Introduction
GOTM is a Gene Ontology (GO) enrichment analysis tool. It compares a user-uploaded gene list with all GO categories to identify those with enriched number of user-uploaded genes. The result is visualized in a directed acyclic graph (DAG) in order to maintain the relationship among the enriched GO categories.
This is a new version of the original GOTM. It is designed for a quick analysis of gene lists generated from microarray, proteomics, and other large-scale studies. The new version is considerably faster and requires no login.
Please follow the workflow below to analyze your gene lists:
1. Select the organism of interest.
2. Upload a gene/protein list in the txt format, one ID per row. Optionally, a value can be provided for each ID. In this case, put the ID and value in the same row and separate them by a tab. Then pick the ID type that corresponds to the list of IDs.
3. Analyze the uploaded ID list for GO Category Enrichment by selecting an appropriate predefined reference set or uploading a user-defined reference set. If a user-defined reference set is uploaded, ID type also needs to be provided. After this, select the analysis parameters (e.g., significance level, multiple adjustment method, etc.).
4. Retrieve results by opening the Directed Acyclic Graph (DAG) directly from this web site. You may also open and/or download a TSV file, or download the zipped DAG and all results associated with it to a directory on your desktop.
Data source
The current version of the GOTM is 2.0.56, which was updated on 10/22/2009. It supports eight organisms including human, mouse, rat, worm, fly, yeast, dog, and zebrafish. Information in this version was collected from
Ensembl Mart (version 56, 09/23/2009) and
Gene Ontology (version 1.804, 09/25/2009).
Usage statistics since November 1, 2009
The local usage count is 378
and the last date of local usage: 02/06/10
The remote usage count is 2617
and the last date of remote usage: 02/09/10
GOTM is currently developed and maintained by Dexter Duncan and Bing Zhang at the Zhang Lab. The project was initiated by Bing Zhang, Stefan Kirov, Denise Schmoyer, and Jay Snoddy in 2003.
Funding credits: NIAAA Integrative Neuroscience Initiative on Alcoholism (U01AA016662, U01AA013512); NIH/NIDA BISTI (P01DA015027); NIH/NIMH (P50MH078028).
