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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Variation Ontology Resource Report Resource Website |
Variation Ontology (RRID:SCR_000311) | VARIO | ontology, data or information resource, controlled vocabulary | An ontology for standardized, systematic description of effects, consequences and mechanisms of variations. | obo | is listed by: BioPortal | nlx_157622 | SCR_000311 | 2026-02-16 09:45:14 | 0 | |||||||||
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Semantic DICOM Ontology Resource Report Resource Website |
Semantic DICOM Ontology (RRID:SCR_000309) | SEDI | ontology, data or information resource, controlled vocabulary | An ontology for DICOM as used in the SeDI project. | owl | is listed by: BioPortal | nlx_157583 | SCR_000309 | 2026-02-16 09:45:14 | 0 | |||||||||
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Phylogenetic Ontology Resource Report Resource Website |
Phylogenetic Ontology (RRID:SCR_000912) | PHYLONT | ontology, data or information resource, controlled vocabulary | Ontology for Phylogenetic Analysis | owl | is listed by: BioPortal | nlx_157550 | SCR_000912 | 2026-02-16 09:45:22 | 0 | |||||||||
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Amphibian Taxonomy Ontology Resource Report Resource Website |
Amphibian Taxonomy Ontology (RRID:SCR_000906) | ATO | ontology, data or information resource, controlled vocabulary | A taxonomy of Amphibia | obo | is listed by: BioPortal | nlx_157317 | SCR_000906 | 2026-02-16 09:45:22 | 0 | |||||||||
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Anatomic Pathology Lexicon Resource Report Resource Website |
Anatomic Pathology Lexicon (RRID:SCR_000907) | PATHLEX | ontology, data or information resource, controlled vocabulary | A comprehensive lexicon - a unified language of anatomic pathology terms - for standardized indexing and retrieval of anatomic pathology information resources. | owl | is listed by: BioPortal | nlx_157318 | SCR_000907 | 2026-02-16 09:45:22 | 0 | |||||||||
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HIV ontology Resource Report Resource Website |
HIV ontology (RRID:SCR_000908) | HIV | ontology, data or information resource, controlled vocabulary | Ontology that encompasses all knowledge about HIV | obo | is listed by: BioPortal | HIV | nlx_157422 | SCR_000908 | 2026-02-16 09:45:22 | 0 | ||||||||
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Bleeding History Phenotype Ontology Resource Report Resource Website |
Bleeding History Phenotype Ontology (RRID:SCR_001165) | BHO | ontology, data or information resource, controlled vocabulary | An application ontology devoted to the standardized recording of phenotypic data related to hemorrhagic disorders. | owl | is listed by: BioPortal | Hemorrhagic disorder | nlx_157338 | SCR_001165 | 2026-02-16 09:45:25 | 0 | ||||||||
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Body System Terms from ICD11 Resource Report Resource Website |
Body System Terms from ICD11 (RRID:SCR_001252) | ICD11-BODYSYSTEM | ontology, data or information resource, controlled vocabulary | Ontology of a set of body-system terms used in the ICD (International Classification of Diseases) 11 revision | owl | is listed by: BioPortal | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_157339 | SCR_001252 | 2026-02-16 09:45:26 | 0 | ||||||||
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Stanford University; Stanford; California Resource Report Resource Website 50+ mentions |
Stanford University; Stanford; California (RRID:SCR_011538) | university | Private, non profit university in Stanford, California, USA for research and undergraduate and graduate studies. Known for its academic strength, wealth, proximity to Silicon Valley, and ranking as one of the world's top universities. Particularly noted for its entrepreneurship and is one of the most successful universities in attracting funding for start-ups. | private, university, institution, undergraduate, program, resource, graduate |
uses: ShareLaTeX uses: ReadCube uses: Scizzle uses: Sparrho uses: GenomeCompiler uses: LabArchives is affiliated with: Integrative Human Microbiome Project is affiliated with: Diabetes Epigenome Atlas is related to: Stanford Research Institute International is related to: Alzheimers Disease Genetics Consortium is related to: Beta Cell Biology Consortium is related to: Clinical and Translational Science Awards Consortium is related to: ShareLaTeX is related to: LabArchives is related to: Diabetic Foot Consortium is related to: GENSCAN is related to: Center for Expanded Data Annotation and Retrieval is parent organization of: MAXCHELATOR is parent organization of: Sea Urchin Embryology is parent organization of: SNPiR is parent organization of: GERP is parent organization of: Wnt homepage is parent organization of: Biozon is parent organization of: VectorDB- Molecular Biology Vector