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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Mouse Phenome Database (MPD) Resource Report Resource Website 100+ mentions |
Mouse Phenome Database (MPD) (RRID:SCR_003212) | MPD | data or information resource, data repository, database, experimental protocol, narrative resource, service resource, storage service resource | Database enables integration of genomic and phenomic data by providing access to primary experimental data, data collection protocols and analysis tools. Data represent behavioral, morphological and physiological disease-related characteristics in naive mice and those exposed to drugs, environmental agents or other treatments. Collaborative standardized collection of measured data on laboratory mouse strains to characterize them in order to facilitate translational discoveries and to assist in selection of strains for experimental studies. Includes baseline phenotype data sets as well as studies of drug, diet, disease and aging effect., protocols, projects and publications, and SNP, variation and gene expression studies. Provides tools for online analysis. Data sets are voluntarily contributed by researchers from variety of institutions and settings, or retrieved by MPD staff from open public sources. MPD has three major types of strain-centric data sets: phenotype strain surveys, SNP and variation data, and gene expression strain surveys. MPD collects data on classical inbred strains as well as any fixed-genotype strains and derivatives that are openly acquirable by the research community. New panels include Collaborative Cross (CC) lines and Diversity Outbred (DO) populations. Phenotype data include measurements of behavior, hematology, bone mineral density, cholesterol levels, endocrine function, aging processes, addiction, neurosensory functions, and other biomedically relevant areas. Genotype data are primarily in the form of single-nucleotide polymorphisms (SNPs). MPD curates data into a common framework by standardizing mouse strain nomenclature, standardizing units (SI where feasible), evaluating data (completeness, statistical power, quality), categorizing phenotype data and linking to ontologies, conforming to internal style guides for titles, tags, and descriptions, and creating comprehensive protocol documentation including environmental parameters of the test animals. These elements are critical for experimental reproducibility. | female, genomic location, genotype, inbred strain, male, mouse strain, phenome, phenotype, qtl, reference data, single-nucleotide polymorphism, strain allele, strain characteristic, strain, trait, gene expression, variation, hypothesis testing, data set, bio.tools, FASEB list |
is used by: NIF Data Federation is used by: Integrated Datasets is used by: NIH Heal Project is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: Special Mouse Strains Resource is related to: Vertebrate Trait Ontology is related to: GenomeMUSter has parent organization: Jackson Laboratory |
NHGRI HG003057; NHLBI HL66611; NIA AG025707; NIA AG038070; NIDA ; NIDA DA028420; NIMH MH071984 |
PMID:24243846 PMID:22102583 PMID:18987003 PMID:17151079 |
Free, Freely available | biotools:mpd, nif-0000-03160, r3d100010101 | https://bio.tools/mpd, https://doi.org/10.17616/R3PC7F | http://www.jax.org/phenome | SCR_003212 | Mouse Phenome Database | 2026-09-12 12:55:53 | 230 | |||
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Animal QTLdb Resource Report Resource Website 50+ mentions |
Animal QTLdb (RRID:SCR_001748) | Animal QTLdb | data or information resource, data repository, database, service resource, storage service resource | Database of trait mapping data, i.e. QTL (phenotype / expression, eQTL), candidate gene and association data (GWAS) and copy number variations (CNV) mapped to livestock animal genomes, to facilitate locating and comparing discoveries within and between species. New data and database tools are continually developed to align various trait mapping data to map-based genome features, such as annotated genes. QTLdb is open to house QTL/association date from other animal species where feasible. Most scientific journals require that any original QTL/association data be deposited into public databases before paper may be accepted for publication. User curator accounts are provided for direct data deposit. Users can download QTLdb data from each species or individual chromosome. | chromosome, comparative genomics, dna sequence, genome, livestock, quantitative trait locus, non-human animal, structural genomics, single-nucleotide polymorphism, gene association, genomics, trait, copy number variation, trait, phenotype, expression, eqtl, genome wide association study, candidate gene, genotype |
uses: Entrez Gene uses: Ensembl is used by: NIF Data Federation is used by: MONARCH Initiative is listed by: re3data.org is related to: Ensembl Variation is related to: Vertebrate Trait Ontology has parent organization: Iowa State University; Iowa; USA has parent organization: NAGRP Bioinformatics Coordination Program |
