Searching across hundreds of databases
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Cell Image Library (CIL) Resource Report Resource Website 10+ mentions |
Cell Image Library (CIL) (RRID:SCR_003510) | CIL | database, data repository, data or information resource, service resource, storage service resource, image repository | Freely accessible, public repository of vetted and annotated microscopic images, videos, and animations of cells from a variety of organisms, showcasing cell architecture, intracellular functionalities, and both normal and abnormal processes. Explore by Cell Process, Cell Component, Cell Type or Organism. The Cell includes images acquired from historical and modern collections, publications, and by recruitment. | microscopic image repository, microscopic video repository, cell animation repository, bio.tools |
is used by: NIF Data Federation is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: Cell Centered Database is related to: Cell Centered Database is related to: OME-TIFF Format is related to: Integrated Manually Extracted Annotation has parent organization: American Society for Cell Biology has parent organization: University of California; San Diego;National Center for Microscopy and Imaging Research - NCMIR has parent organization: University of California at San Diego; California; USA is parent organization of: Biological Imaging Methods Ontology |
NIGMS RC2 GM092708 | PMID:34218671 PMID:34218673 |
Free, Freely available | biotools:cellimagelibrary, nif-0000-37639 | http://www.cellimagelibrary.org/pages/about https://bio.tools/cellimagelibrary |
SCR_003510 | Cell Image Library. CIL, Cell Image Library (CIL) | 2025-04-02 11:02:52 | 17 | ||||
|
Reactome Resource Report Resource Website 1000+ mentions |
Reactome (RRID:SCR_003485) | analysis service resource, production service resource, database, data analysis service, service resource, data or information resource | Collection of pathways and pathway annotations. The core unit of the Reactome data model is the reaction. Entities (nucleic acids, proteins, complexes and small molecules) participating in reactions form a network of biological interactions and are grouped into pathways (signaling, innate and acquired immune function, transcriptional regulation, translation, apoptosis and classical intermediary metabolism) . Provides website to navigate pathway knowledge and a suite of data analysis tools to support the pathway-based analysis of complex experimental and computational data sets. | pathway, interaction, reaction, nucleic acid, protein, complex, small molecule, signaling pathway, immune function, transcriptional regulation, translation, apoptosis, metabolism, ortholog, visualization, protein-protein interaction, web service, book, biomart, gold standard, bio.tools, FASEB list |
is used by: NIF Data Federation is used by: DisGeNET is used by: Pathway Analysis Tool for Integration and Knowledge Acquisition is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: WikiPathways is related to: Pathway Commons is related to: ConsensusPathDB is related to: FlyMine is related to: AmiGO is related to: PSICQUIC Registry is related to: Integrated Molecular Interaction Database is related to: NCBI BioSystems Database is related to: MOPED - Model Organism Protein Expression Database is related to: KOBAS is related to: PSICQUIC Registry is related to: Pathway Interaction Database is related to: hiPathDB - human integrated Pathway DB with facile visualization is related to: Algal Functional Annotation Tool has parent organization: Ontario Institute for Cancer Research has parent organization: Cold Spring Harbor Laboratory has parent organization: European Bioinformatics Institute has parent organization: New York University School of Medicine; New York; USA works with: PathwayMatcher |
Ontario Research Fund ; European Molecular Biology Laboratory ; NHGRI P41 HG003751; European Union FP6 ENFIN LSHG-CT-2005-518254; NIGMS GM080223; NIGMS R01 GM100039 |
PMID:21082427 PMID:21067998 |
Open source, Public, Freely available | nif-0000-03390, biotools:reactome | https://bio.tools/reactome | SCR_003485 | Reactome Functional Interaction Network | 2025-04-02 11:02:51 | 3580 | |||||
|
National Mouse Metabolic Phenotyping Centers Resource Report Resource Website 500+ mentions |
National Mouse Metabolic Phenotyping Centers (RRID:SCR_008997) | MMPC, NIDDKMMPC | analysis service resource, production service resource, database, resource, data or information resource, service resource, biomaterial analysis service, material analysis service | The mission is to advance medical and biological research by providing the scientific community with standardized, high quality metabolic and physiologic phenotyping services for mouse models of diabetes, diabetic complications, obesity and related disorders. | phenotype, phenotyping, metabolism, cardiovascular, gastrointestinal, endocrine, energy, analytic, blood composition, in vivo, hormone, energy balance, eating, exercise, organ function, morphology, physiology, histology, experimental protocol, assay, strain, measurement, animal husbandry, FASEB list |
