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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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GO-Module Resource Report Resource Website 1+ mentions |
GO-Module (RRID:SCR_005813) | GO-Module | data analysis service, production service resource, service resource, analysis service resource | GO-Module provides an interface to reduce the dimensionality of GO enrichment results and produce interpretable biomodules of significant GO terms organized by hierarchical knowledge that contain only true positive results. Users can download a text file of GO terms annotated with their significance and identified biomodules, a network visualization of resultant GO IDs or terms in PDF format, and view results in an online table. Platform: Online tool | functional similarity, visualization, other analysis, reduce the dimensionality of go enrichment results, produce interpretable biomodules of significant go terms, gene ontology, ontology or annotation visualization, annotation |
is listed by: Gene Ontology Tools is related to: Gene Ontology is related to: AmiGO has parent organization: University of Illinois at Chicago; Illinois; USA |
NIH ; Cancer Research Foundation ; NLM K22 LM008308; NCI 1U54CA121852; NCRR UL1 RR024999 |
PMID:21421553 | Free for academic use | nlx_149322 | SCR_005813 | Hierarchical optimization of enriched GO terms | 2026-02-14 02:05:53 | 3 | |||||
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Maitreya Dunham's Lab Resource Report Resource Website 1+ mentions |
Maitreya Dunham's Lab (RRID:SCR_000784) | data or information resource, portal | A portal for Maitreya Dunham's lab, which works on the genomic analysis of experimental evolution in yeast using microarrays and the chemostat. Research interests of the lab include experimental evolution of genetic networks in yeast, aneuploidy and copy number variation, comparative genomics, technology development and human genetics in yeast. | seattle, washington, maitreya dunham, lab, yeast, genomic, microarray, chemostat, copy number variation, human, genetics, technology | has parent organization: University of Washington; Seattle; USA | NIH P50 GM071508; Lewis-Sigler Institute ; Howard Hughes Medical Institute |
nif-0000-30476 | SCR_000784 | The Dunham Lab | 2026-02-14 02:05:23 | 9 | ||||||||
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Coriell Cell Repositories Resource Report Resource Website 50+ mentions |
Coriell Cell Repositories (RRID:SCR_003244) | CCR | biomaterial supply resource, cell repository, material resource | A biorepository and biomaterial supply resource which establishes, verifies, maintains, and distributes cells, cultures and DNA derived from cell cultures to the scientific community around the world. Scientists can browse the sample catalog and request specific cell lines for their research studies. An inventory of the remaining stock of each cell line and DNA preparation is presented in real time. Coriell's significant cell biobank collections include: NIGMS Human Genetic Cell Repository, NINDS Human Genetics DNA and Cell Line Repository, NIA Aging Cell Repository, NHGRI Sample Repository for Human Genetic Research, NEI Age-Related Eye Disease Study (AREDS) Genetic Repository, HD Community BioRepository, American Diabetes Association, GENNID Study, and Autism Research Resource. The repositories are ISO 9000-2001 compliant. | cellular, molecular, genetics, cell line, culture, cell, dna, reagent, disease, family, gene, pharmacogenetics, population, single nucleotide polymorphism |
is listed by: One Mind Biospecimen Bank Listing is listed by: Multiple Sclerosis Discovery Forum is related to: Integrated Cell Lines is related to: NCBI BioSample is related to: Integrated Manually Extracted Annotation is related to: One Mind Biospecimen Bank Listing is related to: Multiple Sclerosis Discovery Forum has parent organization: Coriell Institute for Medical Research is parent organization of: ADA GENNID Study is parent organization of: NIGMS Human Genetic Cell Repository is parent organization of: NINDS Repository is parent organization of: NHGRI Sample Repository for Human Genetic Research is parent organization of: NEI-AREDS Genetic Repository