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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Genetic Maps of the Rat Genome Resource Report Resource Website |
Genetic Maps of the Rat Genome (RRID:SCR_002266) | Genetic Maps of the Rat | image collection, data or information resource, data set | Data set of pictures representing genetic linkage maps of the rat resulting from the integration of two F2 intercrosses (SHRSP x BN and FHH x ACI). Markers in common between the two crosses are connected by a line to define integration points. There are a total of 4,786 markers on these maps; 4375 WIBR/MIT CGR markers; 223 markers from the previously released Mit/Mgh rat maps and 188 markers from the National Institute of Arthritis and Musculoskeletal and Skin Diseases Arb rat maps. Pictures are drawn to a scale of 5cm (Kosombi) per inch. The changes in color of the backbone of the chromosome for each cross represents the space between any two framework loci. Markers in blue type are framework loci. Markers in green type are unique placement loci. Markers in black type are bouncy placement loci. | f2, genetic, backbone, chromosome, cross, intercross, linkage, locus, map, marker, rat, genome | has parent organization: Broad Institute | nif-0000-20990 | SCR_002266 | 2026-07-27 09:31:29 | 0 | |||||||||
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R/HAPASSOC Resource Report Resource Website |
R/HAPASSOC (RRID:SCR_009365) | software application, software resource | Software application using a likelihood approach to inference of haplotype and nongenetic effects and their interactions in generalized linear models of disease penetrance, when haplotype phase is unknown for some subjects. Parameter estimates are obtained by use of an expectation-maximization (EM) algorithm and standard errors are calculated using Louis'' formula. (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | nlx_154587, SCR_009219, nlx_154374 | http://stat-db.stat.sfu.ca:8080/statgen/research/hapassoc | SCR_009365 | HAPASSOC | 2026-07-27 09:33:18 | 0 | ||||||||
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SIMM Resource Report Resource Website 1+ mentions |
SIMM (RRID:SCR_000849) | software application, simulation software, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 6th,2023. Gene dropping simulation software. The program is a gzip'ed tar archive and is designed to run under UNIX/Linux operating system. | gene, genetic, genomic, software | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154626 | http://mlemire.freeshell.org/software.html | SCR_000849 | SimM | 2026-07-27 09:31:03 | 2 | |||||||
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BARS Resource Report Resource Website 10+ mentions |
BARS (RRID:SCR_009123) | BARS | software application, software resource | Software application that is a statistical method that bridges the gap between single-locus and haplotype-based tests of association. It is based on the non-parametric regression techniques embodied by Bayesian Adaptive Regression Splines. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, r, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154204, biotools:bars, nlx_154228, SCR_009106 | https://bio.tools/bars | SCR_009123 | Bayesian Adaptive Regression Splines | 2026-07-27 09:33:15 | 39 | ||||||
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ARP.GEE Resource Report Resource Website 1+ mentions |
ARP.GEE (RRID:SCR_013134) | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 24,2023. Software application that simultaneously estimates a trait-locus position and its genetic effects for affected relative pairs (ARP) by one of two methods. Either allow a different trait-locus effect for each ARP type, or constrain the trait-locus effects according to the marginal effect of a single susceptibility locus. We include a goodness of fit statistic for the constrained model. (entry from Genetic Analysis Software) | gene, genetic, genomic, r/s-plus | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154206, nlx_154232, SCR_009108 | SCR_013134 | R/ARP.GEE | 2026-07-27 09:34:20 | 7 | ||||||||
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NKI-RS Enhanced Sample Resource Report Resource Website 50+ mentions |
NKI-RS Enhanced Sample (RRID:SCR_010461) | Enhanced NKI-RS | data or information resource, data set | Dataset of 1000 characterized community-ascertained participants using state-of-the-art multiband imaging-based resting state fMRI (R-fMRI) and diffusion tensor imaging (DTI), genetics, and a deep phenotyping protocol from a large cross-sectional sample of brain development, maturation and aging (ages 6 - 85 yrs). The Center for Magnetic Resonance Research (CMRR), University of Minnesota, provided the NKI-RS effort with the latest version of the Multiband EPI sequence (Xu et al. 2012) and associated image reconstruction algorithms, enabling the acquisition of state-of-the-art imaging datasets for this large-scale imaging effort. The enhanced NKI-RS expands upon the phenotypic protocol of the original NKI-RS and captures a broad range of behavioral and cognitive phenomenology relevant to psychiatric