is used by: NIF Data Federation is used by: NIDDK Information Network (dkNET) is used by: Hypothesis Center is listed by: NIDDK Information Network (dkNET) is listed by: NIDDK Research Resources is related to: dkCOIN has parent organization: Augusta University; Georgia; USA has parent organization: Case Western Reserve University; Ohio; USA has parent organization: University of Cincinnati; Ohio; USA has parent organization: Vanderbilt University School of Medicine; Tennessee; USA has parent organization: University of California at Davis; California; USA has parent organization: University of Massachusetts Medical School; Massachusetts; USA has parent organization: Yale School of Medicine; Connecticut; USA is parent organization of: MMPC-Vanderbilt University School of Medicine Animal Health and Welfare Core is parent organization of: MMPC-Vanderbilt University School of Medicine Analytical Resources Core is parent organization of: MMPC-University of Michigan Medical School Microbiome Core is parent organization of: MMPC-Vanderbilt University School of Medicine Metabolic Regulation Core is parent organization of: MMPC-University of Michigan Medical School Microvascular Complications Core is parent organization of: MMPC-University of Massachusetts Medical School Cardiovascular Core is parent organization of: MMPC-Vanderbilt University School of Medicine is parent organization of: MMPC-University of Michigan Medical School is parent organization of: MMPC-University of Massachusetts Medical School Humanized Mouse Cell Transplantation and Assessment Core is parent organization of: MMPC-University of Cincinnati Medical Center Energy Metabolism Food Intake and Body Weight Regulation Core is parent organization of: MMPC-University of Massachusetts Medical School Islet Core is parent organization of: MMPC-University of Massachusetts Medical School Metabolism Core is parent organization of: MMPC-University of Massachusetts Medical School Animal Care Core is parent organization of: MMPC-University of Cincinnati Medical Center is parent organization of: University of Massachusetts Medical School Metabolic Disease Research Center Core Facility is parent organization of: MMPC-University of Massachusetts Medical School Analytical Core is parent organization of: MMPC-University of California Davis Energy Balance Exercise and Behavior Core is parent organization of: MMPC-University of Cincinnati Medical Center Lipid Lipoprotein and Glucose Metabolism Core is parent organization of: MMPC-University of California Davis Administrative Core is parent organization of: MMPC-University of California Davis Microbiome and Host Response Core is parent organization of: MMPC-University of Cincinnati Medical Center Cardiovascular and Renal Function Core is parent organization of: MMPC-University of California Davis Endocrinology and Metabolism Core is parent organization of: MMPC-University of California Davis is parent organization of: MMPC-University of California Davis Animal Care Surgery and Pathology Core is parent organization of: MMPC-University of Michigan Medical School Metabolism Bariatric Surgery and Behavior Core is parent organization of: MMPC-Vanderbilt University School of Medicine Cardiovascular Pathophysiology Core is parent organization of: MMPC-University of Michigan Medical School Animal Care and Germ-Free Mouse Core has organization facet: MMPC-University of California Davis has organization facet: MMPC-University of Cincinnati Medical Center has organization facet: University of Massachusetts Medical School Metabolic Disease Research Center Core Facility has organization facet: MMPC-University of Michigan Medical School has organization facet: MMPC-Vanderbilt University School of Medicine |
Diabetes, Obesity, Diabetic complication, Metabolic disease, Cardiovascular disease, Nephropathy, Neuropathy, Retinopathy | NIDDK U24 DK076174; NIDDK U24 DK092993; NIDDK U24 DK059630; NIDDK U24 DK093000; NIDDK U24 DK059637; NIDDK U24 DK059635 |
Fee-for-service, Acknowledgement requested, Public | SCR_015358, nlx_152633 | SCR_008997 | Mouse Metabolic Phenotyping Centers | 2025-04-02 11:07:52 | 706 | |||||
|
Research Blogging Resource Report Resource Website 1+ mentions |
Research Blogging (RRID:SCR_008786) | Research Blogging | service resource, blog, narrative resource, data or information resource | Aggregator of blogs about new developments in science and other fields that allows readers to easily find blog posts about serious peer-reviewed research, instead of just news reports and press releases. If you''re a blogger who writes about serious research, Research Blogging offers you a way to distinguish your serious posts from news, politics, family, bagpipes, and so on. They can direct your regular readers - and new readers - to the posts you''ve worked the hardest to create. All you need to get started is a blog and a peer-reviewed research report that you''d like to discuss. How it works * Bloggers -- often experts in their field -- find exciting new peer-reviewed research they''d like to share. They write thoughtful posts about the research for their blogs. * Bloggers register and use a simple one-line form to create a snippet of code to place in their posts. This snippet not only notifies this site about their post, it also creates a properly formatted research citation for their blog. * Their software automatically scans registered blogs for posts containing their code snippet. When it finds them, it indexes them and displays them on their front page -- thousands of posts from hundreds of blogs, in one convenient place, organized by topic. * Their editors identify the