USDA 2007-04187; USDA NRSP-8 |
PMID:23180796 PMID:17245610 |
Free, Freely available | nif-0000-02550, r3d100010744 | http://www.animalgenome.org/QTLdb/ | SCR_001748 | Animal QTL database, Animal Quantitative Trait Loci database, AnimalQTLdb, Animal Quantitative Trait Loci (QTL) database | 2026-09-12 12:55:30 | 56 | ||||
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Rat Genome Database (RGD) Resource Report Resource Website 100+ mentions |
Rat Genome Database (RGD) (RRID:SCR_006444) | RGD | data or information resource, data repository, database, service resource, storage service resource | Database for genetic, genomic, phenotype, and disease data generated from rat research. Centralized database that collects, manages, and distributes data generated from rat genetic and genomic research and makes these data available to scientific community. Curation of mapped positions for quantitative trait loci, known mutations and other phenotypic data is provided. Facilitates investigators research efforts by providing tools to search, mine, and analyze this data. Strain reports include description of strain origin, disease, phenotype, genetics, immunology, behavior with links to related genes, QTLs, sub-strains, and strain sources. | RIN, Resource Information Network, mouse, rat, human, gene, qtl, marker, map, strain, sequence, est, genome, ontology, pathway, comparative genomics, physiology, phenotype, disease, model organism, proteomics, function, genetic, genomic, variation, immunology, behavior, knockout, inbred rat strain, mutant, congenic rat, recombinant inbred rat, data analysis service, organism supplier, genotype, gold standard, FASEB list, RRID Community Authority |
uses: InterMOD is used by: ChannelPedia is used by: Resource Identification Portal is used by: DisGeNET is used by: Integrated Animals is used by: NIH Heal Project is recommended by: Resource Identification Portal is listed by: re3data.org is listed by: InterMOD is listed by: Resource Information Network is affiliated with: InterMOD is related to: Rat Gene Symbol Tracker is related to: MPO is related to: NIF Data Federation is related to: MONARCH Initiative is related to: Vertebrate Trait Ontology is related to: Biositemaps is related to: One Mind Biospecimen Bank Listing is related to: AmiGO is related to: OMICtools is related to: re3data.org is related to: Integrated Manually Extracted Annotation is related to: OntoMate has parent organization: Medical College of Wisconsin; Wisconsin; USA is parent organization of: Diabetes Disease Portal is parent organization of: Rat Strain Ontology is parent organization of: Rat Strain Ontology is parent organization of: Renal Disease Portal is organization facet of: Alliance of Genome Resources |
NHLBI | PMID:23434633 PMID:18996890 PMID:17151068 |
Free, Freely available | nif-0000-00134, r3d100010417, OMICS_01660 | https://doi.org/10.17616/R3WK60 | SCR_006444 | , Rat Genome Database, RGD | 2026-09-12 12:56:40 | 280 | ||||
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BioPortal Resource Report Resource Website 100+ mentions |
BioPortal (RRID:SCR_002713) | BioPortal | controlled vocabulary, data or information resource, data repository, ontology, repository, service resource, storage service resource | Open repository of biomedical ontologies that provides access via Web browsers and Web services to ontologies. It supports ontologies in OBO format, OWL, RDF, Rich Release Format (RRF), Protege frames, and LexGrid XML. Functionality includes the ability to browse, search and visualize ontologies as well as to comment on, and create mappings for ontologies. Any registered user can submit an ontology. The NCBO Annotator and NCBO Resource Index can also be accessed via BioPortal. Additional features: * Add Reviews: rate the ontology according to several criteria and describe your experience using the ontology. * Add Mappings: submit point-to-point mappings or upload bulk mappings created with external tools. Notification of new Mappings is RSS-enabled and Mappings can be browsed via BioPortal and accessed via Web services. * NCBO Annotator: Tool that tags free text with ontology terms. NCBO uses the Annotator to generate ontology annotations, creating an ontology index of these resources accessible via the NCBO Resource Index. The Annotator can be accessed through BioPortal or directly as a Web service. The annotation workflow is based on syntactic concept recognition (using the preferred name and synonyms for terms) and on a set of semantic expansion algorithms that leverage the ontology structure (e.g., is_a relations). * NCBO Resource Index: The NCBO Resource Index is a system for ontology based annotation and indexing of biomedical data; the key functionality of this system is to enable users to locate biomedical data linked via ontology terms. A set of annotations is generated automatically, using the NCBO Annotator, and presented in BioPortal. This service uses a concept recognizer (developed by the National Center for Integrative Biomedical Informatics, University of Michigan) to produce a set of annotations and expand them using ontology is_a relations. * Web services: Documentation on all Web services and example code is available at: BioPortal Web services. | biomedical, thesaurus, ontology mapping, annotation, metadata standard, ontology repository, portal, web service, obo, owl, rdf, rrf protege frame, lexgrid xml |