health and illness. The validity and value of assessments were evaluated by consulting leaders in the field of psychiatric phenotyping. | demographic, multiband imaging, resting state fmri, diffusion tensor imaging, breath hold scan, eye movement calibration scan, visual stimulation scan, brain development, maturation, young human, late adult human, child, adolescent, adult human, image collection, pediatric, geriatric, behavior, cognitive, phentoyping, neuroimaging, dicom, nifti, multiband echo planar imaging, multiband resting state fmri, multiband diffusion tensor imaging, lifespan, physiological assessment, psychological assessment, genetic |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: NKI/Rockland Sample is related to: NKI-RS Multiband Imaging Test-Retest Pilot Dataset is related to: Mind Research Network - COINS is related to: NIMH Repository and Genomics Resources has parent organization: Nathan S. Kline Institute for Psychiatric Research; New York; USA |
Aging | New York State Office of Mental Health and Research Foundation for Mental Hygiene ; Child Mind Institute 1FDN2012-1; NIMH R01MH094639-01; NIMH R01MH081218; NIMH R01MH083246; NIMH R21MH084126 |
Public, Data Usage Agreement | nlx_157649 | SCR_010461 | Enhanced Nathan Kline Institute - Rockland Sample | 2026-07-27 09:33:44 | 97 | |||||
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MUGA Resource Report Resource Website 100+ mentions |
MUGA (RRID:SCR_014072) | data or information resource, data set | MUGA genotypes for 458 samples from the developing CC lines described in the February 2012 issue of Genetics. Genotypes for 168 reference strains that include biological and technical replicates for the the 8 CC founder strains and their F1 crosses are also provided. Genotype calls are those reported by Illumina. All results are provided as comma separated files with one row per marker. Each marker is identified by a probe name and its genomic position in NCBI Build 37. | genetic, genotype, reference strain, cc line |
is affiliated with: Mutant Mouse Resource and Research Center has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
PMID:22345608 | SCR_014072 | 2026-07-27 09:34:32 | 262 | ||||||||||
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Alzheimers Association Research Roundtable Resource Report Resource Website |
Alzheimers Association Research Roundtable (RRID:SCR_004007) | Research Roundtable | training resource, data or information resource, organization portal, meeting resource, consortium, portal | A consortium aiming to facilitate the development and implementation of new treatments for Alzheimer's disease by collectively addressing obstacles to research and development, clinical care and public health education. The Roundtable convenes twice each year for a two-day presentation and discussion of specific topics within Alzheimer's research. Topics are selected from a list proposed and voted on by members. Roundtable members explore a broad range of Alzheimer's science topics, including: * New data and technologies that may improve the diagnosis of Alzheimer's disease, especially in its earliest and mildest stages. * Neuropsychological testing, genetic factors, and biochemical and neuroimaging biomarkers that could contribute to an earlier and more accurate Alzheimer's diagnosis. * Lessons learned about clinical trial design that may help shape future clinical trials of drugs aimed at slowing or stopping the progression of Alzheimer's. * The pros and cons of various scales as outcomes measures of clinical trials. The outputs of Roundtable meetings are published as articles in the Alzheimer's Association's journal, Alzheimer's & Dementia. The Research Roundtable also sponsors Alzheimer's Association grants. The chosen project is named Research Roundtable Sponsored Grant and the principal investigator of the project is invited to give a progress report at a Roundtable meeting. | drug, drug development, tool development, product development, discussion, funding resource, diagnosis, neuropsychological testing, genetic, biochemical, neuroimaging, clinical trial, outcome |
is listed by: Consortia-pedia is related to: AbbVie has parent organization: Alzheimers Association |
nlx_158423 | SCR_004007 | Alzheimer's Association Research Roundtable | 2026-07-28 09:40:53 | 0 | ||||||||
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VIROME Resource Report Resource Website 10+ mentions |
VIROME (RRID:SCR_004362) | VIROME | service resource, data or information resource, data analysis service, database, production service resource, analysis service resource | A web-application designed for scientific exploration of metagenome sequence data collected from viral assemblages occurring within a number of different environmental contexts. The VIROME informatics pipeline focuses on the classification of predicted open-reading frames (ORFs) from viral metagenomes. The portal allows you to submit your viral metagenome to be processed through the VIROME analysis pipeline, and enable you to investigate your data via the VIROME user interface., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | open-reading frame, metagenome, virus, environment, sequence, library, genetic, polymorphism, orfan, environmental sequencing, shotgun metagenomics, viral ecology, function, taxonomy, peptide, blast |