notable posts in each major discipline, publishing the results on their news page. * Other services like PubGet index their database as well, so every time readers search for a journal article, they can also locate blog posts discussing the article. * The quality of the posts listed on their site is monitored by the member bloggers. If a post doesn''t follow their guidelines, it is removed from their database. Borderline cases may be discussed publicly on the blog as well. Bloggers are also provided with an icon they can use to show when they''re talking about a peer-reviewed work that they''ve read and analyzed closely. There are already over seven thousand blog posts using the icon, and now it''s easier than ever to find them. | aggregator, peer-reviewed research, database, science, anthropology, astronomy, biology, chemistry, computer science, engineering, ecology, conservation, geoscience, health, mathematics, medicine, neuroscience, philosophy, physics, psychology, social science, research, scholarship |
is used by: NIF Data Federation is used by: Integrated Blogs |
Free, Non-commercial, Commercial purposes with written authorization. | nlx_144211 | SCR_008786 | ResearchBlogging.org | 2025-04-02 11:07:43 | 5 | |||||||
|
XNAT Central Resource Report Resource Website 10+ mentions |
XNAT Central (RRID:SCR_006235) | XNAT Central | database, data repository, data or information resource, service resource, storage service resource, image repository | Online repository of open access images including MR Sessions, MRI, Freesurfer APARC, Freesurfer ASEGs, Clinical Assessments, Atlas Scaling Factors, and Fast Segmentations data. CENTRAL currently contains 374 Projects, 3808 Subjects, and 5174 Imaging Sessions (June 2014). Central is powered by XNAT (The Extensible Neuroimaging Archive Toolkit), an open source software platform designed to facilitate management and exploration of neuroimaging and related data. XNAT includes a secure database backend and a rich web-based user interface. | magnetic resonance, pet, computed tomography, neuroimaging, mri, computer axial tomography imaging protocol, freesurfer aparc, freesurfer aseg, clinical assessment, atlas scaling factor, fast segmentation, image collection, clinical |
is used by: NITRC-IR is used by: NIF Data Federation is used by: Integrated Datasets is listed by: re3data.org is related to: Morphometry BIRN is related to: XNAT - The Extensible Neuroimaging Archive Toolkit has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA |
Free, Freely available | nif-0000-04375 | SCR_006235 | Extensible Neuroimaging Archive Toolkit CENTRAL | 2025-04-02 11:05:10 | 38 | |||||||
|
OMIM Resource Report Resource Website 1000+ mentions |
OMIM (RRID:SCR_006437) | OMIM, MIM | catalog, database, data or information resource | Online catalog of human genes and genetic disorders, for clinical features, phenotypes and genes. Collection of human genes and genetic phenotypes, focusing on relationship between phenotype and genotype. Referenced overviews in OMIM contain information on all known mendelian disorders and variety of related genes. It is updated daily, and entries contain copious links to other genetics resources. | gene, genetics, phenotype, genotype, genetic loci, mutation, clinical, trait, disorder, umls, ontology, gold standard, FASEB list |
is used by: Human Phenotype Ontology is used by: NIF Data Federation is used by: MitoMiner is used by: Schizo-Pi is used by: GEMINI is used by: MARRVEL is used by: HmtPhenome is listed by: BioPortal is listed by: OMICtools is related to: HomoloGene is related to: TopoSNP is related to: phenomeNET is related to: Integrated Gene-Disease Interaction is related to: OMIA - Online Mendelian Inheritance in Animals is related to: Europhenome Mouse Phenotyping Resource is related to: Homophila is related to: Biomine is related to: MalaCards is related to: PhenoTips is related to: KOBAS is related to: Integrated Manually Extracted Annotation is related to: aGEM is related to: biomaRt has parent organization: Johns Hopkins University School of Medicine; Baltimore, Maryland; USA has parent organization: NCBI works with: Human Mouse Disease Connection works with: Database of genes related to Repeat Expansion Diseases |
Genetic disorder, Mendelian disorder, Developmental disorder | PMID:22477700 PMID:22470145 PMID:21472891 PMID:19728286 PMID:18842627 PMID:18428346 PMID:17642958 PMID:17357067 PMID:15608251 PMID:15360913 PMID:11752252 PMID:10845565 PMID:10612823 PMID:9805561 PMID:7937048 PMID:1867277 |
Restricted | nif-0000-03216, OMICS_00278 | http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim http://www.ncbi.nlm.nih.gov/Omim/ http://purl.bioontology.org/ontology/OMIM |
SCR_006437 | Online Mendelian Inheritance in Man, OMIM - Online Mendelian Inheritance in Man, MIM, The Online Mendelian Inheritance in Man Morbid Map | 2025-04-02 11:05:17 | 4819 | ||||
|
Bloomington Drosophila Stock Center Resource Report Resource Website 1000+ mentions |