Sequence Database is parent organization of: HighWire Press is parent organization of: BFCounter is parent organization of: Clarity resources is parent organization of: PoissonSeq is parent organization of: Flybrain at Stanford is parent organization of: Stanford Genomics Service Center Core Facility is parent organization of: STRUCTURE is parent organization of: RVD is parent organization of: OpenSim is parent organization of: PharmGKB is parent organization of: JETTA is parent organization of: Phoenix is parent organization of: WEBMAXC STANDARD is parent organization of: Ontology Development and Information Extraction is parent organization of: Stanford Translational Research Integrated Database Environment and Clinical Data Warehouse is parent organization of: Phenotree is parent organization of: Quantitative Enrichment of Sequence Tags is parent organization of: WholeCellKB is parent organization of: Simbios is parent organization of: Neurogrid is parent organization of: T-lex is parent organization of: HighWire is parent organization of: Tissue Microarray Database is parent organization of: Stanford TMA Software is parent organization of: TMA-Combiner is parent organization of: Stanford Center for Biomedical Informatics Research is parent organization of: amide is parent organization of: Wnt Database is parent organization of: OligoGenome is parent organization of: HyBrow (Hypothesis Browser) is parent organization of: DataWrangler is parent organization of: BenchWise is parent organization of: Neurobiological Image Management System is parent organization of: Target genes of Wnt/beta-catenin signaling is parent organization of: HPMR - Human Plasma Membrane Receptome is parent organization of: LPFC: A Library of Protein Family Cores is parent organization of: YDPM - Yeast Deletion Project is parent organization of: SimTKCore is parent organization of: Postdoctoral Program for Veterinarians is parent organization of: Alizadehlab: MeeboChip and HeeboChip Open Source Project is parent organization of: Q-Value Software is parent organization of: LAGAN is parent organization of: xjView: A Viewing Program For SPM is parent organization of: Exon Array Browser is parent organization of: Coursera is parent organization of: iPOP is parent organization of: SSRL Structural Molecular Biology is parent organization of: SpliceMap is parent organization of: MAPP is parent organization of: SAM is parent organization of: Stanford University School of Medicine; California; USA is parent organization of: ProbCons is parent organization of: Genovo is parent organization of: American Parkinson's Disease Association Information and Referral Center is parent organization of: Sequencing of Candida Albicans is parent organization of: Jambalaya is parent organization of: Simbiome is parent organization of: SciTran is parent organization of: Brain RNA-Seq is parent organization of: CytoSPADE is parent organization of: BioPortal is parent organization of: Research Network in Early Experience and Brain Development is parent organization of: STOP is parent organization of: NCBO Annotator is parent organization of: PubSearch is parent organization of: EM3D is parent organization of: Joint Center for Structural Genomics is parent organization of: ToRNADo is parent organization of: SGD is parent organization of: Stanford CNI is parent organization of: Stanford CoreNLP is parent organization of: GenomeSpace is parent organization of: Encode is parent organization of: OpenNeuro is parent organization of: Poldracklab Portal is parent organization of: Diabetes Epigenome Atlas is parent organization of: MrDiffusion is parent organization of: Stanford Center for Reproducible Neuroscience is parent organization of: Stanford Diabetes Research Center Diabetes Genomics Analysis Core is parent organization of: Biostrings is parent organization of: CIBERSORT is parent organization of: Shannon is parent organization of: VORTEX is parent organization of: Optogenetics Resource Center is parent organization of: Brain RNA-Seq is parent organization of: LeafCutter is parent organization of: Stanford University Vincent Coates Foundation Mass Spectrometry Laboratory Core Facility is parent organization of: Stanford University Human Immune Monitoring Center Core Facility is parent organization of: Preseq is parent organization of: CRISPR-ERA is parent organization of: WEBMAXC EXTENDED is parent organization of: Stanford Graduate School of Business Data, Analytics, and Research Computing Core Facility is parent organization of: Stanford University Community of Shared Advanced Research Platforms is parent organization of: Stanford Sarafan Chemistry, Engineering and Medicine for Human Health Knowledge Centers Core Facility is parent organization of: Stanford Sarafan Protein Engineering Knowledge Center Core Facility is parent organization of: Stanford Sarafan Metabolomics Knowledge Center Core Facility