRP | service resource, access service resource, core facility | Core facility that creates transgenic and gene-targeted mice using pronuclear microinjection, targeted ES cell microinjection, and CRISPR/Cas9 gene editing. Offers mouse rederivation services to create specific pathogen free mice or to rederive cryopreserved mouse lines. Additionally, embryo and sperm cryopreservation services are available to provide long-term storage of valuable mouse strains or stocks. Services include:Pronuclear Microinjection,ES Cell Microinjection,ES Cell Electroporation CRISPR/Cas9,In Vitro Fertilization,Sperm Cryopreservation,Embryo Cryo,Embryo Rederivation. | Transgenic, gene, targeted, mice, pronuclear, microinjection, ES cell, CRSPR, Cas9, editing, pathogen, free, cryopreserved, line, embryo, sperm, electroporation, fertilization, service, core, ABRF |
is listed by: ABRF CoreMarketplace has parent organization: University of Washington; Seattle; USA |
Open | ABRF_675 | https://coremarketplace.org/?FacilityID=675&citation=1 | SCR_017863 | , University of Washington Transgenic Resources Program, Transgenic Resources Program | 2026-02-17 10:03:41 | 6 | ||||||
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University of South Carolina Functional Genomics Core Facility Resource Report Resource Website |
University of South Carolina Functional Genomics Core Facility (RRID:SCR_026178) | FGC | service resource, access service resource, core facility | Core offers resources and solutions for conducting genomics, transcriptomics, epigenomics and functional genomics projects. We work with researchers to determine project goals and design custom solutions. We assist at all stages of the project, from support in grant development to generation of publication-quality data. Services include Consultations, Bioinformatics, Nucleic Acids purification, quantification and QC DNA Sequencing (SANGER and NGS), Library Constructions for NGS applications,Microarray Hybridization, Real Time PCR, Custom epigenomics applications, Lentiviral vectors and lentiviruses construction and production, CRIPR-CAS9sgRNAs and RNAi/shRNAs knockdown of individual genes and functional screening of sgRNA and shRNA libraries for target identification. | gene, bioinformatics, DNA, PCR, genomics, transcriptomics, epigenomics, functional genomics, services |
is listed by: ABRF CoreMarketplace is related to: University of South Carolina Instrumentation Resource Core Facility has parent organization: University of South Carolina; South Carolina; USA |
ABRF_2990 | https://coremarketplace.org/?FacilityID=2990&citation=1 https://sc.ilab.agilent.com/service_center/show_external/6263/functional_genomics_core |
SCR_026178 | University of South Carolina Functional Genomics Core | 2026-02-17 10:05:03 | 0 | |||||||
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National Cell Repository for Alzheimer's Disease Resource Report Resource Website 10+ mentions |
National Cell Repository for Alzheimer's Disease (RRID:SCR_007313) | NCRAD | biomaterial supply resource, tissue bank, material resource | Cell repository for Alzheimer's disease that collects and maintains biological specimens and associated data. Its data is derived from large numbers of genetically informative, phenotypically well-characterized families with multiple individuals affected with Alzheimer's disease, as well as individuals for case-control studies. | gene, alzheimers disease, dementia, dna, late onset, memory loss, phenotypic data, research study, clinical data, plasma, serum, rna, brain tissue, family history, blood |
is listed by: One Mind Biospecimen Bank Listing is related to: DIAN - Dominantly Inherited Alzheimer Network is related to: Alzheimers Disease Genetics Consortium is related to: National Alzheimer's Coordinating Center has parent organization: Indiana University; Indiana; USA |
Alzheimer's disease, Late-onset Alzheimer's disease, Dementia, Memory loss | NIA ; NIH Blueprint for Neuroscience Research |
Public, Application required for genetic research | nif-0000-00178 | SCR_007313 | 2026-02-17 10:01:02 | 35 | ||||||
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GOrilla: Gene Ontology Enrichment Analysis and Visualization Tool Resource Report Resource Website 100+ mentions |
GOrilla: Gene Ontology Enrichment Analysis and Visualization Tool (RRID:SCR_006848) | GOrilla | data analysis service, production service resource, analysis service resource, service resource | A tool for identifying and visualizing enriched GO terms in ranked lists of genes. It can be run in one of two modes: * Searching for enriched GO terms that appear densely at the top of a ranked list of genes or * Searching for enriched GO terms in a target list of genes compared to a background list of genes. | gene, genetic, ontology, ontology or annotation visualization, statistical analysis, term enrichment, visualization, analysis, protein |
is listed by: Gene Ontology Tools is listed by: OMICtools is related to: Gene Ontology |
