Gene Ontology Tools
web-based tool |
downloadable tool |
 
 
compatible OSs (for downloadable tools) |
Consortium Tools
The tools below are developed within the Gene Ontology Consortium. They continue to be improved and expanded and you can receive support in using these tools by writing to the GO helpdesk.
The tools provided by the Gene Ontology Consortium are free to academics.
AmiGO
The Gene Ontology Consortium
No publication
AmiGO provides an interface to search and browse the ontology and annotation data provided by the GO consortium. Users can search for gene products and view the terms with which they are associated; alternatively, users can search or browse the ontology for GO terms of interest and see term details and gene product annotations. AmiGO also provides a BLAST search engine, which searches the sequences of genes and gene products that have been annotated to a GO term and submitted to the GO Consortium.
AmiGO accesses the GO mySQL database; more information is available from the GO database guide.
AmiGO is developed and maintained within the GO Consortium.
OBO-Edit
The Gene Ontology Consortium
No publication
OBO-Edit [external website] is an open source, platform-independent application for viewing and editing any OBO format ontologies. OBO-Edit is a graph-based tool; its emphasis on the overall graph structure of an ontology provides a friendly interface for biologists, and makes OBO-Edit excellent for the rapid generation of large ontologies focusing on relationships between relatively simple classes.
OBO-Edit uses the OBO format flat file.
OBO-Edit is developed and maintained within the GO Consortium. OBO-Edit was previously known as DAG-Edit.
Non-Consortium Tools
Many tools have been created outside of the consortium for use with the GO ontologies. To see listings of these tools please use the links in the table below.
Tools for searching and browsing GO
Tool to display, browse and search the ontologies and/or annotations.
- CGAP GO Browser
- COBrA
- Comparative Toxicogenomics Database
- DynGO
- EP GO Browser
- Gene Class Expression
- GeneInfoViz
- GeneOntology at RZPD
- GenNav
- GOblet
- GoFish
- GONUTS
- MGI GO Browser
- Ontology Lookup Service
- PANDORA
- QuickGO at EBI
- TAIR Keyword Browser
- Tk-GO
Annotation tools
Tools for annotating genes or gene products using GO
- Blast2GO
- g:Profiler
- GeneTools
- GOanna
- GoAnnotator
- GOCat
- GoFigure
- GoPubMed
- GOtcha
- HT-GO-FAT
- InGOt (proprietary)
- InterProScan
- JAFA
- Manatee
- PubSearch
Tools for gene expression/microarray analysis
- Avadis - gene expression analysis with GO browser (proprietary)
- BiNGO
- CLENCH
- DAVID
- EASE
- eGOn v2.0
- ermineJ
- FatiGO
- FIVA
- FuncAssociate
- FuncExpression
- FunCluster
- FunNet
- G-SESAME
- GARBAN
- GENECODIS
- GeneMerge
- GFINDer: Genome Function
- GOALIE
- GOArray
- GOdist
- GOHyperGAll
- GoMiner and MatchMiner
- GOstat
- GoSurfer
- GO Term Finder
- GOTM (Gene Ontology Tree Machine)
- GOToolBox
- L2L
- Machaon Clustering and Validation Environment
- MAPPFinder
- MultiGO
- Onto-Compare
- Onto-Design
- Onto-Express
- Onto-Miner
- Onto-Translate
- OntoGate
- Ontologizer
- Ontology Traverser
- Probe Explorer
- ProfCom
- SeqExpress
- SerbGO
- SOURCE
- Spotfire Gene Ontology Advantage Application (proprietary)
- STEM: Short Time-series Expression Miner
- T-Profiler
- THEA
Other tools
- APID
- Db for Dummies!
- Flash GViewer
- FunSpec
- FuSSiMeG
- Generic GO Term Mapper
- Genes2Diseases
- GO Slim Mapper
- GO Terms Classification Counter
- GOBU
- GOChase
- GOProfiler
- GORetriever
- GOSlimViewer
- ProteInOn
- TXTGate
- Wandora
- WEGO
- Whatizit
Submit new tools
How to request that your tool be listed on these pages.
Download icon courtesy of mac.axonz.com [external website].