is parent organization of: Stanford Nanofabrication Core Facility is parent organization of: Stanford Sarafan Macromolecular Structure Knowledge Center Core Facility is parent organization of: Stanford Sarafan Medicinal Chemistry Knowledge Center Core Facility is parent organization of: Stanford Graduate School of Business Behavioral Lab Core Facility is parent organization of: Stanford Nano Shared Core Facility is parent organization of: Stanford System Prototyping Core Facility is parent organization of: Stanford Graduate School of Business Library is parent organization of: Stanford Vincent V.C. Woo Sandbox Laboratory Core Facility is parent organization of: Stanford Behavioral and Functional Neuroscience Laboratory Core Facility is parent organization of: Stanford Neuroscience Gene Vector and Virus Core Facility is parent organization of: Stanford Visualization Laboratory Core Facility is parent organization of: Stanford Geochronology Cluster Core Facility is parent organization of: Stanford Stable Isotope Biogeochemistry Laboratory Core Facility is parent organization of: Stanford Neuroscience Preclinical Imaging Laboratory Core Facility is parent organization of: Stanford Environmental Measurements Core Facility is parent organization of: Stanford Microchemical Analysis Core Facility is parent organization of: Stanford Neuroscience Microscopy Service Core Facility is parent organization of: Stanford Doerr School of Sustainability Sample Preparation Laboratory Core Facility is parent organization of: Stanford SIGMA Shared Facility is parent organization of: Stanford School of Medicine Translational Applications Service Center Core Facility is parent organization of: Stanford University School of Medicine Beckman Center for Molecular and Genetic Medicine Core Facility is parent organization of: Stanford University Chemistry Department NMR Facility is parent organization of: Stanford University School of Medicine Biobank Core Facility is parent organization of: Stanford University School of Medicine Center for Innovation in In vivo Imaging Core Facility is parent organization of: Stanford University School of Medicine Richard M. Lucas Center for Imaging Core Facility is parent organization of: Stanford University School of Medicine PET/MRI Metabolic Service Center Core Facility is parent organization of: Stanford University School of Medicine In Vitro Biosafety Level3 Service Center Core Facility is parent organization of: Stanford University School of Medicine Human Pathology Histology Services Laboratory Core Facility is parent organization of: Stanford University School of Medicine Genetics Bioinformatics Service Center Core Facility is parent organization of: Stanford Canary Center Preclinical Imaging Core Facility is parent organization of: Stanford University School of Medicine Transgenic, Knockout and Tumor model Center Core Facility is parent organization of: Stanford University School of Medicine Veterinary Service Center Core Facility is parent organization of: Stanford University School of Medicine Cancer Institute Tissue Procurement Shared Resource Core Facility is parent organization of: Stanford University School of Medicine Clinical and Translational Research Unit Core Facility is parent organization of: Stanford University School of Medicine Institute for Stem Cell Biology and Regenerative Medicine FACS Core Facility is parent organization of: Stanford University School of Medicine Animal Diagnostic Laboratory Core Facility is parent organization of: Stanford University Computer Science Department Computer Core Facility is parent organization of: Stanford University Instrumentation Shop Core Facility is parent organization of: Stanford University Cyclotron and Radiochemistry Core Facility is parent organization of: Stanford University Biomaterials and Advanced Drug Delivery Laboratory Core Facility is parent organization of: Stanford University Chemistry Department Optics Core Facility is parent organization of: Stanford University School of Medicine Computational Services and Bioinformatics Core Facility is parent organization of: Stanford University School of Medicine Laboratory for Cell and Gene Medicine Core Facility is parent organization of: Stanford University Research Computing is parent organization of: Stanford University Physics Machine Shop Core Facility is parent organization of: Stanford University High Performance Computing Center Core Facility is parent organization of: Stanford Center for High Throughput Quantitative Biology Core Facility is parent organization of: Stanford University Quantitative Sciences Unit Core Facility is parent organization of: Stanford University School of Medicine Cancer Institute Biostatistics Shared Resource Core Facility is parent organization of: Stanford Spectrum Biostatistics Epidemiology and Research Design Core Facility is parent organization of: STRUCTURE is parent organization of: