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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
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Open Access Series of Imaging Studies Resource Report Resource Website 100+ mentions |
Open Access Series of Imaging Studies (RRID:SCR_007385) | OASIS | data or information resource, database | Project aimed at making neuroimaging data sets of brain freely available to scientific community. By compiling and freely distributing neuroimaging data sets, future discoveries in basic and clinical neuroscience are facilitated. | early, stage, alzheimer, disease, mri, fmri, image, brain, dicom, magnetic, resonance, collection, data, FASEB list |
is used by: NIF Data Federation is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Automatic Registration Toolbox is related to: 2012 MICCAI Multi-Atlas Labeling Challenge Data has parent organization: Howard Hughes Medical Institute has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA has parent organization: Biomedical Informatics Research Network is parent organization of: Cover Pages |
Alzheimer's disease, Dementia, Normal, Nondemented, Aging | NCRR U24 RR021382; NIA P01 AG03991; NIA P50 AG05681; NIA R01 AG021910; NIMH P50 MH071616; NIMH R01 MH56584 |
Free, Acknowledgement required | r3d100012182, nif-0000-00387 | http://www.nitrc.org/projects/oasis, https://doi.org/10.17616/R3RS8K | SCR_007385 | SciCrunch Registry | The Open Access Series of Imaging Studies, Open Access Series of Imaging Studies, OASIS | 2026-10-31 12:20:24 | 357 | ||||
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Olfactory Bulb Odor Map DataBase (OdorMapDB) Resource Report Resource Website |
Olfactory Bulb Odor Map DataBase (OdorMapDB) (RRID:SCR_007287) | OdorMapDB | atlas, data or information resource, database | OdorMapDB is designed to be a database to support the experimental analysis of the molecular and functional organization of the olfactory bulb and its basis for the perception of smell. It is primarily concerned with archiving, searching and analyzing maps of the olfactory bulb generated by different methods. The first aim is to facilitate comparison of activity patterns elicited by odor stimulation in the glomerular layer obtained by different methods in different species. It is further aimed at facilitating comparison of these maps with molecular maps of the projections of olfactory receptor neuron subsets to different glomeruli, especially for gene targeted animals and for antibody staining. The main maps archived here are based on original studies using 2-deoxyglucose and on current studies using high resolution fMRI in mouse and rat. Links are also provided to sites containing maps by other laboratories. OdorMapDB thus serves as a nodal point in a multilaboratory effort to construct consensus maps integrating data from different methodological approaches. OdorMapDB is integrated with two other databases in SenseLab: ORDB, a database of olfactory receptor genes and proteins, and OdorDB, a database of odor molecules that serve as ligands for the olfactory receptor proteins. The combined use of the three integrated databases allows the user to identify odor ligands that activate olfactory receptors that project to specific glomeruli that are involved in generating the odor activity maps. | odor, male, urine, mouse, methyl anisole, patchone, indole, helional, butyrophenone, fenchone, olfactory bulb, fmri, rat, odor ligand, olfactory receptor, smell |
is used by: NIF Data Federation has parent organization: Yale University; Connecticut; USA |
Aging | The Human Brain Project ; NIMH ; NIA ; NICD ; NINDS ; Multidisciplinary University Research Initiative ; NIDCD RO1 DC 009977 |
PMID:15067166 | nif-0000-00057 | SCR_007287 | SciCrunch Registry | OdorMap DB, Odor Map Database | 2026-10-31 12:20:24 | 0 | |||||
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Gemma Resource Report Resource Website 1000+ mentions |
Gemma (RRID:SCR_008007) | Gemma | data or information resource, database | Resource for reuse, sharing and meta-analysis of expression profiling data. Database and set of tools for meta analysis, reuse and sharing of genomics data. Targeted at analysis of gene expression profiles. Users can search, access and visualize coexpression and differential expression results. | chip, microarray, functional genomics, gene expression, coexpression, differential expression, FASEB list |
is used by: NIF Data Federation is used by: Integrated Data Annotation is listed by: Debian is listed by: SoftCite is related to: Gene Ontology is related to: Gene Expression Omnibus is related to: Phenocarta has parent organization: University of British Columbia; British Columbia; Canada is parent organization of: Neurocarta |
Canadian Foundation for Innovation ; Canadian Institutes for Health Research ; Michael Smith Foundation for Health Research ; NIGMS GM076990 |
PMID:22782548 | Free, Freely available | nif-0000-08127, r3d100012747 | https://sources.debian.org/src/gemma/, https://doi.org/10.17616/R36R54, https://doi.org/10.17616/R36R54 | SCR_008007 | SciCrunch Registry | 2026-10-31 12:20:29 | 1145 | |||||
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NeuroMab Resource Report Resource Website 1000+ mentions |
