Searching the RRID Resource Information Network
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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Structural Genomics Consortium Resource Report Resource Website 50+ mentions |
Structural Genomics Consortium (RRID:SCR_003890) | SGC | consortium, data or information resource, organization portal, portal | Charity registered in United Kingdom whose mission is to accelerate research in new areas of human biology and drug discovery.Not for profit, public-private partnership that carries out basic science of relevance to drug discovery whose core mandate is to determine 3D structures on large scale and cost effectively targeting human proteins of biomedical importance and proteins from human parasites that represent potential drug targets. | basic science, drug discovery, drug, structural genomics, genomics, 3d structure, protein, human parasite, drug target, structure, human protein, protocol, phylogenetic tree, histone tail, high-throughput protein crystallization, lex bubbling system, reagent, epigenetic probe, antibody, vector, plasmid, construct |
uses: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) uses: Addgene uses: GenBank is related to: AbbVie is related to: Canada Foundation for Innovation is related to: Canadian Institutes of Health Research is related to: Genome Canada is related to: Janssen Research and Development is related to: Ontario Ministry of Economic Development Employment and Infrastructure is related to: Pfizer Animal Genetics is related to: Wellcome Trust has parent organization: University of Oxford; Oxford; United Kingdom has parent organization: University of Toronto; Ontario; Canada |
Cancer, Diabetes, Obesity, Psychiatric disorder, Altzheimer | AbbVie ; Boehringer Ingelheim ; Canada Foundation for Innovation ; Canadian Institutes of Health Research ; Genome Canada ; GlaxoSmithKline ; Janssen ; Lilly Canada ; Novartis Research Foundation ; Ontario Ministry of Economic Development Employment and Infrastructure ; Pfizer ; Takeda ; Wellcome Trust |
Restricted | nlx_158220 | SCR_003890 | Structural Genomics Consortium | 2026-10-17 01:25:56 | 65 | |||||
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Gene3D Resource Report Resource Website 100+ mentions |
Gene3D (RRID:SCR_007672) | Gene3D | data access protocol, data or information resource, data repository, database, service resource, software resource, storage service resource, web service | A large database of CATH protein domain assignments for ENSEMBL genomes and Uniprot sequences. Gene3D is a resource of form studying proteins and the component domains. Gene3D takes CATH domains from Protein Databank (PDB) structures and assigns them to the millions of protein sequences with no PDB structures using Hidden Markov models. Assigning a CATH superfamily to a region of a protein sequence gives information on the gross 3D structure of that region of the protein. CATH superfamilies have a limited set of functions and so the domain assignment provides some functional insights. Furthermore most proteins have several different domains in a specific order, so looking for proteins with a similar domain organization provides further functional insights. Strict confidence cut-offs are used to ensure the reliability of the domain assignments. Gene3D imports functional information from sources such as UNIPROT, and KEGG. They also import experimental datasets on request to help researchers integrate there data with the corpus of the literature. The website allows users to view descriptions for both single proteins and genes and large protein sets, such as superfamilies or genomes. Subsets can then be selected for detailed investigation or associated functions and interactions can be used to expand explorations to new proteins. The Gene3D web services provide programmatic access to the CATH-Gene3D annotation resources and in-house software tools. These services include Gene3DScan for identifying structural domains within protein sequences, access to pre-calculated annotations for the major sequence databases, and linked functional annotation from UniProt, GO and KEGG., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | protein domain, protein, protein superfamily, hidden markov model, structural domain, genome, sequence, domain assignments, protein structure, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: University College London; London; United Kingdom |
NIH ; Wellcome Trust ; European Union FP6 ENFIN LSHG-CT-2003-503265; European Union FP6 ENFIN LSHG-CT-2004-512092; European Union FP6 ENFIN LSHG-CT-2005-518254; DOE DE-AC02-065CH11357 |
PMID:19906693 PMID:18032434 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02877, biotools:gene3d | https://bio.tools/gene3d | SCR_007672 | Gene3D - Structures assigned to Genomes | 2026-10-17 01:26:55 | 272 | ||||
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Human Ageing Genomic Resources Resource Report Resource Website 100+ mentions |