Bloomington Drosophila Stock Center (RRID:SCR_006457) | BDSC | material resource, biomaterial supply resource, organism supplier | Collects, maintains and distributes Drosophila melanogaster strains for research. Emphasis is placed on genetic tools that are useful to a broad range of investigations. These include basic stocks of flies used in genetic analysis such as marker, balancer, mapping, and transposon-tagging strains; mutant alleles of identified genes, including a large set of transposable element insertion alleles; defined sets of deficiencies and a variety of other chromosomal aberrations; engineered lines for somatic and germline clonal analysis; GAL4 and UAS lines for targeted gene expression; enhancer trap and lacZ-reporter strains with defined expression patterns for marking tissues; and a collection of transposon-induced lethal mutations. | RIN, Resource Information Network, disease model, deficiency, deletion, transposon insertion, sequenced strain, duplication, protein trap, human disease model, transposon, fly, gene, genetic, genetic analysis, database, deficiency, germline, insertion, invertebrate, scientist, somatic, stock, transposon, mutation, genetic construct, FASEB list |
is used by: Integrated Animals is listed by: One Mind Biospecimen Bank Listing is listed by: Resource Information Network is related to: One Mind Biospecimen Bank Listing is related to: NIF Data Federation has parent organization: Indiana University; Indiana; USA |
Human disease model | NIH Office of the Director P40 OD018537 | Public | nif-0000-00241 | https://orip.nih.gov/comparative-medicine/programs/invertebrate-models | http://flystocks.bio.indiana.edu/bloomhome.htm | SCR_006457 | Bloomington Drosophila Stock Center at Indiana University | 2025-04-02 11:05:18 | 2317 | |||
|
Science Podcast Resource Report Resource Website |
Science Podcast (RRID:SCR_006453) | Science Podcast | narrative resource, podcast, data or information resource | The Science Podcast takes you on a tour of some interesting stories in the journal and online. * MP3 of this show * Transcript of this show * Subscribe to the Science Podcast RSS Feed |
is used by: NIF Data Federation is related to: Integrated Podcasts |
nlx_36122 | SCR_006453 | Science Podcasts | 2025-04-02 11:05:18 | 0 | |||||||||
|
Dictyostelium discoideum genome database Resource Report Resource Website 100+ mentions |
Dictyostelium discoideum genome database (RRID:SCR_006643) | dictyBase, dictyBase gene name, dictyBase REF, DictyBase | material resource, biomaterial supply resource, organism supplier | Model organism database for the social amoeba Dictyostelium discoideum that provides the biomedical research community with integrated, high quality data and tools for Dictyostelium discoideum and related species. dictyBase houses the complete genome sequence, ESTs, and the entire body of literature relevant to Dictyostelium. This information is curated to provide accurate gene models and functional annotations, with the goal of fully annotating the genome to provide a ''''reference genome'''' in the Amoebozoa clade. They highlight several new features in the present update: (i) new annotations; (ii) improved interface with web 2.0 functionality; (iii) the initial steps towards a genome portal for the Amoebozoa; (iv) ortholog display; and (v) the complete integration of the Dicty Stock Center with dictyBase. The Dicty Stock Center currently holds over 1500 strains targeting over 930 different genes. There are over 100 different distinct amoebozoan species. In addition, the collection contains nearly 600 plasmids and other materials such as antibodies and cDNA libraries. The strain collection includes: * strain catalog * natural isolates * MNNG chemical mutants * tester strains for parasexual genetics * auxotroph strains * null mutants * GFP-labeled strains for cell biology * plasmid catalog The Dicty Stock Center can accept Dictyostelium strains, plasmids, and other materials relevant for research using Dictyostelium such as antibodies and cDNA or genomic libraries. | genome, sequence, est, literature, gene model, functional annotation, reference genome, gene, antibody, cdna, bacteria, dictyostelium discoideum, dictyostelium purpureum, dictyostelium fasciculatum, polysphondylium pallidium, bio.tools |
is used by: NIF Data Federation is listed by: One Mind Biospecimen Bank Listing is listed by: OMICtools is listed by: bio.tools is listed by: Debian is related to: AmiGO is related to: Textpresso has parent organization: Northwestern University; Illinois; USA has parent organization: Baylor University; Texas; USA has parent organization: University of Cologne; Cologne; Germany is parent organization of: Dictyostelium Discoideum Anatomy Ontology is parent organization of: Dictyostelium Anatomy Ontology is parent organization of: dictyBase - Teaching Tools Using Dictyostelium discoideum |
NIGMS GM64426; NIGMS GM087371; NHGRI HG0022; European Union |
PMID:23172289 PMID:21087999 PMID:18974179 PMID:14681427 PMID:16381903 |
Free for academic use, Free for non-profit use, Shipping fee, For research use only | nif-0000-20974, biotools:dictybase, SCR_008149, nif-0000-02751, OMICS_03158 | https://bio.tools/dictybase | http://genome.imb-jena.de/dictyostelium/ | SCR_006643 | dictyBase gene name, dictyBase REF, Dicty, dictyBase, Dictyostelium discoideum | 2025-04-02 11:05:26 | 300 | |||
|
Integrated Datasets Resource Report Resource Website |
Integrated Datasets (RRID:SCR_010503) | catalog, database, data or information resource | A virtual database cataloging numerous data set resources, including: BrainMaps.org, Cell Centered Database, Clinical Trials Network (CTN) Data Share, ClinicalTrials.gov, CRCNS, Gene Expression Omnibus, ArrayExpress, MPD - Mouse Phenome Database, BioSharing, Gene Weaver, XNAT Central, 1000 Functional Connectomes Project, Health.Data.gov, SciCrunch Registry, NIF Registry Automated Crawl Data, NeuroVault, OpenfMRI, Physiobank, RanchoBiosciences, YPED, Data.gov Science, and Research Data Catalog. | data set, database, integrated, catalog, data set resource |