is parent organization of: COHORT Repository is parent organization of: IPBIR - Integrated Primate Biomaterials and Information Resource is parent organization of: HD Community BioRepository is parent organization of: Autism Research Resource is parent organization of: Yerkes Collection Non-Human Primate Resource is parent organization of: Wistar Institute Collection at Coriell is parent organization of: USIDNET DNA and Cell Repository is parent organization of: CDC Cell and DNA Repository is parent organization of: Leiomyosarcoma Cell and DNA Repository is parent organization of: Human Reference Genetic Material Repository is parent organization of: Aging Cell Repository works with: Cellosaurus |
NIH | Free, Freely available | nif-0000-00182 | http://ccr.coriell.org/ccr/ http://ccr.coriell.org/ |
SCR_003244 | 2026-02-14 02:05:23 | 74 | ||||||
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DataLad Resource Report Resource Website 50+ mentions |
DataLad (RRID:SCR_003931) | DataLad | data or information resource, software resource, portal | Project to adapt model of open source software distributions to address technical limitations of data sharing and develop all components of data distribution. Builds on top of git-annex and extends it with intuitive command line interface. Enables users to operate on data using familiar concepts, such as files and directories, while transparently managing data access and authorization with underlying hosting providers. Can create DataLad datasets using any data files published on the web. | Data sharing, aggregator, federated platform, distributed version control system, data set |
uses: OpenNeuro uses: CRCNS uses: NeuroImaging Tools and Resources Collaboratory (NITRC) uses: NIH Human Connectome Project uses: Mind Research Network - COINS uses: 1000 Functional Connectomes Project uses: Git uses: git-annex is related to: datasets.datalad.org has parent organization: Dartmouth College; New Hampshire; USA has parent organization: Otto-von-Guericke University Magdeburg; Saxony-Anhalt; Germany has parent organization: Research Center Jülich; Jülich; Germany works with: ReproIn: The ReproNim image input management system (featuring DataLad) |
NSF 1429999; BMBF 01GQ1411; NSF 1912266; BMBF 01GQ1905; NIH 1P41EB019936-01A1; European Union’s Horizon 2020 research and innovation programme 945539; European Union’s Horizon 2020 research and innovation programme 826421; Deutsche Forschungsgemeinschaft SFB1451-INF; German federal state of Saxony-Anhalt and the European Regional Development Fund ; NIH 1R24MH117295-01A1 |
DOI:10.21105/joss.03262 | Free, Freely available | nlx_158300 | https://github.com/datalad/datalad.org | SCR_003931 | DataGit, Data Lad | 2026-02-14 02:05:23 | 52 | ||||
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dbSTS Resource Report Resource Website 1+ mentions |
dbSTS (RRID:SCR_000400) | dbSTS | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, as of October 1, 2013; however, the site is still accessible. NCBI resource that contains sequence and mapping data on short genomic landmark sequences or Sequence Tagged Sites. STS sequences are incorporated into the STS Division of GenBank. The dbSTS database offers a route for submission of STS sequences to GenBank. It is designed especially for the submission of large batches of STS sequences. | genomic, mapping, sequence, gold standard, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: NCBI |
NIH | PMID:2781285 | THIS RESOURCE IS NO LONGER IN SERVICE | biotools:dbsts, nif-0000-20939, r3d100010649 | https://bio.tools/dbsts https://doi.org/10.17616/R39P5C |
SCR_000400 | NCBI dbSTS: database of Sequence Tagged Sites, Sequence Tagged Sites Database, NCBI dbSTS, dbSTS: database of Sequence Tagged Sites, Database of Sequence Tagged Sites | 2026-02-14 02:05:43 | 3 | ||||
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National Disease Research Interchange Resource Report Resource Website 100+ mentions Rating or validation data |