is listed by: OMICtools is related to: UniRef is related to: CAMERA is related to: Community Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis has parent organization: University of Delaware; Delaware; USA has parent organization: University of Maryland School of Medicine; Maryland; USA |
Gordon and Betty Moore Foundation ; NSF award 0959894 |
PMID:23407591 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01506 | SCR_004362 | Viral Informatics Resource for Metagenome Exploration, Viral Informatics Resource for Metagenome Exploration - VIROME | 2026-07-28 09:41:00 | 22 | |||||
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Repository of molecular brain neoplasia data Resource Report Resource Website 1+ mentions |
Repository of molecular brain neoplasia data (RRID:SCR_004704) | REMBRANDT | service resource, data or information resource, data analysis service, database, production service resource, analysis service resource, topical portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 28,2023. REMBRANDT is a data repository containing diverse types of molecular research and clinical trials data related to brain cancers, including gliomas, along with a wide variety of web-based analysis tools that readily facilitate the understanding of critical correlations among the different data types. REMBRANDT aims to be the access portal for a national molecular, genetic, and clinical database of several thousand primary brain tumors that is fully open and accessible to all investigators (including intramural and extramural researchers), as well as the public at-large. The main focus is to molecularly characterize a large number of adult and pediatric primary brain tumors and to correlate those data with extensive retrospective and prospective clinical data. Specific data types hosted here are gene expression profiles, real time PCR assays, CGH and SNP array information, sequencing data, tissue array results and images, proteomic profiles, and patients'''' response to various treatments. Clinical trials'''' information and protocols are also accessible. The data can be downloaded as raw files containing all the information gathered through the primary experiments or can be mined using the informatics support provided. This comprehensive brain tumor data portal will allow for easy ad hoc querying across multiple domains, thus allowing physician-scientists to make the right decisions during patient treatments., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, cancer, glioma, tumor, clinical genomics, functional genomics, clinical trial, genomics, gene expression, chromosomal aberration, clinical data, clinical, cellular pathway, gene ontology, molecule, brain, neoplasia, brain tumor, adult, pediatric, child, adolescent, gene expression profile, real time pcr assay, cgh array, snp array, sequence, tissue array, image, proteomic profile, treatment, protocol, molecular data, oncology, data mining, copy number array, gene expression array, secretion, kinase, membrane, gene-anomaly, translational research, personalized medicine, data integration, pathway, cell, phenotype |
is related to: Gene Ontology is related to: Glioma Molecular Dignostic Initiatives has parent organization: National Cancer Institute |
Glioma, Brain cancer, Brain tumor | NCI ; NINDS |
PMID:19208739 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00230 | SCR_004704 | REMBRANDT (Repository of Molecular Brain Neoplasia Data), REMBRANDT - Repository of Molecular Brain Neoplasia Data, REpository for Molecular BRAin Neoplasia DaTa (REMBRANDT) | 2026-07-28 09:41:05 | 2 | ||||
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TAIR Resource Report Resource Website 5000+ mentions |
TAIR (RRID:SCR_004618) | TAIR, AGI LocusCode | data or information resource, database | Database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. Data available includes the complete genome sequence along with gene structure, gene product information, metabolism, gene expression, DNA and seed stocks, genome maps, genetic and physical markers, publications, and information about the Arabidopsis research community. Gene product function data is updated every two weeks from the latest published research literature and community data submissions. Gene structures are updated 1-2 times per year using computational and manual methods as well as community submissions of new and updated genes. TAIR also provides extensive linkouts from data pages to other Arabidopsis resources. The data can be searched, viewed and analyzed. Datasets can also be downloaded. Pages on news, job postings, conference announcements, Arabidopsis lab protocols, and useful links are provided. | genetic, molecular biology, gene, genome, structure, product, metabolism, gene expression, dna, seed stock, genome map, genetic marker, physical marker, genome sequence, gene product, blast, experimental protocol, gold standard |