uses: BrainMaps.org uses: Cell Centered Database uses: NIDA Data Share uses: ClinicalTrials.gov uses: CRCNS uses: Gene Expression Omnibus uses: ArrayExpress uses: Mouse Phenome Database (MPD) uses: FAIRsharing uses: Gene Weaver uses: XNAT Central uses: 1000 Functional Connectomes Project uses: Health.Data.gov uses: SciCrunch Registry uses: NIF Registry Automated Crawl Data uses: NeuroVault uses: OpenNeuro uses: Physiobank uses: RanchoBiosciences uses: YPED uses: Data.gov Science and Research Data Catalog is used by: NIF Data Federation has parent organization: Omics Discovery Index has parent organization: Integrated has parent organization: SciCrunch |
Data are licensed by their respective owners. Use and distribution is subject to the Terms of Use by the original resource as well as the, Creative Commons Attribution License | nlx_158508 | https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-18 | SCR_010503 | Integrated Data sets, Integrated Catalog of Datasets | 2025-04-02 11:08:27 | 0 | |||||||
|
Genomes Unzipped Resource Report Resource Website |
Genomes Unzipped (RRID:SCR_006870) | Genomes Unzipped | data set, blog, data or information resource, software resource, narrative resource, source code | A group blog providing expert, independent commentary on the personal genomics industry. The goal of the project is to provide genetic testing consumers with independent and informed analysis of developments in the field of genetics and the genetic testing industry. Members of Genomes Unzipped include active researchers in various fields of genetics, as well as specialists in the legal and public health issues surrounding new genomic technologies. Many of us have also been extensively involved in public communication about genetics. Members of the group have had their DNA tested with a variety of products. We have released all of these genetic data openly to the public, both as raw data and in a custom genome browser. As the project proceeds we plan to obtain more genetic tests ����?? up to and including whole genome sequencing ����?? and to continue to release these data to the world. The group is also performing analyses of our own raw genetic data to illustrate fundamental concepts in genetics, using software written both by group members and other collaborators; and we����??ll be releasing the code for that software in our new code repository. As the project expands, we����??ll be looking to add data from other volunteers to the project, as well as to collaborate with other ����??genome hackers����?? on the development of new tools for exploring genetic data. | genomics, genetics, dna, sequencing |
is used by: NIF Data Federation is used by: Integrated Blogs is listed by: OMICtools |
Except where otherwise specified, Creative Commons Attribution-ShareAlike License, v3 Unported, Genomes Unzipped project genetic data, Is made available under, CC0 | OMICS_01831, nlx_144200 | SCR_006870 | 2025-04-02 11:05:36 | 0 | ||||||||
|
PeptideAtlas Resource Report Resource Website 100+ mentions |
PeptideAtlas (RRID:SCR_006783) | PeptideAtlas | database, data repository, data or information resource, service resource, storage service resource | Multi-organism, publicly accessible compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments. Mass spectrometer output files are collected for human, mouse, yeast, and several other organisms, and searched using the latest search engines and protein sequences. All results of sequence and spectral library searching are subsequently processed through the Trans Proteomic Pipeline to derive a probability of correct identification for all results in a uniform manner to insure a high quality database, along with false discovery rates at the whole atlas level. The raw data, search results, and full builds can be downloaded for other uses. All results of sequence searching are processed through PeptideProphet to derive a probability of correct identification for all results in a uniform manner ensuring a high quality database. All peptides are mapped to Ensembl and can be viewed as custom tracks on the Ensembl genome browser. The long term goal of the project is full annotation of eukaryotic genomes through a thorough validation of expressed proteins. The PeptideAtlas provides a method and a framework to accommodate proteome information coming from high-throughput proteomics technologies. The online database administers experimental data in the public domain. You are encouraged to contribute to the database. | proteomics, peptide, mass spectrometry, annotation, eukaryotic, genome, peptide sequence, high-throughput mass spectrometry, ensembl, peptideprophet, protein sequence, blood plasma, protein, eukaryotic cell, dna, bio.tools, FASEB list |
is used by: NIF Data Federation is used by: ProteomeXchange is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: Biositemaps is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: Ensembl is related to: ProteomeXchange is related to: NIH Data Sharing Repositories is related to: Integrated Manually Extracted Annotation has parent organization: Institute for Systems Biology; Washington; USA |