National Disease Research Interchange (RRID:SCR_000550) | NDRI | biomaterial supply resource, tissue bank, material resource | NDRI is a Not-For-Profit (501c3) Corporation dedicated to providing the highest quality human biomaterials for research. NDRI makes it easy for researchers to get the human tissues and organs they need, prepared, preserved and shipped precisely according to their specific scientific protocols, as quickly as possible, and in the largest available quantities. NDRI provides researchers with protocol specific human neurological tissues such as brain stem, spinal cord, and basal ganglia, among others. In addition to control specimens, NDRI recovers tissues from donors with a variety of diseases, including Down syndrome, Parkinsons disease, Alzheimers disease, schizophrenia, and dementia. Through the NDRI 24/7 referral and procurement system, research consented biospecimens can be provided from low post mortem interval donors preserved at 4ºC, frozen or snap frozen, fixed, paraffin embedded, or as unstained slides. | neurological, tissue, organ, cell, neurological tissue, brainstem, spinal cord, basal ganglia, cerebral cortex, hippocampus, frozen, snap frozen, fixed, paraffin embedded, unstained slide, disease, down syndrome, parkinson's disease, alzheimer's disease, schizophrenia, dementia, control, normal, catalog |
is listed by: One Mind Biospecimen Bank Listing is listed by: Multiple Sclerosis Discovery Forum is listed by: Biospecimens/Biorepositories: Rare Disease-HUB (RD-HUB) is parent organization of: Human Tissue and Organ for Research Resource (HTORR) is parent organization of: Human Biological Data Interchange is parent organization of: NDRI Dorsal Root Ganglia Program |
Down syndrome, Parkinson's disease, Alzheimer's disease, Schizophrenia, Dementia | NIH OD011158 | Public: NDRI is a nonprofit organization that procures and distributes normal and diseased human biomaterials to biomedical researchers in academia, government, and industry. | nlx_99804 | SCR_000550 | 2026-02-14 02:05:43 | 190 | ||||||
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WikiPathways Resource Report Resource Website 1000+ mentions |
WikiPathways (RRID:SCR_002134) | data or information resource, service resource, database | Open and collaborative platform dedicated to curation of biological pathways. Each pathway has dedicated wiki page, displaying current diagram, description, references, download options, version history, and component gene and protein lists. Database of biological pathways maintained by and for scientific community. | database, knowledge environment resource, image, web service, biological pathway, diagram description, reference, pathway, FASEB list |
is used by: NIF Data Federation is used by: Open PHACTS is related to: PharmGKB is related to: Reactome is related to: NetPath is related to: ConsensusPathDB is related to: NCBI BioSystems Database is related to: WebGestalt: WEB-based GEne SeT AnaLysis Toolkit has parent organization: University of California at San Francisco; California; USA has parent organization: Maastricht University; Maastricht; Netherlands |
NIH ; Netherlands Bioinformatics Centre ; Google Summer of Code program ; NWO - Netherlands Organization for Scientific Research ; NIGMS GM080223; NIGMS R01 GM100039 |
PMID:22096230 PMID:18651794 |
Free, Freely available | nif-0000-20925 | SCR_002134 | Wiki Pathways | 2026-02-14 02:05:46 | 1696 | ||||||
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Mutation Annotation and Genomic Interpretation Resource Report Resource Website |
Mutation Annotation and Genomic Interpretation (RRID:SCR_002800) | MAGI | data analysis service, production service resource, service resource, analysis service resource | A tool for annotating, exploring, and analyzing gene sets that may be associated with cancer. | mutation, interaction, transcript, copy number aberration, network |
uses: The Cancer Genome Atlas uses: HINT uses: HPRD - Human Protein Reference Database uses: Pfam uses: SMART uses: Conserved Domain Database is listed by: OMICtools has parent organization: Brown University; Rhode Island; USA |
Cancer | NSF ; NIH ; Brown University; Rhode Island; USA |
Free, Freely available, Available for download | OMICS_06145 | SCR_002800 | MAGI - A tool for Mutation Annotation and Genomic Interpretation | 2026-02-14 02:05:48 | 0 | |||||
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UNC Infant 0-1-2 Atlases Resource Report Resource Website 1+ mentions |