NeuroMab (RRID:SCR_003086) | NeuroMab | data or information resource, organization portal, portal | A national mouse monoclonal antibody generating resource for biochemical and immunohistochemical applications in mammalian brain. NeuroMabs are generated from mice immunized with synthetic and recombinant immunogens corresponding to components of the neuronal proteome as predicted from genomic and other large-scale cloning efforts. Comprehensive biochemical and immunohistochemical analyses of human, primate and non-primate mammalian brain are incorporated into the initial NeuroMab screening procedure. This yields a subset of mouse mAbs that are optimized for use in brain (i.e. NeuroMabs): for immunocytochemical-based imaging studies of protein localization in adult, developing and pathological brain samples, for biochemical analyses of subunit composition and post-translational modifications of native brain proteins, and for proteomic analyses of native brain protein networks. The NeuroMab facility was initially funded with a five-year U24 cooperative grant from NINDS and NIMH. The initial goal of the facility for this funding period is to generate a library of novel NeuroMabs against neuronal proteins, initially focusing on membrane proteins (receptors/channels/transporters), synaptic proteins, other neuronal signaling molecules, and proteins with established links to disease states. The scope of the facility was expanded with supplements from the NIH Blueprint for Neuroscience Research to include neurodevelopmental targets, the NIH Roadmap for Medical Research to include epigenetics targets, and NIH Office of Rare Diseases Research to include rare disease targets. These NeuroMabs will then be produced on a large scale and made available to the neuroscience research community on an inexpensive basis as tissue culture supernatants or purified immunoglobulin by Antibodies Inc. The UC Davis/NIH NeuroMab Facility makes NeuroMabs available directly to end users and is unable to accommodate sales to distributors for third party distribution. Note, NeuroMab antibodies are now offered through antibodiesinc. | antibody, brain, channel, disease-related protein, k channel subunit, mab, mammalian, membrane protein, monoclonal antibody, mouse, neuronal monoclonal antibody, neuronal protein, neuronal signaling molecule, reagent, receptor, research reagent, synaptic protein, transporter |
is used by: NIF Data Federation is listed by: OMICtools has parent organization: University of California at Davis; California; USA |
NINDS ; NIMH ; NIH Blueprint for Neuroscience Research ; NIH Roadmap for Medical Research ; Office of Rare Diseases Research ; Antibodies Inc. |
Free, Freely available | grid.482686.6, nif-0000-00175 | https://ror.org/00fyrp007 | SCR_003086 | SciCrunch Registry | UCDavis/NIH NeuroMab Facility, antibodies.inc, antibodiesinc.com, antibodiesinc | 2026-10-31 12:19:07 | 1859 | |||||
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NIGMS Human Genetic Cell Repository Resource Report Resource Website 1+ mentions |
NIGMS Human Genetic Cell Repository (RRID:SCR_004517) | NIGMS Repository | biomaterial supply resource, cell repository, material resource | Highly characterized cell lines and high quality DNA for cell and genetic research representing a variety of disease states, chromosomal abnormalities, apparently healthy individuals and many distinct human populations. The NIGMS Repository contains more than 10,600 cell lines, primarily fibroblasts and transformed lymphoblasts, and over 5,500 DNA samples. The NIGMS Repository has a major emphasis on heritable diseases and chromosomally aberrant cell lines. In addition, it contains a large collection dedicated to understanding human variation that includes samples from populations around the world, the CEPH collection, the Polymorphism Discovery Resource, and many apparently healthy controls. Human induced pluripotent stem cell lines, many of which were derived from NIGMS Repository fibroblasts, have recently become available through the NIGMS Repository. Sample donation facilitates all areas of research by making available well-characterized materials to any qualified researcher who might have otherwise been unable to invest the time and resources to collect needed samples independently. Donations to the Repository have created a resource of unparalleled scope. Samples from the collection have been used in more than 5,500 publications and are distributed to scientists in more than 50 countries. This resource is continuously expanding to support new directions in human genetics. | cell, gene, cell line, dna, fibroblast, transformed lymphoblast, lymphoblast, induced pluripotent stem cell line, chromosomal abnormality, healthy, single-gene disorder, complex polygenic disorder, multifactorial birth defect, unaffected first-degree relatives of individuals with genetic disease, heritable disease, genetic disease, human variation, control, clinical data, blood |
is used by: NIF Data Federation is listed by: One Mind Biospecimen Bank Listing is related to: Integrated Cell Lines has parent organization: Coriell Cell Repositories |