is used by: NIF Data Federation is listed by: OMICtools is listed by: re3data.org is listed by: DataCite is related to: AmiGO is related to: Saskatoon Arabidopsis T-DNA mutant population SK Collection is related to: CLENCH has parent organization: Carnegie Institution for Science is parent organization of: TAIR Keyword Browser is parent organization of: PubSearch |
NSF DBI-0850219; corporate and nonprofit organizations |
PMID:22140109 PMID:17986450 PMID:12444417 PMID:12519987 PMID:18287693 |
r3d100010185, nlx_61477, OMICS_01662 | https://doi.org/10.17616/R3QW21 | SCR_004618 | AGI LocusCode, The Arabidopsis Information Resource | 2026-07-28 09:41:02 | 7421 | |||||
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SMART Resource Report Resource Website 5000+ mentions |
SMART (RRID:SCR_005026) | SMART | service resource, data or information resource, data analysis service, database, data access protocol, software resource, production service resource, web service, analysis service resource | Software tool for identification and annotation of genetically mobile domains and analysis of domain architectures. | extracellular, gene, genetic, genetically, genome, architecture, chromatin, domain, mobile, phyletic, protein, proteome, signaling, structure, taxonomic, tertiary, bio.tools, FASEB list |
is used by: Mutation Annotation and Genomic Interpretation is listed by: bio.tools is listed by: Debian is related to: Eukaryotic Linear Motif is related to: Conserved Domain Database is related to: GOTaxExplorer has parent organization: EMBL - Bork Group |
European Union | PMID:18978020 PMID:16381859 PMID:14681379 PMID:10592234 PMID:9847187 PMID:9600884 |
Free, Freely available | nif-0000-03471, biotools:smart | http://smart.embl-heidelberg.de/, https://bio.tools/smart | SCR_005026 | Simple Modular Architecture Research Tool | 2026-07-28 09:41:12 | 6760 | ||||
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Discovar assembler Resource Report Resource Website 10+ mentions |
Discovar assembler (RRID:SCR_016755) | Discovar | software application, data analysis software, sequence analysis software, software resource, data processing software | Software tool for variant calling with reference and de novo assembly of genomes. The heart of DISCOVAR is a de novo genome assembler which can generate de novo assemblies for both large and small genomes. | variant, calling, reference, de novo, assembly, genome, genetic, human, sequence, analysis |
is listed by: OMICtools has parent organization: Broad Institute |
NHGRI R01 HG003474; NHGRI U54 HG003067; NIAID HHSN272200900018C |
PMID:25326702 | Free, Available for download, Freely available | SCR_016755 | Discovar de novo, Discovar | 2026-07-28 09:44:26 | 20 | ||||||
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Sleep Disorder Knowledge Portal Resource Report Resource Website 10+ mentions |
Sleep Disorder Knowledge Portal (RRID:SCR_016611) | disease-related portal, data or information resource, database, topical portal, portal | Software platform for accelerating genetic discoveries for sleep disturbance and circadian traits. | genetic, discovery, sleep, disorder, circadian, trait |
is listed by: NIDDK Information Network (dkNET) has parent organization: Broad Institute of MIT and Harvard has parent organization: Massachusetts General Hospital |
Sleep disorder, Circadian traits | NHLBI ; National Institute of Diabetes and Digestive and Kidney Diseases |
Public, Free, Google log in required | SCR_016611 | 2026-07-28 09:44:19 | 20 | ||||||||
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FUSION study Resource Report Resource Website 10+ mentions |
FUSION study (RRID:SCR_016580) | FUSION | disease-related portal, data or information resource, topical portal, portal | Portal to map and identify genetic variants that predispose to type 2 diabetes mellitus (T2D) or are responsible for variability in diabetes-related quantitative traits. Used for analysis of affected-sibling-pair (ASP) families in Finland, and association fine mapping based on these family members and additional T2D cases and controls. | map, identify, genetic, variant, predispose, type II diabetes, mellitus, T2D | type 2 diabetes | Registration required | SCR_016580 | Finland United States Investigation of NIDDM genetics | 2026-07-28 09:44:21 | 14 | ||||||||
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MARRVEL Resource Report Resource Website 10+ mentions |
MARRVEL (RRID:SCR_016871) | MARRVEL | service resource, data or information resource, data analysis service, database, production service resource, analysis service resource | Web tool to search multiple public variant databases simultaneously and provide a unified interface to facilitate the search process. Used for integration of human and model organism genetic resources to facilitate functional annotation of the human genome. Used for analysis of human genes and variants by cross-disciplinary integration of records available in public databases to facilitate clinical diagnosis and basic research. | integration, database, model, genetic, resource, functional, annotation, genome, data, analysis, dataset, rare, variant, exploration, bio.tools |