lists: MeGO lists: Porifera Ontology lists: EnvO lists: Research Network and Patient Registry Inventory Ontology lists: Semantic DICOM Ontology lists: Time Event Ontology lists: Variation Ontology lists: Vertebrate Skeletal Anatomy Ontology lists: Epoch Clinical Trial Ontology lists: Gazetteer lists: Human Disease Ontology lists: Information Artifact Ontology lists: NCBITaxon lists: Amphibian Taxonomy Ontology lists: Anatomic Pathology Lexicon lists: HIV ontology lists: International Classification of Primary Care - 2 PLUS lists: Mathematical Modelling Ontology lists: Nursing Interventions Classification lists: Phylogenetic Ontology lists: Bleeding History Phenotype Ontology lists: Body System Terms from ICD11 lists: Synthetic Biology Open Language Visual Ontology lists: Teleost Anatomy Ontology lists: Teleost Taxonomy Ontology lists: ECO lists: Bioassay Ontology lists: RightField lists: Gene Ontology lists: HGNC lists: Interaction Ontology lists: International Classification for Nursing Practice lists: Spider Ontology lists: Vertebrate Trait Ontology lists: Mental Functioning Ontology lists: Ascomycete Phenotype Ontology lists: Beta Cell Genomics Ontology lists: Biological Collections Ontology lists: Chemical Methods Ontology lists: Chemical Information Ontology lists: Common Anatomy Reference Ontology lists: Experimental Conditions Ontology lists: Dictyostelium Discoideum Anatomy Ontology lists: Fission Yeast Phenotype Ontology lists: Fly Taxonomy lists: FlyBase Controlled Vocabulary lists: Hymenoptera Anatomy Ontology lists: Influenza Ontology lists: Lipid Ontology lists: Kinetic Simulation Algorithm Ontology lists: Malaria Ontology lists: FMA lists: Minimal Anatomical Terminology lists: NEMO Ontology lists: Ontology for Genetic Interval lists: Ontology for Parasite LifeCycle lists: Ontology of Adverse Events lists: Ontology of Medically Related Social Entities lists: Ontology of Vaccine Adverse Events lists: Rat Strain Ontology lists: Plant Environmental Conditions lists: Plant Trait Ontology lists: Population and Community Ontology lists: RNA Ontology lists: Rat Strain Ontology lists: Subcellular Anatomy Ontology lists: Software Ontology lists: Suggested Ontology for Pharmacogenomics lists: Vertebrate Taxonomy Ontology lists: PharmGKB Ontology lists: Physico-Chemical Process lists: International Classification for Patient Safety lists: Adverse Event Reporting Ontology lists: Experimental Factor Ontology lists: Mass Spectrometry Ontology lists: Master Drug Data Base Clinical Drugs lists: Medaka Fish Anatomy and Development Ontology lists: Medical Diagnostic Categories - Diagnosis Related Groups lists: Medical Dictionary for Regulatory Activities lists: Minimal Standard Terminology of Digestive Endoscopy lists: Minimal Standard Terminology of Digestive Endoscopy - French lists: Ontology of Physical Exercises lists: Mosquito Gross Anatomy Ontology lists: Systematized Nomenclature of Medicine - International Version lists: Mosquito Insecticide Resistance Ontology lists: Mouse Experimental Design Ontology lists: Mouse Gross Anatomy and Development Ontology lists: Systematized Nomenclature of Medicine - Clinical Terms lists: Systems Chemical Biology and Chemogenomics Ontology lists: Mouse Pathology Ontology lists: NIF Cell Ontology lists: NHS Quality Indicators lists: Neural-Immune Gene Ontology lists: Ontology of Physics for Biology lists: Cell Type Ontology lists: Xenopus Anatomy Ontology lists: SO lists: Ontology of Pneumology lists: Open Biological and Biomedical Ontologies Relationship Types lists: Biomedical Resource Ontology lists: MGED Ontology lists: Pharmacovigilance Ontology lists: PhenX Phenotypic Terms lists: Bioinformatics Web Service Ontology lists: SysMO JERM Ontology of Systems Biology for Micro-Organisms lists: MeSH lists: PATO lists: BFO lists: MPO lists: PR lists: Cereal Plant Development Ontology lists: PhenomeBLAST Ontology lists: VIVO lists: Computer Assisted Brain Injury Rehabilitation Ontology lists: Computer Retrieval of Information on Scientific Projects Thesaurus lists: NIFSTD lists: Cell Line Ontology lists: Student Health Record Ontology lists: Zebrafish Anatomical Ontology lists: Physical Medicine and Rehabilitation lists: Randomized Controlled Trials Ontology lists: Human Phenotype Ontology lists: Read Codes Clinical Terms Version 3 lists: Reference Sequence Annotation lists: Regulation of Gene Expression Ontolology lists: Neurobehavior Ontology lists: Regulation of Transcription Ontology