European Union FP6 ; Yeshaya Horowitz Association |
PMID:19192299 | Acknowledgement requested, Free, Public | nlx_80425, OMICS_02282 | SCR_006848 | Gene Ontology enRIchment anaLysis and visuaLizAtion tool, GOrilla: Gene Ontology Enrichment Analysis Visualization Tool | 2026-02-17 10:00:59 | 492 | |||||
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PolygenicBlog Resource Report Resource Website |
PolygenicBlog (RRID:SCR_008789) | data or information resource, narrative resource, blog | A blog concerning the relationships between genes, risk factors and immunity in Alzheimer's disease, autism, Bipolar disorder, multiple sclerosis, Parkinson's disease, schizophrenia and chronic fatigue. | gene, risk factor, immunity, alzheimer's disease, autism, bipolar disorder, multiple sclerosis, parkinson's disease, schizophrenia, chronic fatigue |
is used by: NIF Data Federation is used by: Integrated Blogs has parent organization: Polygenic Pathways |
Alzheimer's disease, Autism, Bipolar disorder, Multiple sclerosis, Parkinson's disease, Schizophrenia, Chronic fatigue | Public | nlx_144238 | SCR_008789 | Polygenic Blog | 2026-02-17 10:01:10 | 0 | |||||||
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GOstat Resource Report Resource Website 100+ mentions |
GOstat (RRID:SCR_008535) | GOstat | data analysis service, production service resource, analysis service resource, service resource | GOstat is a tool that allows you to find statistically overrepresented Gene Ontologies within a group of genes. The Gene-Ontology database (GO: http://www.geneontology.org) provides a useful tool to annotate and analyze the function of large numbers of genes. Modern experimental techniques, as e.g. DNA microarrays, often result in long lists of genes. To learn about the biology in this kind of data it is desirable to find functional annotation or Gene-Ontology groups which are highly represented in the data. This program (GOstat) should help in the analysis of such lists and will provide statistics about the GO terms contained in the data and sort the GO annotations giving the most representative GO terms first. Run GOstat: * Go to search form - Computes GO statistics of a list of genes selected from a microarray. * GOstat Display - You can store results from a previously run and view them here, either by uploading them as a file or putting them on a selected URL. * Upload Custom GO Annotations - This allows you to upload your own GO annotation database and use it with GOstat. Variants of GOstat: * Rank GOstat - Takes input from all genes on microarray instead of using a fixed cutoff and uses ranks using a Wilcoxon test or either ranks or pvalues to score GOs using Kolmogorov-Smirnov statistics. * Gene Abundance GOstats - Takes input from all genes on microarray and sums up the gene abundances for each GO to compute statistics. * Two list GOstat - Compares GO statistics in two independent lists of genes, not necessarily one of them being the complete list the other list is sampled from. Platform: Online tool, THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, gene ontology, annotation, statistical analysis, FASEB list |
is listed by: Gene Ontology Tools is related to: Gene Ontology has parent organization: Walter and Eliza Hall Institute of Medical Research; Victoria; Australia |
DFG | PMID:14962934 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-30625 | SCR_008535 | 2026-02-17 10:01:22 | 159 | ||||||
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POOLSCORE Resource Report Resource Website |
POOLSCORE (RRID:SCR_007514) | software application, software resource | Software program for analysis of case-control genetic association studies using allele frequency measurements on DNA pools (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | SCR_009373, nlx_154595, nlx_154087 | SCR_007514 | R/POOLSCORE | 2026-02-17 10:01:16 | 0 | |||||||||
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UCSC Cancer Genomics Browser Resource Report Resource Website 500+ mentions |
UCSC Cancer Genomics Browser (RRID:SCR_011796) | Cancer Genomics Browser | data or information resource, database, service resource | A suite of web-based tools to visualize, integrate and analyze cancer genomics and its associated clinical data. It is possible to display your own clinical data within one of their datasets. | genome, genomics, clinical, next-generation sequencing, chromosome, gene, FASEB list |
is listed by: OMICtools has parent organization: University of California at Santa Cruz; California; USA |
Cancer | NCI ; NHGRI ; American Association for Cancer Research ; UCSF Comprehensive Cancer Center ; California Institute for Quantitative Biosciences |
PMID:23109555 PMID:21059681 PMID:19333237 |
Acknowledgement requested | OMICS_00925 | SCR_011796 | 2026-02-17 10:02:04 | 530 | |||||
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gsGator Resource Report Resource Website |