NCI ; NHGRI ; NIGMS |
PMID:20013378 PMID:23215161 PMID:16381952 PMID:15642101 |
Public, The community can contribute to this resource, Acknowledgement requested | nif-0000-03266, biotools:peptideatlas | https://bio.tools/peptideatlas | SCR_006783 | Peptide Atlas, PeptideAtlas | 2025-04-02 11:05:32 | 464 | ||||
|
American Journal of Psychiatry Podcasts Resource Report Resource Website 1+ mentions |
American Journal of Psychiatry Podcasts (RRID:SCR_007070) | AJP Podcasts | narrative resource, podcast, data or information resource | An audio summary of highlights and key articles from each issue of The American Journal of Psychiatry. Users may subscribe to the podcast to get automatic updates with each issue or download each issue''s audio file individually. | audio, psychiatry |
is used by: NIF Data Federation is related to: Integrated Podcasts |
nlx_39039 | http://ajp.psychiatryonline.org/misc/audio.dtl | SCR_007070 | AJP Audio podcast, The American Journal of Psychiatry Podcast, AJP Podcast, AJP Audio, American Journal of Psychiatry Podcast, American Journal of Psychiatry Audio Downloads | 2025-04-02 11:05:49 | 1 | |||||||
|
Neurodatabase.org Resource Report Resource Website 1+ mentions |
Neurodatabase.org (RRID:SCR_007091) | database, data repository, data or information resource, service resource, storage service resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on June 09, 2015. A repository of neurophysiology data conforming to BrainML data models and protocols: BrainML-formatted experimental data submissions are published in searchable, browsable form. Registered users may submit new experiments. The site contains spike trains, voltage time series, and some derived histograms from single cell and multi-unit activity. The database focuses on in vivo somatosensory and visual activity during task performance. This resource contains only a few datasets, but they are of high quality and have been used for reanalysis by several parties. There are three primary interfaces for querying data from this repository: a web-based browse interface, a web-based HTML query form, and a Java web start desktop application. In addition, there is an XML interface useful for direct access by software clients. To download the source code, please read and acknowledge the license agreement. | neurophysiology, source code, spike train, voltage time series, histogram, single cell, multi-unit, in vivo, somatosensory, visual, task, data set |
uses: BrainML is used by: NIF Data Federation has parent organization: Weill Cornell Medical College; New York; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00001 | http://neurodatabase.org/dataserver/goto.do?page=.home | SCR_007091 | Neurodatabase.org: Laboratory of Neuroinformatics Weill Medical College, Neurodatabase, neurodatabase.org Laboratory of Neuroinformatics Weill Medical College of Cornell University, LNI: neurodatabase.org | 2025-04-02 11:05:50 | 6 | |||||||
|
GWAS: Catalog of Published Genome-Wide Association Studies Resource Report Resource Website 500+ mentions |
GWAS: Catalog of Published Genome-Wide Association Studies (RRID:SCR_012745) | GWASC | catalog, database, data or information resource | Catalog of published genome-wide association studies. Genome-wide set of genetic variants in different individuals to see if any variant is associated with trait and disease. Database of genome-wide association study (GWAS) publications including only those attempting to assay single nucleotide polymorphisms (SNPs). Publications are organized from most to least recent date of publication. Studies are identified through weekly PubMed literature searches, daily NIH-distributed compilations of news and media reports, and occasional comparisons with an existing database of GWAS literature (HuGE Navigator). Works with HANCESTRO ancestry representation. | gene-wide association study, adult, genome, genome-wide association study, single nucleotide polymorphism, publication, literature, phenotype, trait, disease, loci, genetic variant, disorder, snp trait association |
is used by: NIF Data Federation is used by: Schizo-Pi is related to: PheWAS Catalog is related to: Psychiatric Genomics Consortium is related to: KOBAS has parent organization: National Human Genome Research Institute |
NHGRI U41 HG007823; BBSRC ; NHGRI U24 HG012542 |
PMID:19474294 | Free, Freely available | nif-0000-06666 | http://www.genome.gov/gwastudies | SCR_012745 | A Catalog of Published Genome-Wide Association Studies, Catalog of Published GWAS, Catalog of published GWAS studies, NHGRI GWAS Catalog, Catalog of Published Genome-Wide Association Studies, GWAS and PGS Catalogs | 2025-04-02 11:09:29 | 833 | ||||
|
Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) Resource Report Resource Website 5000+ mentions |
Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) (RRID:SCR_012820) | RCSB PDB | database, data repository, data or information resource, service resource, storage service resource | Collection of structural data of biological macromolecules. Database of information about 3D structures of large biological molecules, including proteins and nucleic acids. Users can perform queries on data and analyze and visualize results. | 3-dimensional, annotation, molecule, nucleic acid, protein, visualization, sequence, function, macromolecule, ligand, model, dna, x-ray crystallography, ribosome, structure, oncogene, nucleic acids, molecular structure, cryomicroscopy, gold standard, FASEB list |