UNC Infant 0-1-2 Atlases (RRID:SCR_002569) | UNC Infant 0-1-2 Atlases | data or information resource, atlas | 3 atlases dedicated for neonates, 1-year-olds, and 2-year-olds. Each atlas comprises a set of 3D images made up of the intensity model, tissue probability maps, and anatomical parcellation map. These atlases are constructed with the help of state-of-the-art infant MR segmentation and groupwise registration methods, on a set of longitudinal images acquired from 95 normal infants (56 males and 39 females) at neonate, 1-year-old, and 2-year-old. | analyze, atlas application, linux, macos, microsoft, magnetic resonance, posix/unix-like, infant, pediatric, template, longitudinal, neonate, male, female, mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill School of Medicine; North Carolina; USA |
Normal | NIH ; NIBIB EB006733; NIBIB EB008760; NIBIB EB008374; NIBIB EB009634; NIMH MH088520; NIMH MH070890; NIMH MH064065; NINDS NS055754; NICHD HD053000 |
PMID:21533194 | Free, Available for download, Freely available | nlx_155971 | http://www.nitrc.org/projects/pediatricatlas | SCR_002569 | UNC 0-1-2 Infant Atlases | 2026-02-14 02:05:40 | 2 | |||
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Nucleic Acid Database Resource Report Resource Website 10+ mentions |
Nucleic Acid Database (RRID:SCR_003255) | NDB | data or information resource, database | A database of three-dimensional structural information about nucleic acids and their complexes. In addition to primary data, it contains derived geometric data, classifications of structures and motifs, standards for describing nucleic acid features, as well as tools and software for the analysis of nucleic acids. A variety of search capabilities are available, as are many different types of reports. NDB maintains the macromolecular Crystallographic Information File (mmCIF). | nucleic acid, dna, nucleopeptide, nucleoprotein, nucleotide, rna, transfection, sequence, structure, function, bio.tools, FASEB list |
is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: MINAS - Metal Ions in Nucleic AcidS is related to: Biological Magnetic Resonance Data Bank (BMRB) is related to: Jenalib: Jena Library of Biological Macromolecules has parent organization: Rutgers University; New Jersey; USA |
NSF ; DOE ; NIH |
PMID:24185695 PMID:1384741 |
Free, Available for download, Freely available | nif-0000-03184, biotools:ndb, r3d100010415 | https://bio.tools/ndb https://doi.org/10.17616/R3531R |
SCR_003255 | 2026-02-14 02:05:49 | 36 | |||||
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MITOMAP - A human mitochondrial genome database Resource Report Resource Website 100+ mentions |
MITOMAP - A human mitochondrial genome database (RRID:SCR_002996) | MITOMAP | data or information resource, database | Database of polymorphisms and mutations of the human mitochondrial DNA. It reports published and unpublished data on human mitochondrial DNA variation. All data is curated by hand. If you would like to submit published articles to be included in mitomap, please send them the citation and a pdf. | gene, genome, diabetes, disease, disease-association, high resolution screening, human, inversion, metabolism, mitochondrial dna, mutation, phenotype, polymorphism, polypeptide assignment, pseudogene, restriction site, rna, sequence, trna, unpublished, variation, mitochondria, dna, insertion, deletion, FASEB list |
is used by: HmtVar is listed by: OMICtools is related to: Hereditary Hearing Loss Homepage has parent organization: Childrens Hospital of Philadelphia - Research Institute; Pennsylvania; USA has parent organization: Emory University School of Medicine; Atlanta; Georgia; USA |
NIH ; Muscular Dystrophy Foundation ; Ellison Foundation ; Diputacion General de Aragon Grupos consolidados B33 ; NIGMS GM46915; NINDS NS21328; NHLBI HL30164; NIA AG10130; NIA AG13154; NINDS NS213L8; NHLBI HL64017; NIH Biomedical Informatics Training Grant T15 LM007443; NSF EIA-0321390; Spanish Fondo de Investigacion Sanitaria PI050647; Ciber Enfermedades raras CB06/07/0043 |
PMID:17178747 PMID:15608272 PMID:9399813 PMID:9016535 PMID:8594574 |
Except where otherwise noted, Creative Commons Attribution License, The community can contribute to this resource | nif-0000-00511, OMICS_01641 | SCR_002996 | 2026-02-14 02:05:42 | 368 | ||||||