gsGator (RRID:SCR_012035) | gsGator | data analysis service, production service resource, analysis service resource, service resource | A web-based platform for functional interpretation of gene sets with features such as cross-species Gene Set Analysis (GSA), Flexible and Interactive GSA, simultaneous GSA for multiple gene set, and and a fully integrated network viewer for both visualizing GSA results and molecular networks. | linux, windows, gene, orthology, pathway, phenotype, mirna target, molecular network, genomic annotation, function |
is listed by: OMICtools is related to: Gene Ontology has parent organization: Ewha Womans University; Seoul; South Korea |
PMID:24423189 | Free, Public | OMICS_02233 | SCR_012035 | 2026-02-17 10:01:40 | 0 | |||||||
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Kidney Interactive Transcriptomics Resource Report Resource Website 50+ mentions |
Kidney Interactive Transcriptomics (RRID:SCR_017209) | KIT | data or information resource, production service resource, analysis service resource, service resource | Software tool as analyzer for kidney single cell datasets. Allows users to query gene expression from mouse or human kidney and human kidney organoid single cell datasets. For details about datasets visit ReBuilding a Kidney website. | Analyzer, kidney, single, cell, dataset, gene, expression, mouse, human, organoid | Free, Freely available | https://www.rebuildingakidney.org/ | SCR_017209 | 2026-02-17 10:03:32 | 75 | |||||||||
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PLAN2L Resource Report Resource Website |
PLAN2L (RRID:SCR_013346) | PLAN2L | data or information resource, database, service resource | A web-based online search system that integrates text mining and information extraction techniques to access systematically information useful for analyzing genetic, cellular and molecular aspects of the plant model organism Arabidopsis thaliana. The system facilitates a more efficient retrieval of information relevant to heterogeneous biological topics, from implications in biological relationships at the level of protein interactions and gene regulation, to sub-cellular locations of gene products and associations to cellular and developmental processes, i.e. cell cycle, flowering, root, leaf and seed development. Beyond single entities, also predefined pairs of entities can be provided as queries for which literature-derived relations together with textual evidences are returned. | text mining, bio-entity relation extraction, literature, information extraction, cell cycle, regulation, protein interaction, cellular location, flowering, leave, root, seed, gene, normalization, interaction, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Spanish National Cancer Research Center |
PMID:19520768 | OMICS_01192, biotools:plan2l | https://bio.tools/plan2l | SCR_013346 | PLAN2L: Plant Annotation to Literature, Plant annotation to literature | 2026-02-17 10:01:59 | 0 | ||||||
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PlantGSEA Resource Report Resource Website 10+ mentions |
PlantGSEA (RRID:SCR_016866) | PlantGSEA | data analysis service, production service resource, analysis service resource, service resource | Websever for gene set enrichment analysis of plants. Used for interpreting biological meaning of a list of genes by computing the overlaps with various previously defined gene sets. | gene, set, enrichement, analysis, plant | Ministry of Science and Technology of China ; Ministry of Education of China |
DOI:10.1093/nar/gkt281 | SCR_016866 | The Plant GeneSet Enrichment Analysis Toolkit, Plant GeneSet Enrichment Analysis, Gene Set Enrichment Analysis (GSEA) | 2026-02-17 10:02:46 | 17 | ||||||||
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miRanda Resource Report Resource Website 100+ mentions |
miRanda (RRID:SCR_017496) | data or information resource, database, service resource | Comprehensive resource of microRNA target predictions and expression profiles. Used for whole genome prediction of miRNA target genes. For each miRNA, target genes are selected on basis of sequence complementarity using position weighted local alignment algorithm, free energies of RNA-RNA duplexes, and conservation of target sites in related genomes. Provides information about set of genes potentially regulated by particular microRNA, co-occurrence of predicted target sites for multiple microRNAs in mRNA and microRNA expression profiles in tissues. Users are allowed to customize algorithm, numerical parameters, and position-specific rules., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Whole, genome, prediction, miRNA, target, gene, expression, profile, data, FASEB list | is listed by: SoftCite | NIGMS ; Atlantic Philanthropies ; Alfred W. Bressler Scholars Endowment Fund |
PMID:18158296 | THIS RESOURCE IS NO LONGER IN SERVICE | http://www.microrna.org/microrna/home.do | SCR_017496 | MicroRNA.org. microrna.org | 2026-02-17 10:03:35 | 210 |
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