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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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SSPACE Resource Report Resource Website 100+ mentions |
SSPACE (RRID:SCR_005056) | SSPACE | software resource | A stand-alone software program for scaffolding pre-assembled contigs using paired-read data. Main features are: a short runtime, multiple library input of paired-end and/or mate pair datasets and possible contig extension with unmapped sequence reads. | scaffolding, contig, genome, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:21149342 DOI:10.1093/bioinformatics/btq683 |
GNU General Public License, Registration required | biotools:sspace, OMICS_00050 | https://bio.tools/sspace https://sources.debian.org/src/sspace/ |
SCR_005056 | 2026-02-14 02:01:02 | 426 | ||||||
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HPC-CLUST Resource Report Resource Website 1+ mentions |
HPC-CLUST (RRID:SCR_005052) | HPC-CLUST | software resource | A set of tools designed to cluster large numbers (>1 million) of pre-aligned nucleotide sequences. It performs the clustering of sequences using the Hierarchical Clustering Algorithm (HCA). There are currently three different cluster metrics implemented: single-linkage, complete-linkage, and average-linkage. In addition, there are currently four sequence distance functions implemented, these are: identity (gap-gap counting as match), nogap (gap-gap being ignored), nogap-single (like nogap, but consecutive gap-nogap''s count as a single mismatch), tamura (distance is calculated with the knowledge that transitions are more likely than transversions). One advantage that HCA has over other algorithms is that instead of producing only the clustering at a given threshold, it produces the set of merges occuring at each threshold. With this approach, the clusters can afterwards very quickly be reported for every arbitrary threshold with little extra computation. This approach also allows the plotting of the variation of number of clusters with clustering threshold without requiring the clustering to be run for each threshold independently. Another feature of the way HPC-CLUST is implemented is that the single-, complete-, and average-linkage clusterings can be computed in a single run with little overhead. | c++, mpi |
is listed by: OMICtools has parent organization: University of Zurich; Zurich; Switzerland |
PMID:24215029 | OMICS_01446 | SCR_005052 | 2026-02-14 02:00:48 | 5 | ||||||||
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Open PHACTS Resource Report Resource Website 10+ mentions |
Open PHACTS (RRID:SCR_005050) | OPS | portal, consortium, data or information resource, organization portal, software resource, database | Project that developed an open access discovery platform, called Open Pharmacological Space (OPS), via a semantic web approach, integrating pharmacological data from a variety of information resources and tools and services to question this integrated data to support pharmacological research. The project is based upon the assimilation of data already stored as triples, in the form subject-predicate-object. The software and data are available for download and local installation, under an open source and open access model. Tools and services are provided to query and visualize this data, and a sustainability plan will be in place, continuing the operation of the Open PHACTS Discovery Platform after the project funding ends. Throughout the project, a series of recommendations will be developed in conjunction with the community, building on open standards, to ensure wide applicability of the approaches used for integration of data. | drug, enzyme family, structure, receptor, target, ki, pathway, pharmacology, enzyme, small molecule, data mining, annotation, drug discovery, drug development, pharmacological profile, pharmacokinetic, admet data, biological target, chemical, linked data, rdf, nanopublication, platform, semantic technology, text mining, bioinformatics, cheminformatics, interoperability, chemistry, data provenance, compound, small molecule, semantic integration, drug discovery |