Chromosomal abnormality, Healthy, Single-gene disorder, Complex polygenic disorder, Multifactorial birth defect, Unaffected first-degree relatives of individuals with genetic disease, Heritable disease, Genetic disease, Control | NIGMS ; NIH Blueprint for Neuroscience Research |
Public / non-commercial: Cell cultures and DNA samples are distributed only to qualified professional persons who are associated with recognized research, Medical, Educational, Or industrial organizations engaged in biomedical research with Statement of Research Intent and a MTA. Samples obtained from the Repository, And material derived from the samples, May not be used for commercial purposes, Although knowledge gained from their use may be used. | nlx_143798 | SCR_004517 | SciCrunch Registry | Human Genetic Cell Repository | 2026-10-31 12:19:09 | 4 | |||||
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Beta Cell Biology Consortium Resource Report Resource Website 50+ mentions |
Beta Cell Biology Consortium (RRID:SCR_005136) | BCBC | biomaterial supply resource, cell repository, material resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented May 10, 2017. A pilot effort that has developed a centralized, web-based biospecimen locator that presents biospecimens collected and stored at participating Arizona hospitals and biospecimen banks, which are available for acquisition and use by researchers. Researchers may use this site to browse, search and request biospecimens to use in qualified studies. The development of the ABL was guided by the Arizona Biospecimen Consortium (ABC), a consortium of hospitals and medical centers in the Phoenix area, and is now being piloted by this Consortium under the direction of ABRC. You may browse by type (cells, fluid, molecular, tissue) or disease. Common data elements decided by the ABC Standards Committee, based on data elements on the National Cancer Institute''s (NCI''s) Common Biorepository Model (CBM), are displayed. These describe the minimum set of data elements that the NCI determined were most important for a researcher to see about a biospecimen. The ABL currently does not display information on whether or not clinical data is available to accompany the biospecimens. However, a requester has the ability to solicit clinical data in the request. Once a request is approved, the biospecimen provider will contact the requester to discuss the request (and the requester''s questions) before finalizing the invoice and shipment. The ABL is available to the public to browse. In order to request biospecimens from the ABL, the researcher will be required to submit the requested required information. Upon submission of the information, shipment of the requested biospecimen(s) will be dependent on the scientific and institutional review approval. Account required. Registration is open to everyone., documented on August 1, 2015. Consortium that aims to facilitate interdisciplinary collaborations to advance the understanding of pancreatic islet development and function, with the goal of developing innovative therapies to correct the loss of beta cell mass in diabetes, including cell reprogramming, regeneration and replacement. They are responsible for collaboratively generating the necessary reagents, mouse strains, antibodies, assays, protocols, technologies and validation assays that are beyond the scope of any single research effort. The scientific goals for the BCBC are to: * Use cues from pancreatic development to directly differentiate pancreatic beta cells and islets from stem / progenitor cells for use in cell-replacement therapies for diabetes, * Determine how to stimulate beta cell regeneration in the adult pancreas as a basis for improving beta cell mass in diabetic patients, * Determine how to reprogram progenitor / adult cells into pancreatic beta-cells both in-vitro and in-vivo as a mean for developing cell-replacement therapies for diabetes, and * Investigate the progression of human type-1 diabetes using patient-derived cells and tissues transplanted in humanized mouse models. Many of the BCBC investigator-initiated projects involve reagent-generating activities that will benefit the larger scientific community. The combination of programs and activities should accelerate the pace of major new discoveries and progress within the field of beta cell biology. | RIN, Resource Information Network, pancreatic islet, mouse, beta cell, pancreas, pancreatic development, embryonic stem cell, cell line, genomics, antibody, adenovirus, functional genomics, mouse embryonic stem cell line, mouse strain, protocol, embryonic stem cell line, data sharing, data set, gene expression, gene, pancreatic islet development, pancreatic islet function, basic science, basic research, cell reprogramming, cell regeneration, cell replacement, RRID Community Authority |