Human Ageing Genomic Resources (RRID:SCR_007700) | HAGR | data or information resource, database, software resource, software toolkit | Collection of databases and tools designed to help researchers study the genetics of human ageing using modern approaches such as functional genomics, network analyses, systems biology and evolutionary analyses. A major resource in HAGR is GenAge, which includes a curated database of genes related to human aging and a database of ageing- and longevity-associated genes in model organisms. Another major database in HAGR is AnAge. Featuring over 4,000 species, AnAge provides a compilation of data on aging, longevity, and life history that is ideal for the comparative biology of aging. GenDR is a database of genes associated with dietary restriction based on genetic manipulation experiments and gene expression profiling. Other projects include evolutionary studies, genome sequencing, cancer genomics, and gene expression analyses. The latter allowed them to identify a set of genes commonly altered during mammalian aging which represents a conserved molecular signature of aging. Software, namely in the form of scripts for Perl and SPSS, is made available for users to perform a variety of bioinformatic analyses potentially relevant for studying aging. The Perl toolkit, entitled the Ageing Research Computational Tools (ARCT), provides modules for parsing files, data-mining, searching and downloading data from the Internet, etc. Also available is an SPSS script that can be used to determine the demographic rate of aging for a given population. An extensive list of links regarding computational biology, genomics, gerontology, and comparative biology is also available. | gene, gerontology, human, model, senescence, genomics, longevity, genetics, perl, spss, demographic analysis, genome, evolution, gene expression, model organism, human aging, dietary restriction, genetic manipulation |
has parent organization: University of Liverpool; Liverpool; United Kingdom is parent organization of: anage is parent organization of: GenAge |
Aging, Cancer | Ellison Medical Foundation ; Wellcome Trust ME050495MES; European Union FP7 Health Research HEALTH-F4-2008-202047 |
PMID:23193293 | GNU General Public License, Creative Commons Attribution v3 Unported License | nif-0000-02938, r3d100011871 | https://doi.org/10.17616/R34W81 | SCR_007700 | 2026-10-17 01:26:58 | 107 | ||||
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CellML Model Repository Resource Report Resource Website 1+ mentions |
CellML Model Repository (RRID:SCR_008113) | CellML Repository | data repository, service resource, software repository, software resource, storage service resource | Repository of biological models created using CellML, a free, open-source, eXtensible markup language based standard for defining mathematical models of cellular function. Models may be browsed by category, which include: Calcium Dynamics, Cardiovascular Circulation, Cell Cycle, Cell Migration, Circadian Rhythms, Electrophysiology, Endocrine, Excitation-Contraction Coupling, Gene Regulation, Hepatology, Immunology, Ion Transport, Mechanical Constitutive Laws, Metabolism, Myofilament Mechanics, Neurobiology, pH Regulation, PKPD, Signal Transduction, Synthetic Biology. The community can contribute their models to this resource. | cell function, cell model, model, cell, calcium dynamics, cardiovascularc circulation, cell cycle, cell migration, circadian rhythm, electrophysiology, endocrine, excitation-contraction coupling, gene regulation, hepatology, immunology, ion transport, mechanical constitutive law, metabolism, myofilament mechanics, neurobiology, ph regulation, pkpd, signal transduction, synthetic biology, image, exposure |
is used by: NIF Data Federation is listed by: 3DVC is listed by: Integrated Models is related to: Integrated Manually Extracted Annotation has parent organization: CellML |
Wellcome Trust ; Royal Society of New Zealand ; Maurice Wilkins Centre for Molecular Biodiscovery |
PMID:21216774 PMID:18658182 PMID:17947072 PMID:19162720 PMID:19380315 |
The community can contribute to this resource | nif-0000-20828 | SCR_008113 | 2026-10-17 01:26:59 | 6 | ||||||
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CellML Resource Report Resource Website 100+ mentions |
CellML (RRID:SCR_008061) | CellML | data or information resource, interchange format, markup language, narrative resource, standard specification | The CellML language is an open standard based on the XML markup language. The purpose of CellML is to store and exchange computer-based mathematical models. CellML allows scientists to share models even if they are using different model-building software. It also enables them to reuse components from one model in another, thus accelerating model building. Although CellML was originally intended for the description of biological models; CellML includes information about model structure (how the parts of a model are organizationally related to one another), mathematics (equations describing the underlying processes) and metadata (additional information about the model that allows scientists to search for specific models or model components in a database or other repository). The CellML team is committed to providing freely available tools for creating, editing, and using CellML models. We provide information regarding tools we are developing internally and links to external projects developing tools which utilize the CellML format. Please let us know if you have an open source CellML tool looking for a home on the internet, as we are able to offer limited hosting services on cellml.org. | biological model, cell, mathematical model, mathematics, metadata, model structure, model, xml, annotation, mark up language, FASEB list |