uses: CHEBI uses: ChemSpider uses: ConceptWiki uses: DrugBank uses: ENZYME uses: UniProt uses: Gene Ontology uses: WikiPathways is listed by: Consortia-pedia is listed by: FORCE11 is related to: Nanopub.org is related to: eTRIKS is related to: Janssen Research and Development is related to: Almirall is related to: ESTEVE is related to: Merck is related to: Pfizer Animal Genetics is related to: VU University; Amsterdam; Netherlands is related to: European Bioinformatics Institute is related to: Maastricht University; Maastricht; Netherlands is related to: University of Bonn; Bonn; Germany is related to: Royal Society of Chemistry is related to: Spanish National Cancer Research Center is related to: Netherlands Bioinformatics Centre is related to: SIB Swiss Institute of Bioinformatics is related to: Technical University of Denmark; Lyngby; Denmark is related to: University of Santiago de Compostela; Santiago de Compostela; Spain is related to: University of Vienna; Vienna; Austria is related to: University of Hamburg; Hamburg; Germany is related to: University of Manchester; Manchester; United Kingdom is related to: BioSolveIT is related to: ConnectedDiscovery is related to: OpenLink Software is related to: SciBite is related to: Open PHACTS Foundation has parent organization: University of Vienna; Vienna; Austria |
Innovative Medicines Initiative grant 115191; EFPIA ; Open PHACTS Foundation |
PMID:22683805 | Open unspecified license, Registration required, Non-commercial | r3d100011550, nlx_144033 | https://www.force11.org/node/4684 http://www.imi.europa.eu/content/open-phacts https://doi.org/10.17616/R3T63F |
SCR_005050 | Open PHACTS - Open Pharmacological Space, OpenPhacts.org, Open Pharmacological Space, Open Pharmacological Concepts Triple Store, OpenPHACTS, Open PHACTS: Open Pharmacological Space | 2026-02-14 02:00:50 | 11 | ||||
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UC Davis Center for Childrens Environmental Health Resource Report Resource Website |
UC Davis Center for Childrens Environmental Health (RRID:SCR_004998) | CCEH | disease-related portal, data or information resource, portal, topical portal | The Center for Children''s Environmental Health and Disease Prevention is a multi-disciplinary collaborative research organization established to examine how toxic chemicals may influence the development of autism in children. The Center''s goal is to contribute knowledge about autism that will lead to new strategies for the prevention and treatment of this mysterious condition. Parents and health professionals have raised concerns about how environmental factors such as pesticides, a variety of chemicals, or even some ingredients included in vaccines may effect the development of the disorder. We are the first center to examine the roles of a wide range of toxic chemicals, genetic predisposition, and the interplay between these two in altering brain development during early life and leading to abnormal social behavior in children. Scientists in the CCEH study the effects of the environment on children''s health, with a particular focus on autism. Researchers come from all fields including molecular biology, medicine, nutrition, psychology, animal behavior, and genetics. The Center''s research is guided by an Advisory Board with representatives including parents, activists, non-profits, government agencies, and concerned citizens. This Center is one of several children''s centers throughout the nation funded by the U.S. EPA and NIEHS. | autism, environmental health | has parent organization: UC Davis School of Veterinary Medicine; California; USA | EPA ; University of California at Davis; California; USA ; UC Davis School of Veterinary Medicine; California; USA ; UC Davis School of Medicine; California; USA |
nif-0000-02124 | SCR_004998 | UC Davis School of Vet Med: Center for Children''s Environmental Health, Center for Children''s Environmental Health and Disease Prevention, Center for Children''s Environmental Health | 2026-02-14 02:00:47 | 0 | |||||||
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BBMRI Wiki Resource Report Resource Website |
BBMRI Wiki (RRID:SCR_004994) | BBMRI Wiki | international standard specification, ontology, data or information resource, wiki, controlled vocabulary, narrative resource, standard specification | The BBMRI Wiki is intended to help establish a standard vocabulary within the European BBMRI (Biobanking and Biomolecular Resources Research Infrastructure) project. This Wiki also facilitates the definition and updating of new terms as well as the Minimum Information About BIobank data Sharing: MIABIS. MIABIS represents the minimum information required to enable the exchange of biological samples and data between biobanks. | biobank, biomedical, lexicon, miabis, sample, study | has parent organization: Biobanking and Biomolecular Resources Research Infrastructure (BBMRI) | nlx_143999 | SCR_004994 | BBMRI Wiki: For a global biomedical research, Biobanking Biomolecular Resources Research Infrastructure Wiki, Biobanking and Biomolecular Resources Research Infrastructure Wiki | 2026-02-14 02:00:47 | 0 | ||||||||
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NCBI Popset Resource Report Resource Website 1+ mentions |