is used by: NIF Data Federation is used by: Integrated Animals is used by: NIDDK Information Network (dkNET) is listed by: One Mind Biospecimen Bank Listing is listed by: re3data.org is listed by: Consortia-pedia is listed by: NIDDK Information Network (dkNET) is listed by: NIDDK Research Resources is listed by: Resource Information Network is related to: dkCOIN is related to: Karolinska Institute; Stockholm; Sweden is related to: University of California at Los Angeles; California; USA is related to: Stanford University; Stanford; California is related to: University of Massachusetts Medical School; Massachusetts; USA is related to: Hebrew University Hadassah Medical School; Jerusalem; Israel is related to: Philipps-University Marburg; Marburg; Germany is related to: Imperial College London; London; United Kingdom is related to: Childrens Hospital of Philadelphia - Research Institute; Pennsylvania; USA is related to: Icahn School of Medicine at Mount Sinai; New York; USA is related to: University of California at San Francisco; California; USA is related to: Massachusetts Institute of Technology; Massachusetts; USA; is related to: Hadassah Medical Center; Jerusalem; Israel is related to: DanStem is related to: Oregon Health and Science University; Oregon; USA is related to: Vanderbilt University; Tennessee; USA is related to: University of Chicago; Illinois; USA is related to: University of Massachusetts; Massachusetts; USA is related to: University of Colorado Boulder; Colorado; USA is related to: Vrije Universiteit Brussel; Brussels; Belgium is related to: University of Geneva; Geneva; Switzerland is related to: University of Pennsylvania Perelman School of Medicine; Pennsylvania; USA is related to: McEwen Centre for Regenerative Medicine is related to: Seattle Childrens Research Institute; Washington; USA is related to: Columbia University; New York; USA is related to: University of Texas Southwestern Medical Center; Texas; USA is related to: Hagedorn Research Institute; Gentofte; Denmark is related to: Howard Hughes Medical Institute is related to: Northwestern University; Illinois; USA is related to: CAMRD is related to: French National Center for Scientific Research is related to: University of California at San Diego; California; USA is related to: University of Pittsburgh; Pennsylvania; USA is related to: University of Copenhagen; Copenhagen; Denmark is related to: Jackson Laboratory is related to: Max Planck Institute for Heart and Lung Research; Bad Nauheim; Germany is related to: Indiana University; Indiana; USA is related to: University of Toronto; Ontario; Canada is related to: Harvard University; Cambridge; United States is related to: Harvard Medical School; Massachusetts; USA is related to: Integrated Manually Extracted Annotation has parent organization: Vanderbilt University; Tennessee; USA is parent organization of: Beta Cell Genomics Ontology |
Type 1 diabetes, Diabetes | NIDDK DK-01-014; NIDDK DK-01-17; NIDDK DK-01-18; NIDDK DK-09-011 |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144143 | SCR_005136 | SciCrunch Registry | 2026-10-31 12:19:10 | 60 | ||||||
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Orphanet Resource Report Resource Website 100+ mentions |
Orphanet (RRID:SCR_006628) | Orphanet | data or information resource, portal | European website providing information about orphan drugs and rare diseases. It contains content both for physicians and for patients. Reference portal for rare diseases and orphan drugs to help improve diagnosis, care and treatment of patients with rare diseases. | drug, clinical, diagnostic, test, rare, disease, molecule, gene, orphan, drug |
is used by: NIF Data Federation is used by: HmtPhenome is listed by: OMICtools is related to: Disease core ontology applied to Rare Diseases is related to: phenomeNET has parent organization: National Institute of Health and Medical Research; Rennes; France is parent organization of: Orphanet Rare Disease Ontology |
European Union ; French Directorate General for Health ; National Institute of Health and Medical Research ; Rennes ; France |
Free, Freely available | nif-0000-21306, grid.458406.b, Wikidata: Q1515833 | https://ror.org/03d3kf570 | SCR_006628 | SciCrunch Registry | 2026-10-31 12:19:11 | 474 | ||||||
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Human Brain Atlas Resource Report Resource Website 1+ mentions |
Human Brain Atlas (RRID:SCR_006131) | Human Brain Atlas | atlas, data or information resource, video resource | A labeled three-dimensional atlas of the human brain created from MRI images. In conjunction are presented anatomically labeled stained sections that correspond to the three-dimensional MRI images. The stained sections are from a different brain than the one which was scanned for the MRI images. Also available the major anatomical features of the human hypothalamus, axial sections stained for cell bodies or for nerve fibers, at six rostro-caudal levels of the human brain stem; images and Quicktime movies. The MRI subject was a 22-year-old adult male. Differing techniques used to study the anatomy of the human brain all have their advantages and disadvantages. Magnetic resonance imaging (MRI) allows for the three-dimensional viewing of the brain and structures, precise spatial relationships and some differentiation between types of tissue, however, the image resolution is somewhat limited. Stained sections, on the other hand, offer excellent resolution and the ability to see individual nuclei (cell stain) or fiber tracts (myelin stain), however, there are often spatial distortions inherent in the staining process. The nomenclature used is from Paxinos G, and Watson C. 1998. The Rat Brain in Stereotaxic Coordinates, 4th ed. Academic Press. San Diego, CA. 256 pp | human, adult, mri, fiber stain, anatomy, normal, neuroanatomy, nissl stain, image, brainstem, cell body, nerve fiber, brain, coronal, sagittal, horizontal, 3d model, montage, weil, hypothalamus |