is listed by: 3DVC is related to: PathGuide: the pathway resource list is related to: Physiome Model Repository has parent organization: University of Auckland; Auckland; New Zealand is parent organization of: CellML Model Repository |
VPH NoE ; Maurice Wilkins Centre for Molecular Biodiscovery ; International Union of Physiological Sciences: Physiome Project ; aneurIST ; NZIMA ; Foundation for Research Science and Technology ; Wellcome Trust |
PMID:15142756 PMID:18658182 PMID:19564239 PMID:19380315 PMID:18579471 PMID:17947072 PMID:17271569 |
The CellML project is built by an open, Democratic community on an Open unspecified license / free ethic. | nif-0000-10448 | SCR_008061 | CellML project, The CellML Project | 2026-10-17 01:26:57 | 153 | |||||
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ORCID - Open Researcher and Contributor ID Resource Report Resource Website 500+ mentions |
ORCID - Open Researcher and Contributor ID (RRID:SCR_008700) | ORCID | data or information resource, international standard specification, narrative resource, service resource, standard specification | Non-profit organization dedicated to solving the author/contributor name ambiguity problem in scholarly communications by creating a central registry of unique identifiers for individual researchers and an open and transparent linking mechanism between ORCID and other current author ID schemes. These identifiers, and the relationships among them, can be linked to the researcher''s output to enhance the scientific discovery process and to improve the efficiency of research funding and collaboration within the research community. The ideal solution is to establish a registry that is adopted and embraced as the de facto standard by the whole of the community. A resolution to the systemic name ambiguity problem, by means of assigning unique identifiers linkable to an individual''s research output, will enhance the scientific discovery process and improve the efficiency of funding and collaboration. The organization brings together the leaders of the most influential universities, funding organizations, societies, publishers and corporations from around the globe and is managed by a fourteen member Board of Directors. A disambiguated set of authors will allow new services and benefits to be built for the research community by all stakeholders in scholarly communication: from commercial actors to non-profit organizations, from governments to universities. | name ambiguity, scholarly communication, unique identifier, author identification, identifier service, people resource |
is used by: Academic Karma is listed by: FORCE11 is related to: Europe PubMed Central is related to: Academic Karma is parent organization of: ODIN |
American Physical Society ; Nature Publishing Group ; Wiley ; Hindawi ; Oxford University Press ; PLoS ; MIT Libraries ; Springer ; Wellcome Trust ; American Chemical Society ; Microsoft Research ; Elsevier ; American Institute of Physics ; Association for Computing Machinery ; Taylor and Francis Group ; Thompson Reuters |
nif-0000-37710 | SCR_008700 | ORCID: Open Researcher and Contributor ID, Open Reseacher & Contributor ID (ORCID), ORCID - Open Researcher Contributor ID, Open Researcher and Contributor ID, ORCID - Open Researcher and Contributor ID, ORCID - Open Reseacher & Contributor ID | 2026-10-17 01:27:27 | 522 | |||||||
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Seq-Gen Resource Report Resource Website 100+ mentions |
Seq-Gen (RRID:SCR_014934) | simulation software, software application, software resource | Software program that simulates the evolution of nucleotide or amino acid sequences along a phylogeny using common models of the substitution process. A range of models of molecular evolution are implemented, including the general reversible model. State frequencies and other parameters of the model may be given and site-specific rate heterogeneity may also be incorporated in a number of ways. Any number of trees may be read in and the program will produce any number of data sets for each tree. | simulator, simulation software, molecular evolution, nucleotide, amino acid, sequence, phylogeny, phylogenetic tree |
is listed by: Debian is listed by: OMICtools has parent organization: University of Edinburgh; Scotland; United Kingdom |