lists: Reproductive Trait and Phenotype Ontology lists: Skin Physiology Ontology lists: Vaccine Ontology lists: OMIM lists: MedlinePlus lists: Adult Mouse Anatomy Ontology lists: Bone Dysplasia Ontology lists: Bone and Cartilage Tissue Engineering Ontology lists: Botryllus schlosseri anatomy and development ontology lists: EDAM Ontology lists: LexGrid lists: RxNorm lists: Breast Cancer Grading Ontology lists: Breast Tissue Cell Lines Ontology lists: SBO lists: Resource of Asian Primary Immunodeficiency Diseases Phenotype Ontology lists: Brucellosis Ontology lists: Sleep Domain Ontology lists: C. elegans Development Vocabulary lists: Physician Data Query lists: C. elegans Gross Anatomy Vocabulary lists: Plant Ontology lists: C. elegans Phenotype Vocabulary lists: CPTAC Proteomics Pipeline Infrastructure Ontology lists: Cancer Research and Management ACGT Master Ontology lists: Cancer Chemoprevention Ontology lists: Cell Behavior Ontology lists: Cereal Plant Gross Anatomy Ontology lists: Cardiac Electrophysiology Ontology lists: Cerebrotendinous Xanthomatosis Ontology lists: Cell Cycle Ontology lists: Cell Culture Ontology lists: Cerrado concepts and plant community dynamics lists: Clinical Signs and Symptoms Ontology lists: Clusters of Orthologous Groups Analysis Ontology lists: Computational Neuroscience Ontology lists: BIRNLex lists: Computer-Based Patient Record Ontology lists: Congenital Heart Defects Ontology lists: Drug Interaction Knowledge Base Ontology lists: Healthcare Common Procedure Coding System lists: Host Pathogen Interactions Ontology lists: Human Dermatological Disease Ontology lists: Solanaceae Phenotype Ontology lists: Soy Ontology lists: Spatial Ontology lists: Surgical Secondary Events lists: eagle-i research resource ontology lists: Biological Pathways Exchange lists: Autism Spectrum Disorder Phenotype Ontology lists: BRENDA Tissue and Enzyme Source Ontology lists: BioTop Ontology lists: Family Health History Ontology lists: International Classification of Diseases Version 9 - Clinical Modification lists: BioModels Ontology lists: Bilingual Ontology of Alzheimer lists: BioPortal Metadata Ontology lists: Biochemical Substructure Ontology lists: Biodiversity Ontology lists: Biological Imaging Methods Ontology lists: International Classification of Functioning Disability and Health lists: Biologie Hors Nomenclature lists: International Classification of Primary Care lists: Biomedical Research Integrated Domain Group Model lists: KB Bio 101 lists: Bionutrition Ontology lists: Artificial Intelligence Rheumatology Consultant System Ontology lists: Leukocyte Surface Marker Ontology lists: Cell Line Ontology by Mahadevan lists: Cellular microscopy phenotype ontology lists: ABA Adult Mouse Brain Ontology lists: AEO lists: African Traditional Medicine Ontology lists: Alzheimer's disease ontology lists: Amino Acid Ontology lists: Amphibian Gross Anatomy Ontology lists: Animal Natural History and Life History Ontology lists: Coding Symbols for a Thesaurus of Adverse Reaction Terms lists: Cognitive Atlas Ontology lists: Common Terminology Criteria for Adverse Events lists: Comparative Data Analysis Ontology lists: Content Archive Resource Exchange Lexicon lists: Crop Ontology lists: Current Procedural Terminalogy Hierarchy lists: Current Procedural Terminology lists: DICOM Controlled Terminology lists: Dataset processing lists: Dengue Fever Ontology lists: Dermatology Lexicon lists: Diagnosis Ontology of Clinical Care Classification lists: Diagnostic Ontology lists: Disease core ontology applied to Rare Diseases lists: Dispedia Core Ontology lists: Drosophila Development Ontology lists: Drosophila Gross Anatomy Ontology lists: EDDA Study Design Terminology lists: Electrocardiography Ontology lists: Eligibility Feature Hierarchy lists: Enzyme Mechanism Ontology lists: Enzyme Reaction Ontology for partial chemical perspectives lists: Epilepsy Ontology lists: Loggerhead Nesting Ontology lists: Fanconi Anemia Ontology lists: Fire Ontology lists: Flora Phenotype Ontology lists: Fungal Gross Anatomy Ontology lists: Human Developmental Anatomy Ontology abstract version 1 lists: G Protein-Coupled Receptor BioAssays Ontology lists: Galen Ontology lists: Gene Expression Ontology lists: Gene Ontology Extension lists: General Formal Ontology lists: General Formal Ontology for Biology lists: Genome Component Ontology lists: Genomic Clinical Decision Support Ontology lists: GeoSpecies Ontology lists: Glycomics Ontology lists: Habronattus Courtship Ontology lists: Health Indicator Ontology lists: Health Level Seven Reference Implementation Model Version 3 lists: Human Developmental Anatomy Ontology abstract version 2 lists: Human Developmental Anatomy Ontology timed version lists: Human Interaction Network Ontology lists: Human Physiology Simulation Ontology lists: Logical Observation Identifier Names and Codes lists: IMGT-ONTOLOGY lists: Image and Data Quality Assessment Ontology lists: Immune Disorder Ontology lists: Infectious