is used by: NIF Data Federation has parent organization: Michigan State University; Michigan; USA |
NSF IBN 0131267; NSF 0131826; NSF 0131028 |
Copyrighted, Public, Request that you secure their permission, Acknowledgement required | nif-0000-00088 | SCR_006131 | SciCrunch Registry | MSU Brain Biodiversity Bank - Human Brain Atlas, Michigan State University Brain Biodiversity Bank - Human Brain Atlas | 2026-10-31 12:19:10 | 3 | ||||||
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NIMH Chemical Synthesis and Drug Supply Program Resource Report Resource Website 1+ mentions |
NIMH Chemical Synthesis and Drug Supply Program (RRID:SCR_004921) | NIMH CSDSP, CSDSP | material resource, reagent supplier | A program that synthesizes, purifies, and distributes otherwise unavailable essential compounds to stimulate basic and clinical research in psychopharmacology relevant to mental health in areas such as the molecular pharmacology and signaling of CNS receptors, longitudinal studies to evaluate the molecular, biochemical, and behavioral actions of psychoactive compounds, and functional brain imaging in both primates and humans. WHAT IS AVAILABLE: * Ligands for CNS receptors, radiolabeled compounds for autoradiography and neuroimaging, biochemical markers, drug analogs and metabolites, and reference standards * Synthesis (including GMP) of promising compounds for mental health research, including preclinical toxicology and safety studies, especially compounds for PET neuroimaging * A listing of currently available NIMH CSDSP compounds is available online at www.nimh-repository.rti.org. RTI International scientists can provide investigators with technical assistance and additional information about the compounds on request. Data sheets containing purity, storage, and handling information are supplied with all NIMH CSDSP compounds. WHO IS ELIGIBLE: Investigators involved in basic or clinical research relevant to mental health are eligible to submit requests. To learn more about current NIMH research areas, please visit the NIMH website at www.nimh.nih.gov. NIMH CSDSP compounds are free to qualified academic investigators, but payment may be required from nonacademic requestors. Investigators interested in obtaining radiolabeled compounds but uncertain about what type of label or specific activity would work best for them may obtain help by communicating with the technical contacts listed on the website. | contrast agent, catalog, compound, radiolabeled compound, ligand, autoradiography, neuroimaging, biochemical marker, drug, analog, metabolite, reference standard, mental health, pet, toxicology, basic research, clinical research, clinical, research |
is used by: NIF Data Federation has parent organization: RTI International |
NIMH | Investigators involved in basic or clinical research relevant to mental health are eligible to submit requests. Compounds are, Free to qualified academic investigators, But payment may be required from nonacademic requestors. Repository compounds are offered only for research and development purposes. | nif-0000-00234 | SCR_004921 | SciCrunch Registry | NIMH Chemical Synthesis Drug Supply Program | 2026-10-31 12:19:09 | 5 | ||||||
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Labome Resource Report Resource Website 1+ mentions |
Labome (RRID:SCR_007384) | material resource, reagent supplier | Database of hundreds of thousands of products submitted by reagent provider partners, and millions of webpages selected from reagent suppliers. All are organized according to genes, species, and reagent types (antibodies, recombinant proteins, ELISA, siRNA, cDNA clones, biochemicals, and others). | antibody, reagent, protein, peptide, elisa, cdna clone, microrna, biochemical, database | is used by: NIF Data Federation | nif-0000-00384 | SCR_007384 | SciCrunch Registry | Labome.com, ExactAntigen / Labome, ExactAntigen, ExactAntigen.com | 2026-10-31 12:19:12 | 2 | |||||||||
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F1000 Posters Resource Report Resource Website 1+ mentions |
F1000 Posters (RRID:SCR_006503) | F1000 Posters, F1000Posters | data or information resource, narrative resource, service resource, storage service resource | An open access repository of conference posters from across the life sciences and medicine. It provides a permanent, structured environment for the deposition of posters as well as a trustworthy venue for ongoing discussion and development of the information being presented. You can browse posters by Topic or Section or by conference. Please note that most posters on this site present work that is preliminary in nature and has not been peer reviewed. The most interesting posters are selected for evaluation by our expert Faculty and you will receive ideas and feedback. Widen your audience ����?? top performing posters receive 800+ views in a month! | poster, slide |
is used by: NIF Data Federation has parent organization: F1000: Faculty of 1000 Post-Publication Peer Review |