Wellcome Trust ; BBSRC ; Fogarty ; The Royal Society |
DOI:10.1093/bioinformatics/13.3.235 | Available for download | OMICS_15373 | https://sources.debian.org/src/seq-gen/ | SCR_014934 | 2026-10-17 01:28:51 | 158 | ||||||
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TriTrypDB Resource Report Resource Website 500+ mentions |
TriTrypDB (RRID:SCR_007043) | TriTrypDB | analysis service resource, data access protocol, data analysis service, data or information resource, database, production service resource, service resource, software resource, web service | An integrated genomic and functional genomic database providing access to genome-scale datasets for kinetoplastid parasites, and supporting a variety of complex queries driven by research and development needs. Currently, TriTrypDB integrates datasets from Leishmania braziliensis, L. infantum, L. major, L. tarentolae, Trypanosoma brucei and T. cruzi. Users may examine individual genes or chromosomal spans in their genomic context, including syntenic alignments with other kinetoplastid organisms. Data within TriTrypDB can be interrogated utilizing a sophisticated search strategy system that enables a user to construct complex queries combining multiple data types. All search strategies are stored, allowing future access and integrated searches. ''''User Comments'''' may be added to any gene page, enhancing available annotation; such comments become immediately searchable via the text search, and are forwarded to curators for incorporation into the reference annotation when appropriate. TriTrypDB provides programmatic access to its searches, via REST Web Services. The result of a web service request is a list of records (genes, ESTs, etc) in either XML or JSON format. REST services can be executed in a browser by typing a specific URL. TriTrypDB and its continued development are possible through the collaborative efforts between EuPathDB, GeneDB and colleagues at the Seattle Biomedical Research Institute (SBRI). | kinetoplastid parasite, pathogen, genome, gene chromosome, annotation, trypanosomatidae, parasite, blast, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools is related to: GeneDB is related to: GeneDB Lmajor is related to: GeneDB Tbrucei has parent organization: Eukaryotic Pathogen Database Resources |
Bill and Melinda Gates Foundation 50097; Wellcome Trust WT085822MA; Wellcome Trust WT085775/Z/08/Z |
PMID:19843604 | Public - please cite. Much of the data in TriTrypDB is provided by independent researchers. Please cite them if you use their data. | nlx_152064, biotools:tritrypdb, r3d100011479 | https://bio.tools/tritrypdb, https://doi.org/10.17616/R3J05N | SCR_007043 | 2026-10-17 01:26:47 | 712 | |||||
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Enzyme Structures Database Resource Report Resource Website 1+ mentions |
Enzyme Structures Database (RRID:SCR_007125) | EC->PDB, EC-PDB | data or information resource, database, image collection | Database of known enzyme structures that have been deposited in the Protein Data Bank (PDB). The enzyme structures are classified by their E.C. number of the ENZYME Data Bank. Browse the classification hierarchy or enter an EC number or search-string. There are currently 45,638 PDB-enzyme entries in the PDB (as at 23 February, 2013) involving 38,109 separate PDB files - some files having more than one E.C. number associated with them. | enzyme, structure, gold standard |
is related to: PDBsum is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) has parent organization: European Bioinformatics Institute |
Wellcome Trust | nlx_30980 | SCR_007125 | 2026-10-17 01:26:47 | 3 | ||||||||
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Dietary Restriction Gene Database Resource Report Resource Website 1+ mentions |
Dietary Restriction Gene Database (RRID:SCR_013720) | GenDR | Database of genes associated with dietary restriction. It includes genes inferred from experiments in model organisms in which genetic manipulations cancel out or disrupt the life-extending effects of dietary restriction and genes robustly altered due to dietary restriction, derived from a meta-analysis of microarray studies in mammals. | gene, dietary restriction, microarray | has parent organization: University of Liverpool; Liverpool; United Kingdom | Wellcome Trust MEB050495MES; Biotechnology and Biological Sciences Research Council H0084971 |
Free, Public | SCR_013720 | The GenDR Database of Dietary Restriction-Related Genes | 2026-10-17 01:28:46 | 3 | ||||||||
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Wellcome Trust Sanger Institute; Hinxton; United Kingdom Resource Report Resource Website 500+ mentions |
Wellcome Trust Sanger Institute; Hinxton; United Kingdom (RRID:SCR_011784) | WTSI, Sanger | institution | Non profit research organization for genome sequences to advance understanding of biology of humans and pathogens in order to improve human health globally. Provides data which can be translated for diagnostics, treatments or therapies including over 100 finished genomes, which can be downloaded. Data are publicly available on limited basis, and provided more extensively upon request. | research, genome, sequence, human, health, project, global, data, treatment, therapy |