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MiST - Microbial Signal Transduction database Resource Report Resource Website 10+ mentions |
MiST - Microbial Signal Transduction database (RRID:SCR_003166) | MiST | data or information resource, database | Database which contains the signal transduction proteins for complete and draft bacterial and archaeal genomes. The MiST2 database identifies and catalogs the repertoire of signal transduction proteins in microbial genomes. | signal transduction proteins, bacterial genome, archaeal genome, microbial genome, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: University of Tennessee Knoxville; Tennessee; USA |
South Carolina Research Association ; DOE Office of Science ; NIH ; NIGMS GM083177 |
PMID:19900966 | Free, Freely available | biotools:mist, nif-0000-03140 | https://bio.tools/mist | SCR_003166 | MiST 2.2, Microbial Signal Transduction Database, Microbial Signal Transduction database (MiST), MiST2 | 2026-02-14 02:06:11 | 31 | ||||
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KOMP2 Resource Report Resource Website 1+ mentions |
KOMP2 (RRID:SCR_017528) | data or information resource, portal, project portal | Knockout Mouse Phenotyping Project, JAX information about their contributions to KOMP2 project. Project to generate and phenotype single gene KO mouse strains from KOMP ES cell lines. Strains are phenotyped using protocols in pipeline designed by International Mouse Phenotyping Consortium. There are three NIH-funded phenotyping centers in United States: JAX, BaSH Consortium (Baylor College of Medicine, the Wellcome Trust Sanger Institute and MRC Harwell), and the DTCC Consortium (University of California at Davis, the Toronto Center for Phenogenomics, Children’s Hospital Oakland Research Institute (CHORI) and Charles River ). | Generate, phenotype, single, gene, KO mouse, strain, KOMP ES cell line, IMPC, JAX |
is related to: International Mouse Phenotyping Consortium (IMPC) is related to: Knockout Mouse Project is related to: Knockout Mouse Project |
NIH | Free, Freely available | SCR_017528 | Knockout Mouse Phenotyping Project | 2026-02-14 02:05:16 | 2 | ||||||||
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Science of Behavior Change Research Network Resource Report Resource Website |
Science of Behavior Change Research Network (RRID:SCR_017385) | SOBC | data or information resource, portal, project portal | Repository for behavioral science measures that have been validated or are in process of being validated in accordance with SOBC Experimental Medicine Approach. | Data, behavioral, science, SOBC, measure, data, medicine | NIH | SCR_017388 | https://scienceofbehaviorchange.org/measures/ https://scienceofbehaviorchange.org/measures/ |
SCR_017385 | SOBC Measures Repository, Science of Behavior Change (SOBC) Research Network | 2026-02-14 02:05:41 | 0 | |||||||
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BRAIN Initiative Cell Atlas Network Resource Report Resource Website 10+ mentions |
BRAIN Initiative Cell Atlas Network (RRID:SCR_022794) | BICAN | data or information resource, portal | Provides molecular and anatomical foundational framework for study of brain function and disorders.Comprehensive Center on Human and Non-Human Primate Brain Cell Atlases with goal to build reference brain cell atlases that will be used throughout research community. | Cell Atlas Network, study of brain function and disorders, build reference brain cell atlases |
uses: NIH NeuroBioBank uses: NeMOarchive uses: Terra uses: Brain Image Library uses: SpinalJ uses: Cell Annotation Platform uses: Connectome Workbench uses: BALSA uses: Cytosplore Viewer uses: Cellarium is related to: BICCN is related to: Brain Cell Data Viewer is related to: CZ CELLxGENE Discover is related to: CATlas is related to: Epi-Retro-Seq is related to: NeMO Analytics is related to: UCSC Cell Browser is related to: MetaMarkers is related to: Brain Knowledge Platform is related to: HOMBA Adult Human Basal Ganglia Atlas has parent organization: Allen Institute has parent organization: Allen Institute for Brain Science has organization facet: Slide-seq Pipeline