Creative Commons Attribution-NonCommercial License | nlx_20701 | http://posters.f1000.com/, http://posters.f1000.com/posters | SCR_006503 | SciCrunch Registry | Faculty of 1000 Posters, F1000 Posters: The Open Poster Repository for Biology and Medicine | 2026-10-31 12:18:30 | 1 | ||||||
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Science Careers Resource Report Resource Website |
Science Careers (RRID:SCR_005156) | Science Careers | data or information resource, job resource, narrative resource | The journal Science is one of the most prestigious and widely cited scientific journals in the world. Founded by Thomas Edison in 1880, Science has been publishing breaking news and seminal research for more than 125 years. Science Careers is the careers component of Science that scientists rely on for career information and job postings. Science Careers offers a wide variety of content designed to assist scientists of all disciplines, backgrounds and experience levels navigate their career path. This includes over 3,000 job listings that are updated daily, thousands of career advice articles written by the Science Careers editorial staff, graduate program information, meetings and event information, funding opportunities on GrantsNet, and a Career Forum where scientists can join a community of experts and peers engaging in real time discussions around career issues. For employers, Science Careers provides multiple platforms for recruiting scientists and extending their employment brand including job postings, banner advertisements, email and newsletters and sponsorships. | job seeker, employer, career, employment, job posting, resume, database, community building portal, data storage repository, postdoctoral program resource |
is used by: NIF Data Federation is related to: Integrated Jobs |
The materials on this Website are protected by United States copyright law except that no copyright is claimed in any work of the US government. For personal, Noncommercial use only. Except where otherwise permitted, Any further reproduction, Distribution, Transmission, Display, Publication, Or broadcast requires the prior written permission of The American Association for the Advancement of Science. | nlx_144181 | SCR_005156 | SciCrunch Registry | 2026-10-31 12:18:24 | 0 | ||||||||
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JCVI CMR Resource Report Resource Website 10+ mentions |
JCVI CMR (RRID:SCR_005398) | JCVI_CMR, JCVI CMR, TIGR_CMR, TIGR CMR | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | Database of all of the publicly available, complete prokaryotic genomes. In addition to having all of the organisms on a single website, common data types across all genomes in the CMR make searches more meaningful, and cross genome analysis highlight differences and similarities between the genomes. CMR offers a wide variety of tools and resources, all of which are available off of our menu bar at the top of each page. Below is an explanation and link for each of these menu options. * Genome Tools: Find organism lists as well as summary information and analyses for selected genomes. * Searches: Search CMR for genes, genomes, sequence regions, and evidence. * Comparative Tools: Compare multiple genomes based on a variety of criteria, including sequence homology and gene attributes. SNP data is also found under this menu. * Lists: Select and download gene, evidence, and genomic element lists. * Downloads: Download gene sequences or attributes for CMR organisms, or go to our FTP site. * Carts: Select genome preferences from our Genome Cart or download your Gene Cart genes. The Omniome is the relational database underlying the CMR and it holds all of the annotation for each of the CMR genomes, including DNA sequences, proteins, RNA genes and many other types of features. Associated with each of these DNA features in the Omniome are the feature coordinates, nucleotide and protein sequences (where appropriate), and the DNA molecule and organism with which the feature is associated. Also available are evidence types associated with annotation such as HMMs, BLAST, InterPro, COG, and Prosite, as well as individual gene attributes. In addition, the database stores identifiers from other centers such as GenBank and SwissProt, as well as manually curated information on each genome or each DNA molecule including website links. Also stored in the Omniome are precomputed homology data, called All vs All searches, used throughout the CMR for comparative analysis. | microbial, prokaryotic, genome, annotation, dna sequence, protein, rna gene, blast, FASEB list |
is used by: NIF Data Federation is related to: AmiGO has parent organization: J. Craig Venter Institute is parent organization of: JCVI GenProp |
NSF ; NIAID ; DOE |
Free | nif-0000-03555 | SCR_005398 | SciCrunch Registry | JCVI Comprehensive Microbial Resource, J. Craig Venter Institute Comprehensive Microbial Resource, CMR, Comprehensive Microbial Resource | 2026-10-31 12:18:29 | 37 | ||||||
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VMD Resource Report Resource Website 1+ mentions |