NCBI Popset (RRID:SCR_005049) | PopSet | data repository, storage service resource, data or information resource, service resource, database | Database containing a set of DNA sequences that have been collected to analyse the evolutionary relatedness of a population. The population could originate from different members of the same species, or from organisms from different species. Users may submit a Popset using Sequin. | nucleotide sequence, nucleotide, sequence, dna sequence, dna, evolution, population, genomics, eukaryotic cell, mutation, phylogenetic, ecosystem, gold standard |
is listed by: re3data.org has parent organization: NCBI |
nlx_99613, r3d100010777 | http://www.ncbi.nlm.nih.gov/sites/entrez?db=popset https://doi.org/10.17616/R3S901 |
SCR_005049 | Entrez PopSet | 2026-02-14 02:01:02 | 9 | |||||||
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M-pick Resource Report Resource Website |
M-pick (RRID:SCR_004995) | M-pick | software resource | A modularity-based clustering software for Operational Taxonomic Unit (OTU) picking of 16S rRNA sequences. The algorithm does not require a predetermined cut-off level, and our simulation studies suggest that it is superior to existing methods that require specified distance or variance levels to define OTUs. | 16s rrna sequence, 16s rrna, rrna, sequence, binning |
is listed by: OMICtools has parent organization: University of Florida; Florida; USA |
OMICS_01447 | SCR_004995 | M-pick: a modularity-based clustering method for OTU picking | 2026-02-14 02:01:01 | 0 | ||||||||
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University of Manchester; Manchester; United Kingdom Resource Report Resource Website 1+ mentions |
University of Manchester; Manchester; United Kingdom (RRID:SCR_004996) | university | Public research university in Manchester, England, formed in 2004 by merger of University of Manchester Institute of Science and Technology and Victoria University of Manchester. Second largest university in United Kingdom by enrollment. |
is affiliated with: OpenMinTeD is related to: NEWMEDS is related to: ORBITO is related to: Open PHACTS is related to: EMIF is parent organization of: Smart Dictionary Lookup is parent organization of: mlgt is parent organization of: Utopia Docs is parent organization of: Kidney and Urinary Pathway Knowledge Base is parent organization of: PUMA is parent organization of: DOSY Toolbox is parent organization of: RightField is parent organization of: SEEK is parent organization of: miRBase is parent organization of: PRINTS is parent organization of: CHEM21 is parent organization of: Taverna is parent organization of: SysMO-DB is parent organization of: MethodBox is parent organization of: OWL API is parent organization of: X:MAP is parent organization of: Mimas is parent organization of: National Centre for Text Mining is parent organization of: Chemistry Using Text Annotations is parent organization of: TerMine is parent organization of: Acromine Disambiguator is parent organization of: Census Dissemination Unit is parent organization of: Open Regulatory Annotation Database is parent organization of: ADAPT: A Database of Affymetrix Probesets and Transcripts is parent organization of: brat rapid annotation tool is parent organization of: UK DNA Banking Network is parent organization of: AcroMine is parent organization of: BioIE: Extracting Informative Sentences From the Biomedical Literature is parent organization of: Biocatalogue - The Life Science Web Services Registry is parent organization of: myExperiment is parent organization of: Software Ontology is parent organization of: bioNerDS is parent organization of: MorphoJ is parent organization of: University of Manchester Bioinformatics Core Facility is parent organization of: miRBase is parent organization of: Simple Assignment of Spots to Surfaces is parent organization of: AMBER parameter database is parent organization of: University of Manchester Electron Microscopy Core Facility is parent organization of: University of Manchester Mass Spectrometry and Separations Core Facility is parent organization of: University of Manchester Advanced Manufacturing Platform Core Facility is parent organization of: University of Manchester Surface Characterisation Core Facility is parent organization of: University of Manchester Biochemical and Biophysical Sciences Technology Platform Core Facility is parent organization of: University of Manchester Corrosion and Materials for Demanding Environments Core Facility is parent organization of: University of Manchester Magnetic Resonance and Related Technology Platform Core Facility is parent organization of: University of Manchester X-ray Diffraction Platform Core Facility is parent organization of: University of Manchester Services and Equipment Core Facility is parent organization of: University of Manchester Design, Fabrication and Testing Core Facility is parent organization of: University of Manchester National X-ray Computed Tomography Core Facility is parent organization of: University of Manchester Advanced Metal Development Core Facility |