uses: OMIM uses: ClinVar uses: DECIPHER uses: Geno2MP uses: Database of Genomic Variants is used by: Hypothesis Center is listed by: bio.tools is listed by: Debian |
NINDS 1U54NS093793; NIH Office of the Director R24 OD022005; The Robert and Janice McNair Foundation ; Baylor College of Medicine Medical Scientist Training Program ; NINDS U54 NS093793; NIGMS R01 GM067858; NIGMS R01 GM120033; NSF DMS 1263932; CPRIT RP170387; Houston Endowment ; Huffington Foundation ; Belfer Foundation ; T T Chao Family Foundation ; NIGMS R01 GM067761; NIGMS R01 GM084947; NCRR R24 RR032668; NIH Office of the Director R24 OD021997; NCI P30 CA06516; NHGRI U01 HG007709; Simons Foundation |
PMID:28502612 | Free, Public, Freely available | biotools:marrvel | https://bio.tools/marrvel | SCR_016871 | Model organism Aggregated Resources for Rare Variant ExpLoration | 2026-07-28 09:44:25 | 22 | ||||
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Italian Institute for Genomic Medicine; Turin; Italy Resource Report Resource Website |
Italian Institute for Genomic Medicine; Turin; Italy (RRID:SCR_017062) | IIGM, HuGeF | data or information resource, topical portal, portal | Private research institute in Turin, Italy. Research programs in immunogenetics, functional genomics, genomic epidemiology, tumour diagnostic and prognostic biomarker research, epigenetic modifications in disease, quantitative biology and computational neuroscience. | institute, private, research, human, genetic, genomic, epigenomic, immunogenetic, quantitative, biology, computational, neuroscience | is parent organization of: HaTSPiL | SCR_017062 | 2026-07-28 09:44:26 | 0 | ||||||||||
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University of British Columbia Centre for Molecular Medicine and Therapeutics Resource Report Resource Website 1+ mentions |
University of British Columbia Centre for Molecular Medicine and Therapeutics (RRID:SCR_017241) | UBC CMMT | data or information resource, topical portal, portal | Center is part of University of British Columbia Faculty of Medicine, located at British Columbia Children Hospital Research Institute (BCCHR) in Vancouver, British Columbia, Canada. Research at CMMT is focused on discovering genetic susceptibility to illnesses such as Huntington Disease, Type 2 diabetes and bipolar disorder. | genetic, susceptibility, Huntington, disease, type 2 diabetes, bipolar disorder | SCR_017241 | University of British Columbia (UBC) Centre for Molecular Medicine & Therapeutics, CMMT, Centre for Molecular Medicine and Therapeutics | 2026-07-28 09:44:28 | 9 | ||||||||||
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BEAST2 Resource Report Resource Website 100+ mentions |
BEAST2 (RRID:SCR_017307) | software application, data analysis software, sequence analysis software, software resource, data processing software, software toolkit | Software package for advanced Bayesian evolutionary analysis by sampling trees. Used for phylogenetics, population genetics and phylodynamics. Program for Bayesian phylogenetic analysis of molecular sequences. Estimates rooted, time measured phylogenies using strict or relaxed molecular clock models. Framework can be extended by third parties. Comprised of standalone programs including BEAUti, BEAST, MASTER, RBS, SNAPP, MultiTypeTree, BDSKY, LogAnalyser, LogCombiner, TreeAnnotator, DensiTree and package manager. | Bayesian, evolutionary, sampling, tree, phylogenic, analysis, Markov, chain, monte carlo, phylogenetic, population, genetic, phylodynamic, sequence |
is related to: BASTA is related to: BEAST is related to: PhyDyn has parent organization: University of Auckland; Auckland; New Zealand |
Royal Society of New Zealand Marsden award ; European Research Council ; NIGMS U01 GM110749; Swiss National Science foundation ; Max Planck Society ; EMBL |
PMID:30958812 | Free, Available for download, Freely available | SCR_017307 | , Beast 2.5 | 2026-07-28 09:44:33 | 194 | |||||||
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Cancer Dependency Map Portal Resource Report Resource Website 1000+ mentions |
Cancer Dependency Map Portal (RRID:SCR_017655) | DepMap Portal | data set, project portal, data or information resource, catalog, database, portal | Portal for identifying genetic and pharmacologic dependencies and biomarkers that predicts them by providing access to datasets, visualizations, and analysis tools that are being used by Cancer Dependency Map Project at Broad Institute. Project to systematically identify genes and small molecule dependencies and to determine markers that predict sensitivity. All data generated by DepMap Project are available to public under CC BY 4.0 license on quarterly basis and pre-publication. | Cancer, vulnerability, dataset, visualization, analysis, tool, catalog, biomarker, genetic, drug, sensitivity, tumor, model, FASEB list | has parent organization: Broad Institute | Free, Available for download, Freely available | SCR_017655 | Dependency Map Portal, Dependency Map portal, Cancer DepMap, Cancer Dependency Map Project | 2026-07-28 09:44:39 | 1000 |
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