is listed by: re3data.org is affiliated with: Open Targets is related to: Clonalframe is related to: ClonalOrigin is related to: TraCeR is parent organization of: ILLUMINUS is parent organization of: ARNIE is parent organization of: Sequence Search and Alignment by Hashing Algorithm is parent organization of: Sequencing of Idd regions in the NOD mouse genome is parent organization of: CAROL is parent organization of: DINDEL is parent organization of: Wellcome Trust Case Control Consortium is parent organization of: OLORIN is parent organization of: Exomiser is parent organization of: COSMIC - Catalogue Of Somatic Mutations In Cancer is parent organization of: GeneDB is parent organization of: Breast Cancer Somatic Genetics Study is parent organization of: Artemis: Genome Browser and Annotation Tool is parent organization of: ACT: Artemis Comparison Tool is parent organization of: Alien hunter is parent organization of: Pfam is parent organization of: DNAPlotter is parent organization of: VAGrENT is parent organization of: SMALT is parent organization of: LookSeq is parent organization of: ZMP is parent organization of: Deciphering Developmental Disorders is parent organization of: Sanger Mouse Resources Portal is parent organization of: SpliceDB is parent organization of: DECIPHER is parent organization of: 1000 Genomes: A Deep Catalog of Human Genetic Variation is parent organization of: Genes to Cognition: Neuroscience Research Programme is parent organization of: MEROPS is parent organization of: Rfam is parent organization of: VEGA is parent organization of: Bacterial Genomes is parent organization of: Caenorhabditis Genome Sequencing Projects is parent organization of: D. rerio Blast Server is parent organization of: Fungi Sequencing Projects is parent organization of: PEER is parent organization of: Alfresco - FRont-End for Sequence COmparison is parent organization of: AutoCSA (Automatic Comparative Sequence Analysis) is parent organization of: AceDB is parent organization of: CnD is parent organization of: Genomics of Drug Sensitivity in Cancer is parent organization of: Zebrafish Genome Project is parent organization of: Tree families database is parent organization of: Ensembl is parent organization of: BamView is parent organization of: SVMerge is parent organization of: RetroSeq is parent organization of: Consensus CDS is parent organization of: WormBase is parent organization of: Belvu is parent organization of: Bio-tradis is parent organization of: Blixem is parent organization of: Dotter is parent organization of: Exonerate is parent organization of: Fastaq is parent organization of: Gubbins is parent organization of: CellPhoneDB is parent organization of: Ensembl Metazoa is parent organization of: Scmap is parent organization of: Scfind is parent organization of: Recognition of Errors in Assemblies using Paired Reads is parent organization of: SAMTOOLS is parent organization of: Cell Model Passports |
Wellcome Trust | ISNI: 0000 0004 0606 5382, nlx_91258, grid.10306.34, Wikidata: Q1142544 | https://ror.org/05cy4wa09 | SCR_011784 | Wellcome Trust Sanger Institute, Genome Research Limited, The Wellcome Sanger Institute, Sanger Institute, Wellcome Trust Sanger Institute Genome Research Limited | 2026-10-17 01:27:45 | 543 | ||||||
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TREES toolbox Resource Report Resource Website 10+ mentions |
TREES toolbox (RRID:SCR_010457) | TREES toolbox | software resource | Software package, written in Matlab (Mathworks, Natick, MA), providing tools to automatically reconstruct neuronal branching from microscopy image stacks and to generate synthetic axonal and dendritic trees. It provides the basic tools to edit, visualize and analyze dendritic and axonal trees, methods for quantitatively comparing branching structures between neurons, and tools for exploring how dendritic and axonal branching depends on local optimization of total wiring and conduction distance. | neuronal branching, microscopy, neuron, matlab, visualization, rendering, reconstruction, analysis, modeling, morphology, dendrite, axon, computational neuroanatomy, tree |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University College London; London; United Kingdom |
Max Planck Society ; Wellcome Trust ; Gatsby Charitable Foundation ; Alexander von Humboldt-Stiftung ; European Research Council |
PMID:20700495 | GNU General Public License v3, Creative Commons Attribution-NonCommercial-ShareAlike License v3, The community can contribute to this resource | nlx_157723 | http://www.nitrc.org/projects/treestoolbox | SCR_010457 | treestoolbox - A Matlab toolbox to generate edit visualize and analyze neuronal structure | 2026-10-17 01:27:56 | 29 | ||||