nlx_74265, Wikidata:Q230899, grid.5379.8, ISNI:121662407, Crossref funder ID:501100000770 | https://ror.org/027m9bs27 | SCR_004996 | University of Manchester | 2026-02-14 02:00:49 | 7 | |||||||||
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Bio X Cell Resource Report Resource Website 1000+ mentions |
Bio X Cell (RRID:SCR_004997) | commercial organization | Commercial supplier and developer of in vivo antibodies. Provides antibodies and antibody production services. | commercial, antibody, reagent, biomedical, research, new hampshire, | SCR_019248, nlx_152318 | SCR_004997 | 2026-02-14 02:01:03 | 4386 | |||||||||||
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ESPRIT-Tree Resource Report Resource Website 1+ mentions |
ESPRIT-Tree (RRID:SCR_005045) | ESPRIT-Tree | software resource | Software for hierarchical Clustering Analysis of Millions of 16S rRNA Pyrosequences in Quasi-linear Time. | clustering, 16s rrna, pyrosequence |
is listed by: OMICtools has parent organization: University of Florida; Florida; USA |
PMID:21596775 | OMICS_01445 | SCR_005045 | ESPRIT-Tree: Hierarchical Clustering Analysis of Millions of 16S rRNA Pyrosequences in Quasi-linear Time | 2026-02-14 02:01:03 | 9 | |||||||
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Huazhong University of Science and Technology; Wuhan; China Resource Report Resource Website |
Huazhong University of Science and Technology; Wuhan; China (RRID:SCR_005047) | HUST | university | Public research university located in Guanshan Subdistrict, Hongshan District, Wuhan, Hubei province, China. |
is parent organization of: AnimalTFDB is parent organization of: Midbody, Centrosome and Kinetochore is parent organization of: EPSD Eukaryotic Phosphorylation Site Database |
ISNI:0000 0004 0368 7223, grid.33199.31, Wikidata:Q1711196, nlx_144495, Crossref funder ID:501100003397 | https://ror.org/00p991c53 | SCR_005047 | Huazhong University of Science and Technology, Huazhong University of Science & Technology, Huazhong University of Science & Technology; Hubei; China | 2026-02-14 02:00:48 | 0 | ||||||||
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Ivy Glioblastoma Atlas Project Resource Report Resource Website 100+ mentions |
Ivy Glioblastoma Atlas Project (RRID:SCR_005044) | Ivy GAP | data or information resource, image collection, atlas, database | Platform for exploring the anatomic and genetic basis of glioblastoma at the cellular and molecular levels that includes two interactive databases linked together by de-identified tumor specimen numbers to facilitate comparisons across data modalities: * The open public image database, here, providing in situ hybridization data mapping gene expression across the anatomic structures inherent in glioblastoma, as well as associated histological data suitable for neuropathological examination * A companion database (Ivy GAP Clinical and Genomic Database) offering detailed clinical, genomic, and expression array data sets that are designed to elucidate the pathways involved in glioblastoma development and progression. This database requires registration for access. The hope is that researchers all over the world will mine these data and identify trends, correlations, and interesting leads for further studies with significant translational and clinical outcomes. The Ivy Glioblastoma Atlas Project is a collaborative partnership between the Ben and Catherine Ivy Foundation, the Allen Institute for Brain Science and the Ben and Catherine Ivy Center for Advanced Brain Tumor Treatment. | glioblastoma, in situ hybridization, hematoxylin and eosin stain, brain, tumor, gene expression, anatomic structure, histology, clinical, genomic, expression array, gene, FASEB list | has parent organization: Allen Institute for Brain Science | Brain cancer, Cancer | Ben and Catherine Ivy Foundation | nlx_99161 | SCR_005044 | 2026-02-14 02:00:50 | 126 | |||||||
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Drug Information Portal Resource Report Resource Website |