is used by: Structural Genomics Consortium is used by: Ligand Expo is used by: DARC - Database for Aligned Ribosomal Complexes is used by: FireDB is used by: Protein Data Bank Bind Database is used by: Protein Data Bank Site is used by: NIF Data Federation is used by: ChannelPedia is used by: MobiDB is used by: BALBES is used by: Structural Antibody Database is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is affiliated with: EMDataResource.org is related to: pdb-data is related to: PDB2MultiGif is related to: GlyProt is related to: pdb-care is related to: pdb2linucs is related to: GlyVicinity is related to: GlyTorsion is related to: GlySeq is related to: AffinDB is related to: StatAlign is related to: Community Structure-Activity Resource is related to: Binding MOAD is related to: ConSurf Database is related to: glycosciences.de is related to: DOMINE: Database of Protein Interactions is related to: Jenalib: Jena Library of Biological Macromolecules is related to: SynSysNet is related to: EMDataResource.org is related to: PDBe - Protein Data Bank in Europe is related to: TFinDIT is related to: HOLLOW is related to: ccPDB - Compilation and Creation of datasets from PDB is related to: DOMMINO - Database Of MacroMolecular INteractiOns is related to: InterEvol database is related to: Polbase is related to: PoSSuM is related to: ProtChemSI is related to: RNA CoSSMos is related to: PDBsum is related to: Worldwide Protein Data Bank (wwPDB) is related to: canSAR is related to: CAPS Database is related to: Dockground: Benchmarks, Docoys, Templates, and other knowledge resources for DOCKING is related to: Combinatorial Extension (CE) is related to: Metalloprotein Site Database is related to: PDBj - Protein Data Bank Japan is related to: Statistical Torsional Angles Potentials of NMR Refinement Database is related to: Metalloprotein Ligand Interaction Database is related to: CARP is related to: PDBTM is related to: RNA FRABASE - RNA FRAgments search engine and dataBASE is related to: AmiGO is related to: ConsensusPathDB is related to: Biological Magnetic Resonance Data Bank (BMRB) is related to: DNA DataBank of Japan (DDBJ) is related to: FlyMine is related to: NCBI Protein Database is related to: NCBI Nucleotide is related to: FunTree is related to: IndelFR - Indel Flanking Region Database is related to: NMR Restraints Grid is related to: Enzyme Structures Database is related to: Electron Microscopy Data Bank at PDBe (MSD-EBI) is related to: Worldwide Protein Data Bank (wwPDB) is related to: DNA DataBank of Japan (DDBJ) is related to: PDBe - Protein Data Bank in Europe is related to: MINAS - Metal Ions in Nucleic AcidS is related to: PDBj - Protein Data Bank Japan has parent organization: University of California at San Diego; California; USA has parent organization: Rutgers University; New Jersey; USA is parent organization of: RCSB PDB Software Tools is parent organization of: Protein Data Bank Markup Language is parent organization of: Ligand Expo works with: CellPhoneDB |
NIH ; DOE ; NSF DBI-1338415 |
PMID:12037327 | Public, Acknowledgement requested | nif-0000-00135, SCR_017379 | http://www.rcsb.org http://www.pdb.org |
http://www.rcsb.org/pdb/ | SCR_012820 | RCSB, Research Collaboratory for Structural Bioinformatics Protein Data Bank, The Protein Data Bank, PDB, Protein Databank, RCSB Protein Data Bank, Protein Data Bank | 2025-04-02 11:09:34 | 7731 | |||
|
USC Multimodal Connectivity Database Resource Report Resource Website 10+ mentions |
USC Multimodal Connectivity Database (RRID:SCR_012809) | UMCD | database, data repository, data or information resource, service resource, storage service resource | Web-based repository and analysis site for connectivity matrices that have been derived from neuroimaging data including different imaging modalities, subject groups, and studies. Users can analyze connectivity matrices that have been shared publicly and upload their own matrices to share or analyze privately. | fmri, dti, dsi, mri, eeg, meg, data set, image, computational hosting, connectivity, neuroimaging, data sharing, brain, rendering, diffusion-weighted mri, functional connectivity, graph theory, resting-state fmri, structural connectivity, image display, magnetic resonance, python, rendering, visualization, connectivity matrix, network, brain network, matrix, de-identified, male, female, apoe, child, adult |
is used by: NIF Data Federation is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: MGH-USC Human Connectome Project |
Normal, Lesioned, Attention deficit-hyperactivity disorder, Autism Spectrum Disorder, Obsessive-Compulsive Disorder, BDD, APOE 4/4, APOE 3/4, APOE 3/3, Alzheimer's disease | NRSA ; NIH Blueprint for Neuroscience Research ; NIA F31AG035438-01; NIDA HHSN271200800035C |
PMID:23226127 PMID:20850551 |
The community can contribute to this resource, Some features require an account | nlx_83091 | http://www.nitrc.org/projects/umcd | http://jessebrown.webfactional.com/welcome/default/index | SCR_012809 | UCLA Connectivity Database, UCLA Multimodal Connectivity Database: Web-based brain network analysis and data sharing, UCLA Multimodal Connectivity Database | 2025-04-02 11:09:33 | 24 | ||
|
KEGG Resource Report Resource Website 10000+ mentions |
