GoMiner: (Zeeberg et al., Genome Biology, March 2003) For Tour of GoMiner: Advance using forward arrow

GoMiner: (Zeeberg et al., Genome Biology, March 2003) GoMiner is a tool for biological interpretation of 'omic' data – including data from gene expression microarrays. Omic experiments often generate lists of dozens or hundreds of genes that differ in expression between samples, raising the question, “What the h-ll does it all mean biologically?” To answer that question, GoMiner leverages the Gene Ontology (GO) to classify the genes into biologically coherent categories and assess those categories statistically. For biological interpretation of a microarray experiment, the user enters the list of genes on the array and has the option of flagging them as up-regulated, down-regulated, or neither with respect to some index standard.

This animation presents a tour of the highlights of GoMiner’s functionality and user interface. GoMiner: (Zeeberg et al., Genome Biology, March 2003)

An Unchanged Gene An Overexpressed Gene An Underexpressed Gene Total Genes in Category Fisher’s Exact p-Value for All Changed Genes in Category Relative Enrichment of Underexpressed Genes In Category Relative Enrichment of All Changed Genes in Category Relative Enrichment of Overexpressed Genes In Category GoMiner: (Zeeberg et al., Genome Biology, March 2003)

NCBI-Structures Entrez LocusLink PubMed GeneCards MedMiner CGAP Click on a gene to link Out to Major Molecular Biology Databases Results can also be exported for further analysis with other tools

GoMiner has an additional visualization based on a Directed Acyclic Graph (DAG) view of your experiment results and GO

Categories with a depletion of changed genes Mouse over a category to see the genes that have been assigned there The relationships between the GO categories Categories with an enrichment of changed genes

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