Drug Information Portal (RRID:SCR_002818) | Drug Information Portal | data or information resource, portal, database, topical portal | The NLM Drug Information Portal gives users a gateway to selected drug information from the U.S. National Library of Medicine and other key U.S. Government agencies. At the top of the page are links to individual resources with potential drug information, including summaries tailored to various audiences. Resources include the NLM search systems useful in searching for a drug, NLM research resources, resources organized by audience and class, and other NIH and government resources such as FDA and CDC. The search box in the middle of the page lets you search many of these resources simultaneously. More than 34,000 drugs can be searched using this facility. The portal covers drugs from the time they are entered into clinical trials (Clinicaltrials.gov) through their entry in the U.S. market place (Drugs@FDA). Many drugs in other countries are covered, but not as thoroughly as U.S. drugs. The PubMed link provides medical literature describing research, and TOXLINE provides toxicology literature. Resources such as MedlinePlus provide easy to read summaries of the uses and efficacy of a drug. You may search by a drug's trade name or generic name. For example, the trade name Advil and the generic name ibuprofen will retrieve the same drug record. As you type in a name, suggestions are given beneath the search box. A spell checker gives suggestions if the name is not found. You can find embedded portions of names by using an asterisk at the beginning and/or end of a search term. You can also search by the general Category of usage of a drug by checking that radio button. Suggestions are given as you type here too. Once a drug is found, a summary of the drug's type and usage is given, as well as links leading to further information at one of the portal's resources. Outside links open in a new window. Within a given drug record, you may click on the drug category and retrieve drugs with the same or similar uses. * View drug category descriptions. * View top By Name searches (previous seven days). * View top By Category searches (previous seven days). * View top dispensed prescriptions in the US Market, 2010. * View common drug name list. * View category name list. * View list of resources searched. JavaScript must be enabled in your browser for the NLM Drug Information Portal to work properly. | drug, catalog, medicine, prescription | has parent organization: National Library of Medicine | NLM | PMID:19384716 | Free, Freely available | nif-0000-24913 | SCR_002818 | Drug Information Portal - Quick Access to Quality Drug Information, NLM Drug Information Portal | 2026-02-14 02:00:27 | 0 | |||||
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Genomes Online Database Resource Report Resource Website 100+ mentions |
Genomes Online Database (RRID:SCR_002817) | GOLD | data repository, storage service resource, data or information resource, service resource, database | Database of information regarding genome and metagenome sequencing projects, and their associated metadata, around the world. It also provides information related to organism properties such as phenotype, ecotype and disease. Both complete and ongoing projects, along with their associated metadata, can be accessed. Users can also register, annotate and publish genome and metagenome data. | genome, genetics, metagenome, biosample, phenotype, ecotype, disease, sequencing, FASEB list |
is listed by: re3data.org has parent organization: DOE Joint Genome Institute |
PMID:22135293 PMID:19914934 PMID:17981842 PMID:16381880 PMID:11125068 PMID:10498782 |
Free, Freely available, Available for download | r3d100010808, nif-0000-02918 | https://doi.org/10.17616/R39310 | SCR_002817 | Genomes On Line Database (GOLD), GOLD:Genomes Online Database | 2026-02-14 02:00:33 | 159 | |||||
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Gene Ontology Resource Report Resource Website 10000+ mentions |
Gene Ontology (RRID:SCR_002811) | GO | knowledge environment resource, portal, consortium, data or information resource, organization portal, project portal | Computable knowledge regarding functions of genes and gene products. GO resources include biomedical ontologies that cover molecular domains of all life forms as well as extensive compilations of gene product annotations to these ontologies that provide largely species-neutral, comprehensive statements about what gene products do. Used to standardize representation of gene and gene product attributes across species and databases. | gene, product, annotation, molecular, function, cellular, biological, role, database, query, obo, gold standard, bio.tools, FASEB list |
