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Rama Balakrishnan. AmiGO Tutorial. Saccharomyces Genome Database (SGD) Stanford University. What is AmiGO?. Web application that reads from the GO Database (mySQL) Allows to browse the ontologies view annotations from various species compare sequences using BLAST (GOst)
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Rama Balakrishnan AmiGO Tutorial Saccharomyces Genome Database (SGD) Stanford University
What is AmiGO? • Web application that reads from the GO Database (mySQL) • Allows to • browse the ontologies • view annotations from various species • compare sequences using BLAST (GOst) • Ontologies are loaded into the database from the gene_ontology.obo file • Annotations are loaded from the gene_association files submitted by the various annotating groups • Only ‘Non-IEA’ annotations are loaded
Node has children, can be clicked to view children Node has been opened, can be clicked to close Leaf node or no children Is_a relationship Part_of relationship pie chart summary of the numbers of gene products associated to any immediate descendants of this term in the tree. Browsing the Ontologies
Annotations associated with a term Annotation data are from the gene_associations file submitted by the annotatinggroups
GOST-Gene Ontology blaST • Blast a protein sequence against all gene products that have a GO annotation • Can be accessed from the AmiGO Home page (front page)
Contact us • We welcome your input • Please send suggestions, bugs to us • gohelp@geneontology.org