VMD (RRID:SCR_004905) | PAMGO_VMD, VMD | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 15, 2013. Database covering a range of plant pathogenic oomycetes, fungi and bacteria primarily those under study at Virginia Bioinformatics Institute. The data comes from different sources and has genomes of 3 oomycetes pathogens: Phytophthora sojae, Phytophthora ramorum and Hyaloperonospora arabidopsidis. The genome sequences (95 MB for P.sojae and 65 MB for P.ramorum) were annotated with approximately 19,000 and approximately 16,000 gene models, respectively. Two different statistical methods were used to validate these gene models, Fickett''''s and a log-likelihood method. Functional annotation of the gene models is based on results from BlastX and InterProScan screens. From the InterProScan results, putative functions to 17,694 genes in P.sojae and 14,700 genes in P.ramorum could be assigned. An easy-to-use genome browser was created to view the genome sequence data, which opens to detailed annotation pages for each gene model. A community annotation interface is available for registered community members to add or edit annotations. There are approximately 1600 gene models for P.sojae and approximately 700 models for P.ramorum that have already been manually curated. A toolkit is provided as an additional resource for users to perform a variety of sequence analysis jobs. | microbial genome sequence, genome, genome sequence, genome model, gene, image, oomycete, fungus, bacteria, phytophthora sojae, phytophthora ramorum, hyaloperonospora arabidopsidis, plant |
is used by: NIF Data Federation is related to: AmiGO has parent organization: Virginia Polytechnic Institute and State University; Virginia; USA |
USDA Cooperative State Research Education and Extension Service 2002-35600-12747; USDA Cooperative State Research Education and Extension Service 2004-35600-15055; NSF MCB-0242131; NSF EF-0412213; NSF DBI-0211863 |
PMID:16381891 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_87328 | http://phytophthora.vbi.vt.edu | SCR_004905 | SciCrunch Registry | VBI Microbial Database, Virginia Bioinformatics Institute Microbial Database | 2026-10-31 12:18:28 | 8 | ||||
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Zebrafish International Resource Center Resource Report Resource Website 100+ mentions |
Zebrafish International Resource Center (RRID:SCR_005065) | ZIRC | biomaterial supply resource, material resource, organism supplier | Center that supplies access to wild-type, mutant, and transgenic zebrafish lines, EST's/cDNAs, antibodies and fish health services. ZIRC Health Services include diagnostic pathology testing for zebrafish and other small laboratory fish species. | RIN, Resource Information Network, zebrafish line, expressed sequence tag, cdna, fish, antibody, pathology, research, embryo, adult, RRID Community Authority |
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: ZMP is related to: NIF Data Federation is related to: Zebrafish Information Network (ZFIN) is related to: zfishbook has parent organization: University of Oregon; Oregon; USA |
NCRR RR12546; NICHD HD12546; OD P40 OD011021; W.M. Keck Foundation |
Restricted | nif-0000-00242 | http://zebrafish.org/home/guide.php | SCR_005065 | SciCrunch Registry | Zebrafish International Resource Center | 2026-10-31 12:18:28 | 461 | |||||
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Mendelspod Resource Report Resource Website |
Mendelspod (RRID:SCR_009027) | Mendelspod | blog, data or information resource, narrative resource, podcast | A collection of content, including podcasts and blogs, to advance life science research, connecting people and ideas in the life sciences. Mendelspod creates a space for probing conversations and deep insight into the topics and trends which shape the industry''s future and therefore our future as a species. The podcasts are engaging, thoughtful thirty minute shows twice a week on highly relevant topics to those working around the life sciences. Their format enables them to go in depth with scientists who are leaders in their field, or CEOs of high growth companies to explore trends and the latest technologies. At Mendelspod, they offer a front row seat to the revolution going on in biology, putting a human face on some complicated, highly technical topics. Here you can tune in to hear Steve Burrill give his ''state of the industry'' overview, or listen to George Church talk about art and science, or find out how the latest developments in NGS are helping in the war on cancer. The blogs cover the latest trends and products, and can be entertaining. Guest bloggers featured and welcomed. | genomics, personalized medicine, syn bio, biotech, pharma, health, life science, consulting, community building portal |
is used by: NIF Data Federation is used by: Integrated Blogs |
Protected by copyright, For personal, Non-commercial, Use, Or with written permission, Copyright notice must be retained | nlx_153912 | SCR_009027 | SciCrunch Registry | Mendelspod.com | 2026-10-31 12:18:32 | 0 | |||||||
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Retina Project Resource Report Resource Website 1+ mentions |