is used by: NIF Data Federation is used by: GreenPhylDB is used by: LIPID MAPS Proteome Database is used by: Aging Portal is used by: ChannelPedia is used by: Open PHACTS is used by: CoPub is used by: PhenoGO is used by: Database for Annotation Visualization and Integrated Discovery is used by: MitoMiner is used by: dcGO is used by: Pathway Analysis Tool for Integration and Knowledge Acquisition is used by: barleyGO is used by: SynGO is used by: Functional Annotation is used by: SwissLipids is listed by: BioPortal is listed by: OBO is listed by: OMICtools is listed by: bio.tools is listed by: Debian is affiliated with: Mouse Genome Informatics: The Gene Ontology Project is related to: GenNav is related to: SynaptomeDB is related to: High-Throughput GoMiner is related to: Onto-Design is related to: OnEx - Ontology Evolution Explorer is related to: Avadis is related to: GONUTS is related to: PiNGO is related to: Automated Microarray Pipeline is related to: categoryCompare is related to: globaltest is related to: Semantic Measures Library is related to: WegoLoc is related to: AnimalTFDB is related to: MEME Suite - Motif-based sequence analysis tools is related to: Arabidopsis Hormone Database is related to: DAVID is related to: Arabidopsis thaliana Protein Interactome Database is related to: TM4 Microarray Software Suite - TIGR MultiExperiment Viewer is related to: pSTIING is related to: GoMiner is related to: FunSimMat is related to: GeneSpeed- A Database of Unigene Domain Organization is related to: Centre for Modeling Human Disease Gene Trap Resource is related to: Patterns of Gene Expression in Drosophila Embryogenesis is related to: Babelomics is related to: BioPerl is related to: GeneCruiser is related to: GOLEM An interactive, graphical gene-ontology visualization, navigation, and analysis tool is related to: GOToolBox Functional Investigation of Gene Datasets is related to: Cotton EST Database is related to: MouseNET is related to: PLANTTFDB is related to: T-profiler is related to: Physico-Chemical Process is related to: Integrated Molecular Interaction Database is related to: SEGS is related to: GOCat is related to: Quantitative Enrichment of Sequence Tags is related to: Neural-Immune Gene Ontology is related to: INMEX is related to: StRAnGER is related to: QuickGO is related to: Repository of molecular brain neoplasia data is related to: Cardiovascular Gene Ontology Annotation Initiative is related to: PANTHER is related to: Short Time-series Expression Miner (STEM) is related to: DATFAP is related to: GORetriever is related to: Gene Ontology Browsing Utility (GOBU) is related to: GeneTools is related to: GOSlimViewer is related to: go-moose is related to: Network Ontology Analysis is related to: Onto-Compare is related to: Onto-Express is related to: OntoVisT is related to: STRAP is related to: CGAP GO Browser is related to: COBrA is related to: Gene Class Expression is related to: GeneInfoViz is related to: GOfetcher is related to: GoFish is related to: GOProfiler is related to: GOanna is related to: Manatee is related to: Pandora - Protein ANnotation Diagram ORiented Analysis is related to: TAIR Keyword Browser is related to: Wandora is related to: GOTaxExplorer is related to: Onto-Miner is related to: Onto-Translate is related to: ToppGene Suite is related to: DBD - Slim Gene Ontology is related to: ONTO-PERL is related to: Blip: Biomedical Logic Programming is related to: OWL API is related to: CLENCH is related to: BiNGO: A Biological Networks Gene Ontology tool is related to: CateGOrizer is related to: FuSSiMeG: Functional Semantic Similarity Measure between Gene-Products is related to: ProteInOn is related to: GeneMerge is related to: GraphWeb is related to: ClueGO is related to: CLASSIFI - Cluster Assignment for Biological Inference is related to: GOHyperGAll is related to: FuncAssociate: The Gene Set Functionator is related to: GOdist is related to: FuncExpression is related to: FunCluster is related to: FIVA - Functional Information Viewer and Analyzer is related to: GARBAN is related to: GOEx - Gene Ontology Explorer is related to: SGD Gene Ontology Slim Mapper is related to: GOArray is related to: SNPsandGO is related to: GoSurfer is related to: GOtcha is related to: MAPPFinder is related to: GoAnnotator is related to: MetaGeneProfiler is related to: OntoGate is related to: ProfCom - Profiling of complex functionality is related to: SerbGO is related to: SOURCE is related to: Ontologizer is related to: THEA - Tools for High-throughput Experiments Analysis is related to: Generic GO Term Mapper is related to: GREAT: Genomic Regions Enrichment of Annotations Tool is related to: GoBean - a Java application for Gene Ontology enrichment analysis is related to: TXTGate is related to: GO-Module is related to: IT-GOM: Integrated Tool for IC-based GO Semantic Similarity Measures is related to: G-SESAME - Gene Semantic Similarity Analysis and Measurement Tools is related to: MalaCards is related to: FSST - Functional Similarity Search Tool is related to: Expression Profiler is related to: GOChase is related to: GoPubMed is related to: Whatizit is related to: REViGO is related to: WEGO - Web Gene Ontology Annotation Plot is related to: Blast2GO is related to: InterProScan is related to: PubSearch is related to: TrED is related to: CharProtDB: Characterized Protein Database is related to: VirHostNet: Virus-Host Network is related to: Pathbase is related to: GO Online SQL Environment (GOOSE) is related to: Neurobehavior Ontology is related to: InterSpecies Analysing Application using Containers is related to: KOBAS is related to: ConceptWiki is related to: GeneTerm Linker is related to: Bioconductor is related to: ErmineJ is related to: Gene Ontology For Functional Analysis (GOFFA) is related to: MGI GO Browser is related to: Comparative Toxicogenomics Database (CTD) is related to: GOEAST - Gene Ontology Enrichment Analysis Software Toolkit is related to: Ontology Lookup Service is related to: LexGrid is related to: WebGestalt: WEB-based GEne SeT AnaLysis Toolkit is related to: g:Profiler is related to: OwlSim is related to: GOrilla: Gene Ontology Enrichment Analysis and Visualization Tool is related to: YeTFaSCo is related to: FastSemSim is related to: RamiGO is related to: AutismKB is related to: GeneCodis is related to: FunSpec is related to: FunNet - Transcriptional Networks Analysis is related to: PhenoM - Phenomics of yeast Mutants is related to: agriGO is related to: GOblet is related to: DynGO is related to: SeqExpress is related to: ProbeExplorer is related to: ECgene: Gene Modeling with Alternative Splicing is related to: Organelle DB is related to: Gemma is related to: Candidate Genes to Inherited Diseases is related to: Proteome Analyst PA-GOSUB is related to: Network Analysis, Visualization and Graphing TORonto is related to: GOstat is related to: Onto-Express To Go (OE2GO) is related to: Tk-GO is related to: EGAN: Exploratory Gene Association Networks is related to: Spotfire is related to: GOMO - Gene Ontology for Motifs is related to: GFINDer: Genome Function INtegrated Discoverer is related to: Generic GO Term Finder is related to: Agile Protein Interactomes DataServer is related to: AgingDB is related to: UBERON is related to: Algal Functional Annotation Tool is related to: gsGator is related to: Flash Gviewer is related to: Cerebellar Development Transcriptome Database is related to: PlantNATsDB - Plant Natural Antisense Transcripts DataBase is related to: EASE: the Expression Analysis Systematic Explorer is related to: PiGenome is related to: L2L Microarray Analysis Tool is related to: MeGO is related to: CELDA Ontology is related to: Diabetes Disease Portal is related to: MatrixDB is related to: Kidney and Urinary Pathway Knowledge Base is related to: MouseCyc is related to: Candida Genome Database is related to: Honey Bee Brain EST Project is related to: ECO is related to: FlyMine is related to: Gramene is related to: 3D-Interologs is related to: Biomine is related to: UniProtKB is related to: NCBI BioSystems Database is related to: EBIMed is related to: Coremine Medical is related to: EMAGE Gene Expression Database is related to: GeneMANIA is related to: Yeast Search for Transcriptional Regulators And Consensus Tracking is related to: GeneTrail is related to: Magic is related to: Mouse Genome Informatics (MGI) is related to: FlyBase is related to: InterPro is related to: InnateDB is related to: canSAR is related to: HPRD - Human Protein Reference Database is related to: CRCView is related to: Integrated Manually Extracted Annotation is related to: LegumeIP is related to: Renal Disease Portal is related to: PhenoGO is related to: DOAF is related to: OBO is related to: biomaRt is related to: OncoboxPD is parent organization of: AmiGO is parent organization of: GOlr is parent organization of: RefGenome is parent organization of: OBO-Edit is parent organization of: OWLTools is parent organization of: Gene Ontology Tools is parent organization of: Gene Ontology Extension is parent organization of: SO is parent organization of: go-db-perl is parent organization of: go-perl works with: topGO works with: DIANA-mirPath works with: GOnet |
European Union QLRI-CT-2001-0098; European Union QLRI-CT-2001-00015; NHGRI P41 HG002273 |
PMID:23161678 PMID:10802651 |
Free, Freely available, Available for download | biotools:go, OMICS_02278, nif-0000-02915 | http://bioportal.bioontology.org/ontologies/GO https://bio.tools/go |
SCR_002811 | the Gene Ontology, GO, Gene Ontology Resource, Gene Ontology | 2026-02-14 02:00:32 | 10623 | ||||