has organization facet: ATAC Pipeline has organization facet: Multiome Pipeline has organization facet: MapMyCells has organization facet: Whole Mouse Brain Cell and Genome Atlas has organization facet: snm3C Pipeline has organization facet: Paired-Tag Pipeline has organization facet: NIMP: Neuroanatomy-anchored Information Management Platform for Collaborative BICAN Data Generation has organization facet: NHash Identifier has organization facet: Atlas Ontology Model has organization facet: Allen Brain Map BICCN Data Catalog has organization facet: Atlas Ontology Model has organization facet: Early Postnatal Developmental Mouse Brain Atlas has organization facet: BRAINCELL-AID has organization facet: JOSA has organization facet: Annotation Comparison Explorer has organization facet: Brain Image Library has organization facet: DELAY has organization facet: chromograph has organization facet: fetal_brain_multiomics has organization facet: CBI BrAinPI has organization facet: bkbit has organization facet: BuildIndices has organization facet: HOMBA Macaque Reference Atlas has organization facet: HOMBA Adult Marmoset Basal Ganglia Atlas has organization facet: SlideTags.wdl has organization facet: storm-control has organization facet: PIANO:Probabilistic Inference Autoencoder Networks for multi-Omics has organization facet: BICAN Basal Ganglia Epigenome Explorer has organization facet: Brain Initiative Cell Atlas Network Data Catalog has organization facet: BrainKB |
NIH MH130968; NIH MH130918 |
Free, Freely available | https://www.braininitiative.org/funding-opportunity/brain-initiative-cell-atlas-network-bican-comprehensive-center-on-human-and-non-human-primate-brain-cell-atlases-um1-clinical-trial-not-allowed/ https://braininitiative.nih.gov/funding-opportunies/brain-initiative-cell-atlas-network-bican-specialized-collaboratory-human-non |
SCR_022794 | 2026-02-14 02:05:49 | 18 | |||||||
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LAMHDI: The Initiative to Link Animal Models to Human DIsease Resource Report Resource Website 1+ mentions |
LAMHDI: The Initiative to Link Animal Models to Human DIsease (RRID:SCR_008643) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, it has been replaced by Monarch Initiative. LAMHDI, the initiative to Link Animal Models to Human DIsease, is designed to accelerate the research process by providing biomedical researchers with a simple, comprehensive Web-based resource to find the best animal model for their research. LAMDHI is a free, Web-based, resource to help researchers bridge the gap between bench testing and human trials. It provides a free, unbiased resource that enables scientists to quickly find the best animal models for their research studies. LAMHDI includes mouse data from MGI, the Mouse Genome Informatics website; zebrafish data from ZFIN, the Zebrafish Model Organism Database; rat data from RGD, the Rat Genome Database; yeast data from SGD, the Saccharomyces Genome Database; and fly data from FlyBase. LAMHDI.org is operational today, and data is added regularly. Enhancements are planned to let researchers contribute their knowledge of the animal models available through LAMHDI. The LAMHDI goal is to allow researchers to share information about and access to animal models so they can refine research and testing, and reduce or replace the use of animal models where possible. LAMHDI Database Search: LAMHDI brings together scientifically validated information from various sources to create a composite multi-species database of animal models of human disease. To do this, the LAMHDI database is prepared from a variety of sources. The LAMHDI team takes publicly available data from OMIM, NCBI''s Entrez Gene database, Homologene, and WikiPathways, and builds a mathematical graph (think of it as a map or a web) that links these data together. OMIM is used to link human diseases with specific human genes, and Entrez provides universal identifiers for each of those genes. Human genes are linked to their counterpart genes in other species with Homologene, and those genes are linked to other genes tentatively or authoritatively using the data in WikiPathways. This preparatory work gives LAMHDI a web of human diseases linked to specific