Stanford University Additive Manufacturing and Printing Core Facility is parent organization of: Stanford University Koret Human Neurosciences Community Laboratory Core Facility is parent organization of: Stanford University Microfluidics Foundry Core Facility is parent organization of: Stanford University School of Medicine Protein and Nucleic Acid Core Facility is parent organization of: WebProtege is parent organization of: Stanford Cryo-Electron Microscopy Center Core Facility is parent organization of: Stanford Geomicrobiology Shared Laboratories Core Facility is parent organization of: Stanford University Cosmogenic Isotope Lab Core Facility is parent organization of: Stanford Research Computing Core Facility is parent organization of: Stanford University Mineralogy and Petrology Lab Core Facility is parent organization of: Stanford University MicroCT Core Facility is parent organization of: Stanford Ecosystems Shared Laboratory Core Facility is parent organization of: DADA2 is parent organization of: OpenMM |
nlx_44253, grid.168010.e, Wikidata:Q41506, Crossref funder ID:100005492, ISNI:419368956 | https://ror.org/00f54p054 | SCR_011538 | 2026-02-14 02:02:01 | 66 | |||||||||
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CHEBI Resource Report Resource Website 100+ mentions |
CHEBI (RRID:SCR_002088) | ChEBI | data or information resource, database | Collection of chemical compounds and other small molecular entities that incorporates an ontological classification of chemical compounds of biological relevance, whereby the relationships between molecular entities or classes of entities and their parents and/or children are specified. The molecular entities in question are either products of nature or synthetic products used to intervene in the processes of living organisms. | complex, conformer, ion, ion pair, isotope, molecular entity, molecule, radical, radical ion, small molecule, obo, gold standard, biochemistry, metabolomics, bio.tools |
uses: IUPAC uses: Nomenclature Committee of IUBMB is used by: Open PHACTS is used by: Ultimate Rough Aggregation of Metabolic Map is used by: RHEA is used by: GEROprotectors is used by: SwissLipids is listed by: OBO is listed by: BioPortal is listed by: NIF Data Federation is listed by: SourceForge is listed by: bio.tools is listed by: Debian is related to: Pathway Commons is related to: Integrated Manually Extracted Annotation has parent organization: European Bioinformatics Institute is parent organization of: Physico-Chemical Process is parent organization of: Physico-Chemical Methods and Properties works with: MiMeDB |
BBSRC BB/G022747/1 | PMID:19854951 PMID:19496059 PMID:17932057 |
Freely available | nif-0000-02655, biotools:chebi | http://bioportal.bioontology.org/ontologies/1007 http://www.obofoundry.org/cgi-bin/detail.cgi?id=chebi ftp://ftp.ebi.ac.uk/pub/databases/chebi/ontology/chebi.obo http://chebi.wiki.sourceforge.net/ https://bio.tools/chebi |
http://www.ebi.ac.uk/chebi/ | SCR_002088 | CHEBI, Chemical Entities of Biological Interest | 2026-02-14 02:06:07 | 126 | |||
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Breast Cancer Grading Ontology Resource Report Resource Website |
Breast Cancer Grading Ontology (RRID:SCR_006658) | BCGO | ontology, data or information resource, controlled vocabulary | Ontology that assigns a grade to a tumor starting from the 3 criteria of the NGS | owl | is listed by: BioPortal | Breast Cancer | nlx_157343 | SCR_006658 | 2026-02-16 09:46:46 | 0 | ||||||||
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Adult Mouse Anatomy Ontology Resource Report Resource Website 1+ mentions |
Adult Mouse Anatomy Ontology (RRID:SCR_006568) | MA | ontology, data or information resource, controlled vocabulary |
Ontology that organizes anatomical structures for the adult mouse (Theiler stage 28) spatially and functionally, using ''is a'' and ''part of'' relationships. The ontology is used to describe expression data for the adult mouse and phenotype data pertinent to anatomy in standardized ways. The browser can be used to view anatomical terms and their relationships in a hierarchical display. |
functionally, adult mouse, anatomical, anatomy, phenotype, postnatal, structure, theiler stage 28, obo, gene expression |
is listed by: BioPortal is related to: Bgee: dataBase for Gene Expression Evolution has parent organization: Gene Expression Database |
NIH ; NICHD HD33745; NICHD F32 HD08435-01; NHGRI F32 HG00215-01 |
Acknowledgement requested | nif-0000-10300 | http://purl.bioontology.org/ontology/MA | SCR_006568 | Adult Mouse Anatomy Browser, MGI Adult Mouse Anatomical Dictionary Browser, Adult Mouse Anatomical Dictionary Browser, Mouse Adult Gross Anatomy Ontology, Anatomical Dictionary for the Adult Mouse | 2026-02-16 09:46:45 | 3 | |||||
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Sleep Domain Ontology Resource Report Resource Website |