Disease Ontology lists: InterNano Nanomanufacturing Taxonomy lists: Interaction Network Ontology lists: International Classification of External Causes of Injuries lists: International Classification of Diseases Version 10 lists: International Classification of Diseases Version 10 - Clinical Modification lists: International Classification of Diseases Version 10 - Procedure Coding System lists: MR dataset acquisition lists: Maize Gross Anatomy Ontology lists: Major Histocompatibility Complex Ontology lists: Medical image simulation lists: Menelas Project Top-Level Ontology lists: Mental State Assessment lists: Metagenome Sample Vocabulary lists: Metagenome and Microbes Environmental Ontology lists: MicroRNA Ontology lists: Microbial Culture Collection Vocabulary lists: Microbial Typing Ontology lists: Minimal Information about any Sequence Controlled Vocabularies lists: Minimal Information about any Sequence Ontology lists: NIF Dysfunction Ontlogy lists: NIF Subcellular Ontology lists: NMR-Instrument Component of Metabolomics Investigations Ontology lists: Name Reaction Ontology lists: NanoParticle Ontology lists: National Cancer Institute Thesaurus lists: National Drug Data File lists: National Drug File - Reference Terminology lists: Natural Products Ontology lists: Neglected Tropical Disease Ontology lists: Neomark Oral Cancer Ontology version 3 lists: Neomark Oral Cancer Ontology version 4 lists: Neural Motor Recovery Ontology lists: NeuroMorpho.Org species ontology lists: NeuroMorpho.Org species ontology old lists: Non-Randomized Controlled Trials Ontology lists: Nursing Care Coordination Ontology lists: Ontological Knowledge Base Model for Cystic Fibrosis lists: Ontology for Drug Discovery Investigations lists: Ontology for General Medical Science lists: Ontology for Genetic Disease Investigations lists: Ontology for Genetic Susceptibility Factor lists: Ontology for MicroRNA Target Prediction lists: Symptom Ontology lists: Ontology for Newborn Screening Follow-up and Translational Research lists: Ontology of Alternative Medicine French lists: Ontology of Biological and Clinical Statistics lists: Ontology of Clinical Research lists: Ontology of Core Data Mining Entities lists: Ontology of Data Mining Investigations lists: Pediatric Terminology lists: Ontology of Experimental Variables and Values lists: Ontology of General Purpose Datatypes lists: Ontology of Geographical Region lists: Ontology of Glucose Metabolism Disorder lists: Ontology of Homology and Related Concepts in Biology lists: Ontology of Language Disorder in Autism lists: Orphanet Rare Disease Ontology lists: Parasite Experiment Ontology lists: Pathogen Transmission Ontology lists: Pathogenic Disease Ontology lists: Pharmacogenomic Relationships Ontology lists: Physico-Chemical Methods and Properties lists: Plant Anatomy lists: Syndromic Surveillance Ontology lists: Plant Structure Development Stage lists: Portfolio Management Application lists: Protein Modification Ontology lists: Protein-Protein Interaction Ontology lists: Proteomics Data and Process Provenance Ontology lists: Provenance Ontology lists: QUDT lists: Quantitative Imaging Biomarker Ontology lists: Radiology Lexicon lists: Robert Hoehndorf Version of MeSH lists: Role Ontology lists: STATistics Ontology lists: Sage Bionetworks Synapse Ontology lists: Sample Processing and Separation Techniques Ontology lists: Santa Barbara Coastal Observation Ontology lists: Semantic Types Ontology lists: Semantic Web for Earth and Environment Technology Ontology lists: Semanticscience Integrated Ontology lists: Single-Nucleotide Polymorphism Ontology lists: Situation-Based Access Control Ontology lists: Taxonomic Rank Vocabulary lists: Taxonomy for Rehabilitation of Knee Conditions lists: Terminological and Ontological Knowledge Resources Ontology lists: Tick Gross Anatomy Ontology lists: Tissue Microarray Ontology lists: Traditional Medicine Constitution Value Set lists: Traditional Medicine Meridian Value Sets lists: Traditional Medicine Other Factors Value Set lists: Traditional Medicine Signs and Symptoms Value Set lists: Translational Medicine Ontology lists: Tribolium Ontology lists: Units Ontology lists: Units of Measurement Ontology lists: Upper-Level Cancer Ontology lists: Vertebrate Homologous Organ Group Ontology lists: Veterans Health Administration National Drug File lists: Vital Sign Ontology lists: WHO Adverse Reaction Terminology lists: Web-Service Interaction Ontology lists: Wheat Trait Ontology lists: XEML Environment Ontology lists: suicideo lists: suicideonto lists: Pseudogene lists: Terminology for the Description of Dynamics lists: Gene Regulation Ontology lists: UBERON lists: CHEBI lists: Cognitive Paradigm Ontology lists: Emotion Ontology lists: Clinical Measurement Ontology lists: Measurement Method Ontology lists: NCI Thesaurus lists: Ontology for Biomedical Investigations lists: Biological Pathways Exchange is listed by: Biositemaps is listed by: FORCE11 is related to: Provisional Cell Ontology has parent organization: National Center for Biomedical Ontology has parent organization: Stanford University; Stanford; California has parent organization: Stanford Center for Biomedical Informatics Research is parent organization of: NCBO Annotator |