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eVOC Resource Report Resource Website 1+ mentions |
eVOC (RRID:SCR_010704) | eVOC | controlled vocabulary, data or information resource, ontology | 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 September 6, 2016. Set of orthogonal controlled vocabularies that unifies gene expression data by facilitating a link between the genome sequence and expression phenotype information. The system associates labelled target cDNAs for microarray experiments, or cDNA libraries and their associated transcripts with controlled terms in a set of hierarchical vocabularies. eVOC consists of four orthogonal controlled vocabularies suitable for describing the domains of human gene expression data including Anatomical System, Cell Type, Pathology and Developmental Stage. The four core eVOC ontologies provide an appropriate set of detailed human terms that describe the sample source of human experimental material such as cDNA and SAGE libraries. These expression terms are linked to libraries and transcripts allowing the assessment of tissue expression profiles, differential gene expression levels and the physical distribution of expression across the genome. Analysis is currently possible using EST and SAGE data, with microarray data being incorporated. The eVOC data is increasingly being accepted as a standard for describing gene expression and eVOC ontologies are integrated with the Ensembl EnsMart database, the Alternate Transcript Diversity Project and the UniProt Knowledgebase. Several groups are currently working to provide shared development of this resource such that it is of maximum use in unifying transcript expression information. | mouse, mapping, cdna, development, microarray, expression, expressed sequence, anatomical system, cell type, developmental stage, experimental technique, microarray platform, pathology, pooling, tissue preparation, treatment, gene expression, genome sequence, expression phenotype, genome, sequence, phenotype, anatomical system, cell type, pathology, anatomy |
is related to: OBO is related to: Bgee: dataBase for Gene Expression Evolution has parent organization: University of the Western Cape; Bellville; South Africa |
South African National Research Foundation ; European Union ; Wellcome Trust ; South African Department of Arts Culture Science and Technology 32146 |
PMID:12799354 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_84448 | SCR_010704 | Expressed Sequence Annotation for Humans, eVOC (Expressed Sequence Annotation for Humans), eVOC Ontologies, eVOContology.org | 2026-10-17 01:27:22 | 4 | |||||
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BioMart MartView Resource Report Resource Website 10+ mentions |
BioMart MartView (RRID:SCR_010714) | data access protocol, data or information resource, data set, software resource, web service | A web server interface of BioMart software and provides a unified view over disparate data sources that enable bioscientists to retrieve data from one or multiple sources in a simple and efficient way. This MartView web server features seamless data federation making cross querying of data sources in a user friendly and unified way. Data sources include major biomolecular sequence, pathway and annotation databases such as Ensembl, Uniprot, Reactome, HGNC, Wormbase, etc. The web server not only provides access through a web interface, it also supports programmatic access through a Perl API as well as RESTful and SOAP oriented web services. | gold standard | is related to: biomaRt | Ontario Institute for Cancer Research ; Wellcome Trust ; EMBL ; European Union FP6 contract LHSG-CT-2004-512092 |
PMID:19420058 PMID:19144180 |
Free, Public | nlx_89178 | SCR_010714 | MartView, BioMart Central Portal | 2026-10-17 01:28:02 | 10 | ||||||
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IUPHAR/BPS Guide to Pharmacology Resource Report Resource Website 1000+ mentions |
IUPHAR/BPS Guide to Pharmacology (RRID:SCR_013077) | IUPHAR Database, IUPHAR-DB, IUPHAR GPCR, IUPHAR RECEPTOR | data or information resource, database, narrative resource, portal, standard specification | Portal and searchable database of pharmacological information. Information is presented at two levels, the initial view or landing pages for each target family provide expert-curated overviews of the key properties and the available selective ligands and tool compounds. For selected targets, more detailed introductory chapters for each family are available along with curated information on the pharmacological, physiological, structural, genetic and pathophysiogical properties of each target. | pharmacology, drug discovery, portal, guide, physiology, molecular structure, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools has parent organization: NC-IUPHAR |
Wellcome Trust | PMID:21087994 | nif-0000-03056, biotools:iuphar-db, r3d100013308 | https://bio.tools/iuphar-db, https://doi.org/10.17616/R31NJMRG | http://www.iuphar-db.org | SCR_013077 | International Union of Pharmacology Database, International Union of Basic and Clinical Pharmacology Database | 2026-10-17 01:28:40 | 2375 | ||||