Retina Project (RRID:SCR_002884) | Retina Project | atlas, data or information resource, spatially referenced dataset | Collection of images from cell type-specific protein expression in retina using BAC transgenic mice. Images from cell type-specific protein expression in retina using BAC transgenic mice from GENSAT project. | electrophysiology, protein expression, fluorescent, gene, amacrine cell, astrocyte, bipolar cell, blood vessel, brain, cell, ganglion cell layer, central nervous system, circuit, horizontal cell, hybridization, microglia, adult mouse, muller cell, neocortex, neuronal, photoreceptor, protein, recombinase, retina, spinal cord, mutant mouse strain, bac, retinal cell, cell type, night vision, direction, neuronal circuitry, connectivity, image collection |
is used by: NIF Data Federation has parent organization: GENSAT at NCBI - Gene Expression Nervous System Atlas |
Department Of Health And Human Services ; NINDS N01 NS02331 |
PMID:19648912 | Free, Freely available | nif-0000-25587 | SCR_002884 | SciCrunch Registry | GENSAT Retina Project, Retina Project from GENSAT, The Retina Project, The Retina Project from GENSAT, GENSAT - Retina Project | 2026-10-31 12:19:51 | 2 | |||||
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Integrated Grants Resource Report Resource Website |
Integrated Grants (RRID:SCR_003111) | data or information resource, database | Integrated Grants is a virtual database currently indexing funded research resources including NIH Research Portfolio Online Reporting Tool (RePORT) (current grants, updated monthly) and ResearchCrossroads (1970-2008, defunct as of 2009). | funded research, grant, integrated, database |
uses: National Institutes of Health Research Portfolio Online Reporting Tool uses: ResearchCrossroads is used by: NIF Data Federation is used by: Aging Portal is used by: NIDDK Information Network (dkNET) has parent organization: Integrated |
Free, Freely available | nlx_156706 | https://legacy.neuinfo.org/mynif/search.php?q=*&cf=Grants&t=indexable&nif=nlx_154697-16 https://neuinfo.org/mynif/search.php?q=*&cf=Grants&t=indexable&nif=nlx_154697-16, https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-16 | SCR_003111 | SciCrunch Registry | Integrated Grants View, NIF Integrated Grants | 2026-10-31 12:19:51 | 0 | |||||||
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NCBI Taxonomy Resource Report Resource Website 100+ mentions |
NCBI Taxonomy (RRID:SCR_003256) | NCBI Taxonomy | data or information resource, database | Database for a curated classification and nomenclature that contains the names of all organisms that are represented in the public sequence databases with at least one nucleotide or protein sequence. Data provided encompasses archaea, bacteria, eukaryota, viroids and viruses. The NCBI taxonomy database is not a primary source for taxonomic or phylogenetic information. Furthermore, the database does not follow a single taxonomic treatise but rather attempts to incorporate phylogenetic and taxonomic knowledge from a variety of sources, including the published literature, web-based databases, and the advice of sequence submitters and outside taxonomy experts. Consequently, the NCBI taxonomy database is not a phylogenetic or taxonomic authority and should not be cited as such. | viroid, virus, nucleotide, protein, sequence, phylogeny, taxonomic, taxonomy, nomenclature, cladistics, classification, animal, genetic code, gold standard |
is used by: NIF Data Federation is used by: Vertebrate Taxonomy Ontology is listed by: re3data.org is related to: Taxonomy is related to: NEWT is related to: Phenoscape Knowledgebase is related to: EBIMed is related to: GOTaxExplorer is related to: Whatizit is related to: Integrated Manually Extracted Annotation has parent organization: NCBI is parent organization of: NCBITaxon |
PMID:18940862 PMID:18940867 |
Free, Freely available | nif-0000-03179, r3d100010776 | http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html, https://doi.org/10.17616/R3X039 | SCR_003256 | SciCrunch Registry | NCBI Taxonomy Browser, Taxonomy Browser, Entrez Taxonomy Browser, NCBI Taxonomy Database | 2026-10-31 12:19:57 | 296 | |||||
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Integrated Brain Gene Expression Resource Report Resource Website |
Integrated Brain Gene Expression (RRID:SCR_004197) | data or information resource, database | Virtual database indexing brain region gene expression data from mice from: Gene Expression Nervous System Atlas (GENSAT), Allen Mouse Brain Atlas, and Mouse Genome Institute (MGI). | database, brain gene expression, molecular neuroanatomy resource, brain, gene expression, mouse, gene |
is used by: NIF Data Federation is related to: Gene Expression Nervous System Atlas is related to: Allen Mouse Brain Reference Atlas is related to: Mouse Genome Informatics (MGI) is related to: Allen Institute for Brain Science has parent organization: Integrated |
Restricted | nlx_22354 | https://legacy.neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-4 http://neuinfo.org/nif/nifgwt.html?query=nlx_22354, https://www.neuinfo.org/mynif/search.php?q=*&t=indexable&nif=nlx_22354-1, https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-4 | SCR_004197 | SciCrunch Registry | NIF Integrated Brain Gene Expression View, NIF Integrated Brain Gene Expression, Integrated BGE, Integrated Brain Gene Expression View, NIF Brain Gene Expression, Brain Gene Expression | 2026-10-31 12:19:55 | 0 |
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