NIGMS U24 GM143402 | PMID:19483092 PMID:21672956 PMID:18999306 |
Free, Available for download, Freely available | nif-0000-23346, r3d100012344 | https://www.force11.org/node/4646, https://doi.org/10.17616/R3J362 | SCR_002713 | BioPortal Knowledgebase | 2026-09-12 12:55:45 | 363 | ||||
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SourceForge Resource Report Resource Website 500+ mentions |
SourceForge (RRID:SCR_004365) | data access protocol, software resource, web service | Web based service that offers software developers centralized online location to control and manage free and open source software projects. Open source software tool and business public software platform. | software, platform, tool, resource, catalog, community, project, , FASEB list |
lists: Clinical Measurement Ontology lists: Measurement Method Ontology lists: CHEBI lists: Fly Taxonomy lists: Software Ontology lists: MIAPA lists: Comparative Data Analysis Ontology lists: SOAPfuse lists: MetAssign lists: Avalon Cheminformatics Toolkit lists: FMAToolbox lists: Multivariate Analysis of Transcript Splicing is related to: Wisconsin White Matter Hyperintensities Segmentation Toolbox is related to: BVA import/export EEGLAB plugin is parent organization of: SP-Designer is parent organization of: BlackOPs is parent organization of: UTR is parent organization of: CG-Pipeline is parent organization of: iMethy is parent organization of: dprimer is parent organization of: Dissect is parent organization of: AbMining ToolBox is parent organization of: siRNArules is parent organization of: MysiRNA-designer is parent organization of: D-Tailor is parent organization of: BioLemmatizer is parent organization of: exomeSuite is parent organization of: Sequence Read Format is parent organization of: BLASTPLOT is parent organization of: Magnolya is parent organization of: GMATo is parent organization of: GemSIM is parent organization of: Grinder is parent organization of: MS-Spectre is parent organization of: Quant is parent organization of: GProX is parent organization of: PeptideProphet is parent organization of: ProteinProphet is parent organization of: OMSSAPercolator is parent organization of: Flicker is parent organization of: LIPAGE is parent organization of: fqzcomp is parent organization of: ArrayPlex is parent organization of: cuteNMR is parent organization of: Jnomics is parent organization of: JMolDraw is parent organization of: CGAP-Align is parent organization of: Kinannote is parent organization of: ParseCNV is parent organization of: riboPicker is parent organization of: GENSENG is parent organization of: AS-Peak is parent organization of: FunctSNP is parent organization of: Micro-Analyzer is parent organization of: Reprever is parent organization of: POPBAM is parent organization of: pyQPCR is parent organization of: miRprimer is parent organization of: BAIT is parent organization of: fourSig is parent organization of: MaryGold is parent organization of: TOPPAS is parent organization of: Ishtar is parent organization of: mzMatch is parent organization of: ViReMa is parent organization of: VariantMaster is parent organization of: NGS-Cleaner is parent organization of: drFAST is parent organization of: PhenoFam is parent organization of: GMcloser is parent organization of: Bycom is parent organization of: NGS tools for the novice is parent organization of: Opera is parent organization of: SRMA is parent organization of: DeNovoGear is parent organization of: TriageTools is parent organization of: detecttd is parent organization of: FastUniq is parent organization of: FineSplice is parent organization of: AutoAssemblyD is parent organization of: CUDA-EC is parent organization of: qips is parent organization of: SparseAssembler is parent organization of: ParticleCall is parent organization of: skewer is parent organization of: CrossMap is parent organization of: Breakway is parent organization of: MUMmerGPU is parent organization of: PHACCS is parent organization of: ChIP-seq is parent organization of: Mutascope is parent organization of: metabnorm is parent organization of: KAnalyze is parent organization of: NGSrich is parent organization of: Mugsy is parent organization of: BACContigEditor is parent organization of: HAPLOPAINTER is parent organization of: PennSeq is parent organization of: DNACLUST is parent organization of: ReCount - A multi-experiment resource of analysis-ready RNA-seq gene count datasets is parent organization of: Ray is parent organization of: openADAM is parent organization of: DMET-Analyzer is parent organization of: SNVer is parent organization of: Cake is parent organization of: Matchprot is parent organization of: NIDB - Neuroinformatics Database is parent