KEGG (RRID:SCR_012773) | KEGG | analysis service resource, production service resource, topical portal, portal, database, data access protocol, data analysis service, service resource, data or information resource, web service, software resource | Integrated database resource consisting of 16 main databases, broadly categorized into systems information, genomic information, and chemical information. In particular, gene catalogs in completely sequenced genomes are linked to higher-level systemic functions of cell, organism, and ecosystem. Analysis tools are also available. KEGG may be used as reference knowledge base for biological interpretation of large-scale datasets generated by sequencing and other high-throughput experimental technologies. | model, pathway, functional hierarchy, module, cancer, disease, drug, drug classification, orthology, ortholog, genome, gene, protein, compound, classification, biochemical reaction, pathway, ligand, biosynthesis, pathway prediction, sequence, chemical structure, human, enzyme, database, molecular interaction, metabolism, metabolomics, cellular process, structure, drug development, reaction, cell |
is used by: NIF Data Federation is used by: Arabidopsis Reactome is used by: LIPID MAPS Proteome Database is used by: globaltest is used by: MitoMiner is used by: Database for Annotation Visualization and Integrated Discovery is used by: Biochemical Pathways Reaction Kinetics Database is used by: Ultimate Rough Aggregation of Metabolic Map is used by: GEMINI is used by: In vivo - In silico Metabolite Database is listed by: 3DVC is listed by: OMICtools is affiliated with: Kyoto Encyclopedia of Genes and Genomes Expression Database is related to: PathCase Pathways Database System is related to: ExplorEnz is related to: NCBI BioSystems Database is related to: Allen Institute Neurowiki is related to: eQuilibrator is related to: GeneTrail is related to: KegTools is related to: PRODORIC is related to: hiPathDB - human integrated Pathway DB with facile visualization is related to: METLIN is related to: Kidney and Urinary Pathway Knowledge Base is related to: DAVID is related to: ConsensusPathDB is related to: ENZYME is related to: FlyMine is related to: Babelomics is related to: SynSysNet is related to: Cotton EST Database is related to: Integrated Molecular Interaction Database is related to: SEGS is related to: INMEX is related to: BioExtract is related to: ClueGO is related to: MalaCards is related to: TrED is related to: FunTree is related to: MOPED - Model Organism Protein Expression Database is related to: ProOpDB is related to: KOBAS is related to: GeneTerm Linker is related to: WebGestalt: WEB-based GEne SeT AnaLysis Toolkit is related to: GeneCodis is related to: FunNet - Transcriptional Networks Analysis is related to: LegumeIP is related to: Algal Functional Annotation Tool is related to: aGEM is related to: DINIES is related to: KEGG PATHWAY Database is related to: ShinyGO has parent organization: Kyoto University; Kyoto; Japan has parent organization: University of Tokyo; Tokyo; Japan is parent organization of: KegTools works with: DIANA-mirPath works with: MiMeDB |
Japanese Ministry of Education Culture Sports Science and Technology MEXT ; Japan Science and Technology Agency |
PMID:22700311 PMID:22130871 PMID:22080510 PMID:19880382 PMID:19172790 PMID:18428742 PMID:18287706 PMID:18077471 PMID:16381885 PMID:16014746 PMID:14681412 PMID:12539951 PMID:11752249 PMID:10928937 PMID:10592173 PMID:9847135 |
Restricted | nlx_31015, OMICS_01583, OMICS_03010, OMICS_01582, OMICS_03974, OMICS_05434, OMICS_05360 | http://www.genome.jp/kegg/ | SCR_012773 | KEGG - Kyoto Encyclopedia of Genes and Genomes, Kyoto Encyclopedia of Genes and Genomes | 2025-04-02 11:09:31 | 64192 | ||||
|
BrainSpan Resource Report Resource Website |
BrainSpan (RRID:SCR_004219) | expression atlas, atlas, data or information resource | Atlas of developing human brain for studying transcriptional mechanisms involved in human brain development. One of the BrainSpan datasets, Exon microarray summarized to genes, is presented. It is a downloadable archive of files containing normalized RNA-Seq expression values for analysis. | brain, development, brain development, exon, microarray, gene, rna-seq, expression value, expression |
is used by: NIF Data Federation has parent organization: Allen Human Brain Atlas: BrainSpan (Atlas of the Developing Brain) |
Free, Freely available | nlx_98194, nlx_86215, SCR_004877, SCR_005029, SCR_004344, nlx_37081, nlx_2397 | http://brainspan.org/rnaseq/downloads.html?format=html http://brainspan.org/docs.html |
http://brainspan.org/docs.html | SCR_004219 | BrainSpan: RNA-Seq exons, BrainSpan - Exon microarray summarized to genes | 2025-04-02 11:03:20 | 0 | ||||||
|
Royal College of Psychiatrists Podcasts Resource Report Resource Website |
Royal College of Psychiatrists Podcasts (RRID:SCR_003913) | RC PSYCH Podcasts | narrative resource, podcast, data or information resource | Each month our podcast team will be broadcasting the very latest breakthroughs and discoveries in neurosciences, psychiatry and psychology. | neuroscience, psychiatry, psychology |
is used by: NIF Data Federation is related to: Integrated Podcasts |
For personal, Non-commercial use | nlx_15826 | SCR_003913 | LetWisdomGuide, Let Wisdom Guide | 2025-04-02 11:03:09 | 0 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