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Charles University; Prague; Czech Republic Resource Report Resource Website 1+ mentions |
Charles University; Prague; Czech Republic (RRID:SCR_002931) | CU | university | Research university located in Prague, Czech Republic. | university, research university, degree |
is parent organization of: IRESite is parent organization of: Database of Germline p53 Mutations is parent organization of: Culture Collection of Fungi is parent organization of: IRESite is parent organization of: Charles University Vinicna Microscopy Core Facility |
nlx_87455, ISNI 0000 0004 1937 116X, Crossref Funder ID 100007397, Wikidata Q31519, GRID grid.4491.8 | https://ror.org/024d6js02 | SCR_002931 | Charles University, Charles University in Prague, Univerzita Karlova | 2026-02-14 02:00:28 | 7 | |||||||
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Genox Corpooration Resource Report Resource Website |
Genox Corpooration (RRID:SCR_002930) | commercial organization | Biotechnological company that produces and supplies materials to oxidative stress and aging researchers. | oxidative stress, biomarker, antibody | nlx_152373 | SCR_002930 | 2026-02-14 02:00:35 | 0 | |||||||||||
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Time-series RNA-seq Analysis Package Resource Report Resource Website 1+ mentions |
Time-series RNA-seq Analysis Package (RRID:SCR_002935) | TRAP | software resource | A comprehensive software package integrating all necessary tasks such as mapping short reads, measuring gene expression levels, finding differentially expressed genes (DEGs), clustering and pathway analysis for time-series data in a single environment. | time-series, rna-seq, analysis |
is listed by: OMICtools has parent organization: Seoul National University; Seoul; South Korea |
PMID:24518221 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02590 | SCR_002935 | 2026-02-14 02:00:35 | 3 | |||||||
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Wasserman Lab Online Software Tools Resource Report Resource Website 1+ mentions |
Wasserman Lab Online Software Tools (RRID:SCR_002892) | software resource, software library, software toolkit | This portal leads to the numerous Wasserman Lab online software tools available for use. The following are list of active Software tools available: - ConSite: Transcription factor binding site detection using phylogenetic footprinting - dbMTN: Multiple Tissue Northern Blot Comparison Tool - Gene Set Builder: A tool for collation, curation and distribution of sets of genes - The Gene Characterization Index: a bioinformatics method for scoring the extent to which a protein-encoding gene is functionally described - JASPAR: Transcription Factor Binding Profile Database - MSCAN: Algorithm that detects clusters of transcription factor binding sites in genomic sequences - NHRscan: A computational predictor of nuclear hormone receptor binding sites - oPOSSUM: Web-based analysis of over-represented transcription factor binding sites - ORCA: Transcription factor binding site detection using phylogenetic footprinting (alternative to ConSite) - OrthoSeq: Alignment of DNA sequences - PAZAR: An open-access system for the collection and dissemination of regulatory sequence annotation - Phylofoot: Tools for phylogenetic footprinting - RAVEN: Regulatory analysis of Variation in ENhancers - SAGE2Splice: A tool that uses unmapped SAGE tags to predict novel splice junctions in the genome - TFBS: Perl modules for transcription factor binding site detection and analysis - TFCat: TFCat is a catalog of mouse and human TFs based on a reliable core collection of annotations obtained by expert review of the scientific literature. - TFe: An online encyclopedic collection of well-studied transcription factor proteins in the human, mouse, and rat genomes - Ulysses: Protein Interactions Conserved Across Evolution | lab, library, online, software, tool | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-25613 | SCR_002892 | Wasserman Software | 2026-02-14 02:00:34 | 9 | |||||||||
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GenScript Resource Report Resource Website 5000+ mentions |
GenScript (RRID:SCR_002891) | commercial organization | Commercial organization which provides life science services and products to researchers. They specialize in gene synthesis, peptide, protein, antibody and preclinical drug development service. | gene synthesis service, drug development, reagent provider | nlx_152374 | http://www.dddmag.com/company-profiles/genscript-usa-inc | SCR_002891 | GenScript USA, GenScript USA Inc | 2026-02-14 02:00:20 | 7067 |
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