organization of: RUbioSeq is parent organization of: SCRalyze is parent organization of: TARQUIN is parent organization of: Rainbow is parent organization of: GLProbs is parent organization of: ANDES is parent organization of: Batch Oligo Selection Script is parent organization of: rDock is parent organization of: Biologic Stylus is parent organization of: MIPE is parent organization of: FAS-DPD is parent organization of: mrsFAST is parent organization of: mrCaNaVaR is parent organization of: SaskPrimerFS is parent organization of: XORRO is parent organization of: SALT is parent organization of: Gemi is parent organization of: Vertebrate Trait Ontology is parent organization of: Xournal is parent organization of: Metabolomics Standards Initiative is parent organization of: SpliCQ is parent organization of: ORFprimer is parent organization of: JCVI Primer Designer is parent organization of: deFuse is parent organization of: Amplicon is parent organization of: PrimerSeq is parent organization of: Niftilib is parent organization of: GEOSS is parent organization of: GEPAT is parent organization of: Jmol is parent organization of: SeqExpress is parent organization of: InsertionMapper is parent organization of: HLASeq is parent organization of: BamView is parent organization of: CB-Commander is parent organization of: Vanator is parent organization of: SnoopCGH is parent organization of: PASHA is parent organization of: USeq is parent organization of: SVMerge is parent organization of: Pythia is parent organization of: Bambus is parent organization of: cortex var is parent organization of: UnoSeq is parent organization of: VFS is parent organization of: ASOoViR is parent organization of: AnnTools is parent organization of: COVA is parent organization of: GESND is parent organization of: ORMAN is parent organization of: SnpEff is parent organization of: HIVCD is parent organization of: QuRe is parent organization of: inGAP is parent organization of: SPLITREAD is parent organization of: (at)Note is parent organization of: CoverageCalculator is parent organization of: MolBioLib is parent organization of: Ergatis is parent organization of: SolexaQA is parent organization of: CUSHAW2-GPU is parent organization of: Maq is parent organization of: mrFAST is parent organization of: TreQ is parent organization of: Hadoop-BAM is parent organization of: MACE is parent organization of: Sybil is parent organization of: cancergrid-tma is parent organization of: SAMtools Text Alignment Viewer is parent organization of: Staden Package is parent organization of: Maqview is parent organization of: NGSView is parent organization of: go-moose is parent organization of: netClass is parent organization of: ESTScan is parent organization of: MAGMA is parent organization of: ALCHEMY is parent organization of: Brain Networks is parent organization of: Neurofitter is parent organization of: dna-bison is parent organization of: BLESS is parent organization of: Object-Oriented Development Interface for NMR is parent organization of: HTQC is parent organization of: OBO Tracker: Plant Ontology (PO) TERM requests is parent organization of: COHCAP is parent organization of: Picard is parent organization of: SpliceGrapher is parent organization of: Blox is parent organization of: DMEAS is parent organization of: Samscope is parent organization of: GARM is parent organization of: fitGCP is parent organization of: POLGUI - Matlab Polhemus Interface is parent organization of: Next-gen Sequencing Scaffolding Tool is parent organization of: GASiC is parent organization of: Qudaich is parent organization of: Virmid is parent organization of: BIGpre is parent organization of: bioNerDS is parent organization of: mubiomics is parent organization of: GBS barcode splitter is parent organization of: Adverse Event Ontology is parent organization of: TaxoAssignement is parent organization of: QUASR is parent organization of: simhtsd is parent organization of: BMDExpress is parent organization of: HIA is parent organization of: Mesh-based Monte Carlo (MMC) is parent organization of: MIGen is parent organization of: BAMStats is parent organization of: Monte Carlo eXtreme is parent organization of: DeconSeq is parent organization of: neurospy is parent organization of: Taipan is parent organization of: BRIG is parent organization of: GenoTan is parent organization of: Multiscale Object Orientation Simulation Environment is parent organization of: BioMail is parent organization of: SeqPig is parent organization of: CUDASW++ is parent organization of: OrChem is parent organization of: Gecko is parent organization of: LIBEEP is parent organization of: MarsBaR region of interest toolbox for SPM is parent organization of: SCALCE is parent organization of: CLIIQ is parent organization of: vipR is parent organization of: MIRA is parent organization of: Celera assembler is parent organization of: SVDetect is parent organization of: CONTRA is parent organization of: FindPeaks is parent organization