UCL Institute of Cardiovascular Science



InformationGO ConsortiumHome page for the GO consortium (GOC)
 GOA statisticsView the current annotation statistics for UniProt GO
 GO Evidence CodesGuide to GO evidence codes
 Annotation TutorialTutorial describing how electronic and manual annotations are made
 Cardiovascular Gene ListA searchable list of 4000+ cardiovascular associated human genes
 Alzheimer's Gene ListA searchable list of 91 Alzheimer's associated human genes
 Parkinson's Gene ListA searchable list of 330 Parkinson's associated human genes
 WhatizitCan paste in any text for highlighting with potential GO terms
 Dimmer et al., 2008 (pdf) This article provides an overview of the Gene Ontology, its uses and the software available for the analysis of high-throughput data. We recommend that you analyse your data with a variety of functional analysis tools, as there will be differences in the date the annotation dataset was uploaded into the tool and the statistical packages used. The tools listed below are easy to use and generally update their datasets regularly
 Tutorial (pdf)This powerpoint presentation introduces the basic features of four third-party GO analysis tools; Blast2GO, FatiGO, Onto-Express, and Ontologizer.
BrowsersQuickGOFind GO terms or terms associated with specific UniProt accessions
 AmiGOFind GO terms, filters for species, datasource or evidence codes available
 IntAct Provides a database and analysis tools for molecular interaction data
 IntAct Complex PortalProvides manually curated macromolecular complexes from a number of key model organisms.

Provides computational access to molecular-interaction data including protein-protein interaction (PPI) resources for use with network analysis tools such as Cytoscape. Now includes access to GO annotation file derived non-IMEX datasets called EBI-GOA-nonIntAct (PPI data) and EBI-GOA-miRNA. These files have been made available through a collaboration between UCL and EMBL-EBI. For more details, read our web page dedicated to PSCIQUIC.

 NCBI GeneFind gene record with wide range of annotations and links
 UniProt Find protein record with wide range of annotations and links
Literature search enginesEurope PMCLiterature search and text mining tool. Can highlight abstracts to show potential GO terms
 PubMedNCBI literature search tool with multiple filter options
 iHOPLinks together protein information. Search using gene symbol or accession ID
 GoPubMedLiterature search tool that categorises results by GO terms mentioned in abstract
Functional analysis toolsGO Consortium term enrichment toolGOC tool, provides a table of enriched terms, and associated sample frequency and genes. For human analysis either input your own background dataset or leave this section blank, the tool will then use the one available with the 'select the database filter' option 'UniProtKB'
 BabelomicsProvides a range of functional analysis tools, e.g. FatiGO and 'gene set analysis'
 Blast2GODisplays a wide range of outputs and graphical views
 g:Profilerperforms statistical enrichment analysis to find over-representation of information like Gene Ontology terms. Its output is tabular graphic where ontology tree relationships of enriched terms are shown. Other output formats are available and can be used as input for other software such as EnrichmentMap via Cytoscape software.
 Onto-expressDisplays the enriched GO terms within the ontology structure or as a table, can be more difficult to get to work due to pop-ups
 OntologizerRequires local installation. Displays a table of results related to the term and a list of all genes annotated to the term in the study set, as well as an integrated graphical display
 VLADMGI tool which provides a table of enriched terms, and the associated genes, as well as a graph of the enriched terms. For human analysis choose 'Annotation Set: goa_human [date]' option from dropdown menu
 GeneMANIA Overlays enriched GO terms on a protein 'network'. Online version can only analyse short gene lists (50 genes), for longer lists use this tool as a plugin with Cytoscape. Be selective in the networks tab to avoid error prone text mined data.
Disease specific databasesHGVSContains links to locus specific mutation databases
 CVCGDContains more than 250 Coronary artery disease related genes
 PDMapThe Parkinson's Disease map is a knowledge repository established to describe mechanisms of PD by means of molecular networks to grasp complex relationships between the genetic and environmental risk factors.