human genes, orthologous human genes, homologous genes in other species, and both human and non-human genes involved in specific metabolic pathways associated with those diseases. LAMHDI includes model data that partners provide directly from their data structures. For instance, MGI provides information about mouse models, including a disease for each model, as well as some genetic information (the ID of the model, in fact, identifies one or more genes). ZFIN provides genetic information for each zebrafish model, but no diseases, so zebrafish models are integrated by using the genes as the glue. For instance, a zebrafish model built to feature the zebrafish PKD2 gene would plug into the larger disease-gene map at the node representing the zebrafish PKD2 gene, which is connected to the node representing the human PKD2 gene, which in turn is connected to the node representing the human disease known as polycystic kidney disease. (Some of the partner data LAMHDI receives can even extend the base map. MGI provides a disease for every model, and in some cases this allows the creation of a disease-to-gene relationship in the LAMHDI database that might not already be documented in the OMIM dataset.) With curatorial and model information in hand, LAMHDI runs a lengthy automated process that exhaustively searches for every possible path between each model and each disease in the data, up to a set number of hops, producing for each disease-to-model pair a set of links from the disease to the model. The algorithm avoids circular paths and paths that include more than one disease anywhere in the middle of the path. At the end of this phase, LAMHDI has a comprehensive set of paths representing all the disease-to-model relationships in the data, varying in length from one hop to many hops. Each disease-to-model path is essentially a string of nodes in the data, where each node represents a disease, a gene, a linkage between genes (an orthologue, a homologue, or a pathway connection, referred to as a gene cluster or association), or a model. Each node has a human-friendly label, a set of terms and keywords, and - in most cases - a URL linking the node to the data source where it originated. When a researcher submits a search on the LAMHDI website, LAMHDI searches for the user''s search terms in its precomputed list of all known disease-to-model paths. It looks for the terms not only in the disease and model nodes, but also in every node along each path. The complete set of hits may include multiple paths between any given disease-to-model pair of endpoints. Each of these disease-to-model pair sets is ordered by the number of hops it involves, and the one involving the fewest hops is chosen to represent its respective disease-to-model pair in the search results presented to the user. Results are sorted by scores that represent their matches. The number of hops is one barometer of the strength of the evidence linking the model and the disease; fewer hops indicates the relationship is stronger, more hops indicates it may be weaker. This indicator works best for comparing models from a single partner dataset: MGI explicitly identifies a disease for each mouse model, so there can be disease-to-model hits for mice that involve just one hop. Because ZFIN does not explicitly identify a disease for each model, no zebrafish model will involve fewer than four hops to the nearest disease, from the zebrafish model to a zebrafish gene to a gene cluster to a human gene to a human disease. | fly, animal, biologic, community, database, disease, genome, human, informatics, international, internet, knockout, model, mouse, network, organism, pathway, primate, rat, research, saccharomyces, testing, treatment, trial, worm, zebrafish |
has parent organization: University of Washington; Seattle; USA has parent organization: University of Wisconsin-Madison; Wisconsin; USA has parent organization: University of California at San Diego; California; USA |
NIH OD011883; NIH NS058296 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-32417 | SCR_008643 | LAMHDI | 2026-02-14 02:06:43 | 2 | |||||||
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Project Tycho Resource Report Resource Website 1+ mentions |