of: PeakRanger is parent organization of: Arpeggio is parent organization of: BWA is parent organization of: CloudBurst is parent organization of: ERNE is parent organization of: PPSEQ is parent organization of: SEAL is parent organization of: Genovar is parent organization of: XDrawChem is parent organization of: DNPTrapper is parent organization of: Hawkeye is parent organization of: TagCleaner is parent organization of: ECHO is parent organization of: SeqGene is parent organization of: naiveBayesCall is parent organization of: EBARDenovo is parent organization of: Ray Meta is parent organization of: Scramble is parent organization of: PerlPrimer is parent organization of: CowCoDA is parent organization of: MZmine is parent organization of: OBI-Warp is parent organization of: OpenMS is parent organization of: CPFP is parent organization of: TOPP is parent organization of: swissPIT is parent organization of: Antilope is parent organization of: ICPL ESIQuant is parent 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parent organization of: QcReads is parent organization of: HECTOR is parent organization of: SHREC is parent organization of: hiCtools is parent organization of: Swift is parent organization of: TraceTuner is parent organization of: seqMINER is parent organization of: MIREAP is parent organization of: miRDeep-P is parent organization of: ncPRO-seq is parent organization of: vcf2MSAT is parent organization of: SAMMate is parent organization of: FishingCNV is parent organization of: NGSpeAnalysis is parent organization of: Bamformatics is parent organization of: IBDLD is parent organization of: HATS is parent organization of: SolSNP is parent organization of: Trinity is parent organization of: SNPTools is parent organization of: MendelScan is parent organization of: LoFreq is parent organization of: GENE-counter is parent organization of: RNA CoMPASS is parent organization of: VCAKE is parent organization of: LOCAS is parent organization of: Contrail is parent organization of: AMOS is parent organization of: VDJFasta is parent organization of: RDP FrameBot is parent organization of: Celera Genome Browser is parent organization of: AutoMap is parent organization of: DSP is parent organization of: Neuroimaging in Python is parent organization of: cnvHiTSeq is parent organization of: Easyfig is parent organization of: bisReadMapper is parent organization of: palfinder is parent organization of: sam comp is parent organization of: CongrPE is parent organization of: CallSim is parent organization of: Tuxedo is parent organization of: SAPAS is parent organization of: iso2mesh is parent organization of: Telescoper is parent organization of: HeurAA is parent organization of: CoNIFER is parent organization of: DynamicProg is parent organization of: SOCS is parent organization of: BEADS is parent organization of: miRSeqNovel is parent organization of: PIA is parent organization of: ChimeraSlayer is parent organization of: RDXplorer is parent organization of: SeqTRACS is parent organization of: Crossbow is parent organization of: Hanalyzer is parent organization of: QUAST is parent organization of: Drosophila anatomy and development ontologies is parent organization of: Diffusion Tensor Imaging ToolKit is parent organization of: OLORIN is parent organization of: NovelSeq is parent organization of: SobekCM is parent organization of: NEMO Ontology is parent organization of: Mindtouch DekiWiki is parent organization of: MGED Ontology is parent organization of: SPInDel is parent organization of: LMAT is parent organization of: VariationHunter is parent organization of: G-BLASTN is parent organization of: T-lex is parent organization of: SeqAnt is parent organization of: PAZAR is parent organization of: CUSHAW is parent organization of: TMAJ is parent organization of: Manatee is parent organization of: HOLLOW is parent organization of: OWL API is parent organization of: Bioelectromagnetism Matlab Toolbox is parent organization of: Predictive Networks is parent organization of: Centroid Trajectory Analysis is parent organization of: PowerMap is parent organization of: BarraCUDA is parent organization of: FastSemSim is parent organization of: Wisconsin White Matter Hyperintensities Segmentation Toolbox is parent organization of: ArrayOligoSelector hosts: Batman-Seq |
nlx_38463 | SCR_004365 | 2026-09-12 01:00:10 | 923 | ||||||||||
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monarch-ontologies Resource Report Resource Website |
monarch-ontologies (RRID:SCR_000002) | Monarch Ontologies | controlled vocabulary, data or information resource, ontology | The set of ontologies used within the Monarch Initiative. MONARCH members are free to add new imports. | phenotype |
is related to: Vertebrate Trait Ontology has parent organization: MONARCH Initiative |
The community can contribute to this resource | nlx_152901 | SCR_000002 | monarch.owl | 2026-09-12 01:06:02 | 0 |
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