Sleep Domain Ontology (RRID:SCR_006808) | SDO | ontology, data or information resource, controlled vocabulary | An application ontology for the domain of Sleep Medicine. | owl | is listed by: BioPortal | nlx_157590 | SCR_006808 | 2026-02-16 09:46:48 | 0 | |||||||||
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Cell Behavior Ontology Resource Report Resource Website 1+ mentions |
Cell Behavior Ontology (RRID:SCR_007055) | CBO | ontology, data or information resource, controlled vocabulary | Ontology that describes multi-cell computational models. In particular to describe both the existential behaviors of cells (spatiality, growth, movement, adhesion, death, ...) and computational models of those behaviors. | owl | is listed by: BioPortal | nlx_157353 | http://cbo.biocomplexity.indiana.edu/cbo/ | SCR_007055 | 2026-02-16 09:46:52 | 1 | ||||||||
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Cerebrotendinous Xanthomatosis Ontology Resource Report Resource Website |
Cerebrotendinous Xanthomatosis Ontology (RRID:SCR_007067) | CTX | ontology, data or information resource, controlled vocabulary | Ontology that represents CTX phenotypes, genetic variants, and bidirectional relationships between them though a patient model. The CTX ontology was built reusing the Human Phenotype Ontology (HPO) and the Snomed ct ontologies. A set of temporal clinical manifestations are semantically annotated with a domain phenotype ontology and registered with a time-stamped value. | owl | is listed by: BioPortal | nlx_157360 | SCR_007067 | 2026-02-16 09:46:52 | 0 | |||||||||
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Cancer Chemoprevention Ontology Resource Report Resource Website |
Cancer Chemoprevention Ontology (RRID:SCR_006966) | CANCO | ontology, data or information resource, controlled vocabulary | A vocabulary that is able to describe and semantically interconnect the different paradigms of the cancer chemoprevention domain. | owl | is listed by: BioPortal | Cancer | nlx_157350 | SCR_006966 | 2026-02-16 09:46:51 | 0 | ||||||||
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Clusters of Orthologous Groups Analysis Ontology Resource Report Resource Website 1+ mentions |
Clusters of Orthologous Groups Analysis Ontology (RRID:SCR_007232) | CAO | ontology, data or information resource, controlled vocabulary | Ontology designed for supporting the COG enrichment study by using Fisher''s exact test | owl |
is listed by: BioPortal has parent organization: COG |
nlx_157366 | http://cao.sourceforge.net/ | SCR_007232 | COG Analysis Ontology, Clusters of Orthologous Groups (COG) Analysis Ontology | 2026-02-16 09:46:55 | 2 | |||||||
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RNA Ontology Resource Report Resource Website 1+ mentions |
RNA Ontology (RRID:SCR_003470) | RNAO | ontology, data or information resource, controlled vocabulary | An ontology to capture all aspects of RNA - from primary sequence to alignments, secondary and tertiary structure from base pairing and base stacking to sophisticated motifs. | owl, obo, molecular structure, molecular, rna, sequence, alignment, structure, base pairing, base stacking, motif |
is listed by: BioPortal is listed by: OBO is listed by: Google Code |
Free, Available for download, Freely available | nlx_157566 | http://purl.bioontology.org/ontology/RNAO http://rnao.googlecode.com/svn/trunk/rnao.obo |
SCR_003470 | 2026-02-16 09:46:09 | 1 | |||||||
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Influenza Ontology Resource Report Resource Website |
Influenza Ontology (RRID:SCR_003346) | FLU | ontology, data or information resource, controlled vocabulary | An application ontology established by a collaborative group of influenza researchers that includes consolidated influenza sequence and surveillance terms from resources such as the BioHealthBase (BHB), a Bioinformatics Resource Center (BRC) for Biodefense and Emerging and Re-emerging Infectious Diseases, the Centers for Excellence in Influenza Research and Surveillance (CEIRS) | owl, health, pathological, organismal, cellular, sequence, surveillance |
is listed by: BioPortal is listed by: OBO is related to: Information Artifact Ontology has parent organization: University of Maryland; Maryland; USA |
Influenza | Free, Freely available | nlx_157440 | http://purl.obolibrary.org/obo/flu.owl http://influenzaontologywiki.igs.umaryland.edu/ |
http://purl.bioontology.org/ontology/FLU | SCR_003346 | 2026-02-16 09:46:03 | 0 | |||||
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Mouse Experimental Design Ontology Resource Report Resource Website |
Mouse Experimental Design Ontology (RRID:SCR_003879) | MEDO | ontology, data or information resource, controlled vocabulary | Ontology of experimental design for high-throughput mouse analysis pipelines. | owl | is listed by: BioPortal | nlx_157487 | SCR_003879 | 2026-02-16 09:46:15 | 0 |
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