Project Tycho (RRID:SCR_010489) | data or information resource, database | Database to advance the availability and use of public health data for science and policy making that includes data from all weekly notifiable disease reports for the United States dating back to 1888. Additional U.S. and international data will be released twice yearly. | population, disease, metadata standard, vaccination, public health data, health, incidence rate, death, statistics | has parent organization: University of Pittsburgh; Pennsylvania; USA | Smallpox, Polio, Measles, Mumps, Rubella, Hepatitis A, Whooping cough, Diphtheria, Etc. | Bill and Melinda Gates Foundation ; NIH |
PMID:24283231 PMID:24611167 |
Account required, Creative Commons Attribution License | nlx_157982 | SCR_010489 | Project Tycho Data for Health | 2026-02-14 02:06:44 | 2 | |||||
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CellChat Resource Report Resource Website 500+ mentions |
CellChat (RRID:SCR_021946) | software resource, software toolkit | Software R toolkit for inference, visualization and analysis of cell-cell communication from single cell data.Quantitatively infers and analyzes intercellular communication networks from single-cell RNA-sequencing data. Predicts major signaling inputs and outputs for cells and how those cells and signals coordinate for functions using network analysis and pattern recognition approaches. Classifies signaling pathways and delineates conserved and context specific pathways across different datasets. | inference, visualization, analysis, cell-cell communication, single cell data, intercellular communication networks, single-cell RNA-sequencing data | NSF DMS1763272; Simons Foundation ; NIH U01 AR073159; NIGMS R01 GM123731; NIH P30 AR07504; Pew Charitable Trust ; LEO Foundation ; UC Irvine ; Howard Hughes Medical Institute |
PMID:33597522 | Free, Available for download, Freely available | http://www.cellchat.org/ | SCR_021946 | 2026-02-14 02:07:34 | 536 | ||||||||
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Genetics of Kidneys in Diabetes Resource Report Resource Website |
Genetics of Kidneys in Diabetes (RRID:SCR_000133) | GoKinD, Go KinD | biomaterial supply resource, material resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Collect, store, and distribute genetic samples from cases and controls of type 1 diabetes and diabetic nephropathy for investigator-driven research into the genetic basis of diabetic nephropathy. As the risk of kidney complications in type 1 diabetes appears to have a considerable genetic component, this study assembled a large data resource for researchers attempting to identify causative genetic variants. The types of data collected allowed traditional case-control testing, a rapid and often powerful approach, and family-based analysis, a robust approach that is not influenced by population substructure. | clinical, genetics, genetic variant, gene, data set |
is listed by: One Mind Biospecimen Bank Listing is listed by: NIDDK Information Network (dkNET) has parent organization: George Washington University; Washington D.C.; USA |
Type 1 diabetes, Diabetes, Diabetic nephropathy, Kidney disease | JDRF ; NIH |
PMID:16775037 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152764 | http://www.gokind.org/access | SCR_000133 | Genetics of Kidneys in Diabetes (GoKinD) Study, Genetics of Kidneys in Diabetes Study | 2026-02-14 02:06:57 | 0 | |||
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Mouse Thalamic Projectome Dataset Resource Report Resource Website |
Mouse Thalamic Projectome Dataset (RRID:SCR_015702) | data or information resource, data set | Data set of thalamo-centric mesoscopic projection maps to the cortex and striatum. The maps are established through two-color, viral (rAAV)-based tracing images and high throughout imaging. | jpeg image data set, projection map, thalamocortical map, viral (rAAV)-based tracing, thalamo-centric mesoscopic projection map | NIH DP2 OD008425; NINDS R01 NS081071; NIDDK T32 DK007680; NINDS P30 NS069305; NIDA R01 DA008163; NINDS U01 NS094247 |
PMID:25086607 PMID:27892854 |
Free | https://github.com/BJHunnicutt/anatomy | SCR_015702 | 2026-02-14 02:08:07 | 0 |
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