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NWB Explorer Resource Report Resource Website 1+ mentions |
NWB Explorer (RRID:SCR_021151) | data access protocol, software application, software resource, standalone software, web service | Web application and standalone application to read, visualize and explore content of NWB:N 2 files.Used to share neurophysiological data in Neurodata Without Borders format. | Read NWB files, visualize NWB files, explore NWB files, NWB, neurophysiology data sharing, Neurodata Without Borders format, neurophysiology data |
uses: Jupyter Notebook uses: PyNWB is listed by: Neurodata Without Borders is related to: Metacell is related to: Open Source Brain |
Wellcome Trust | Free, Available for download, Freely available | https://www.nwb.org/tools/ | SCR_021151 | 2026-10-17 01:30:36 | 1 | ||||||||
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SpikeInterface Resource Report Resource Website 1+ mentions |
SpikeInterface (RRID:SCR_021150) | data analysis software, data processing software, data visualization software, software application, software resource | Software tool as unified framework for spike sorting. Python framework to unify preexisting spike sorting technologies into single codebase and to facilitate straightforward comparison and adoption of different approaches.Used to reproducibly run, compare, and benchmark most modern spike sorting algorithms; pre-process, post-process, and visualize extracellular datasets; validate, curate, and export sorting outputs. | Spike sorting, Python framework, unify preexisting spike sorting, single codebase, spike sorting algorithms | is listed by: Neurodata Without Borders | ETH Zurich Postdoctoral Fellowship ; Norwegian Ministry of Education ; Research and Church Affairs ; University of Edinburgh ; University of Oslo ; Wellcome Trust |
PMID:33170122 | Free, Available for download, Freely available | https://www.nwb.org/tools/, https://github.com/SpikeInterface/spikeinterface/blob/master/doc/index.rst | SCR_021150 | 2026-10-17 01:31:15 | 4 | |||||||
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PhenStat Resource Report Resource Website 10+ mentions |
PhenStat (RRID:SCR_021317) | data analysis software, data processing software, software application, software resource, software toolkit | Software R package for statistical analysis of phenotypic data.Tool kit for standardized analysis of high throughput phenotypic data. | Statistical analysis, phenotypic data, standardized analysis, bio.tools, Bioconductor |
is listed by: Bioconductor is listed by: bio.tools |
NHGRI U54 HG006370; Wellcome Trust |
PMID:26147094 | Free, Available for download, Freely available | biotools:phenstat | https://bio.tools/phenstat | SCR_021317 | 2026-10-17 01:30:55 | 11 | ||||||
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KymoButler Resource Report Resource Website 1+ mentions |
KymoButler (RRID:SCR_021717) | data analysis software, data processing software, software application, software resource | Software tool as deep learning software for automated kymograph analysis. Uses artificial intelligence to trace lines in kymograph and extract information about particle movement. Speeds up analysis of kymographs by between 50 and 250 times, and comparisons show that it is as reliable as manual analysis. | automated kymograph analysis, kymograph, particle movement | Biotechnology and Biological Sciences Research Council ; European Research Council ; Herchel Smith Foundation ; Isaac Newton Trust ; Wellcome Trust |
PMID:31405451 | Free, Available for download, Freely available | https://github.com/elifesciences-publications/KymoButler, https://gitlab.com/deepmirror/kymobutler, https://www.wolframcloud.com/objects/deepmirror/Projects/KymoButler/KymoButlerForm | SCR_021717 | 2026-10-17 01:30:52 | 7 | ||||||||
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Genes to Cognition Database Resource Report Resource Website |
Genes to Cognition Database (RRID:SCR_002735) | G2Cdb | data or information resource, database | Database of protein complexes, protocols, mouse lines, and other research products generated from the Genes to Cognition project, a project focused on understanding molecular complexes involved in synaptic transmission in the brain. | allele, gene list, mouse line, human disease, phenotyping, plasticity, behavior, proteonomics, brain, cognition, cognition disorder, learning, memory, neuroscience, experimental protocol, synapse proteomics, synapse | Wellcome Trust ; MRC ; BBSRC ; Gatsby Charitable Foundation ; Human Frontiers Science Programme ; European Union ; Framework Programme ; EPSRC ; NSF |
PMID:18984621 | Free, Freely available | nif-0000-02864 | http://www.genes2cognition.org/cgi-bin/SearchView | SCR_002735 | Genes-to-Cognition Database | 2026-10-17 01:33:06 | 0 |
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Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
