One useful feature of Gene Ontology (GO) is that it helps to describe the basic term hierarchies and relationships between terms within the context of biology. This GO Terms Classifications Counter helps users to analyze batch GO term classifications by grouping and counting them against a given classification methods such as GO-Slim. This tool is comprised with a set of perl CGI programs coupled with a MySQL DBMS that stores the GO terms DAG data (with pre-computed terms associations).
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INTRODUCTION:Batch analysis of GO annotations for gene function groups is a useful part of high-throughput microarray or EST data analysis. This utility is for users to count the occurrences of their GO terms within each of the pre-defined set of parent/ancestor GO terms. The program takes input of GO terms (e.g. GO:0007067) in a list format or unformatted plain text file, perform counts against one of the available classification methods such as GO_slim, GOA, EGAD, MGI_GO_slim, GO-ROOT, etc. at user's choice, or against one of your own classification methods, and then returns the results on the web (if it takes too long, it will email the user with the results link). The results include a table listing all counts and percentages, along with a pie chart. |
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USAGES: 
Step 1: Upload your GO id'sStep 2: Select a GO classification methodStep 3: Count occurrences of GO terms in each ancestral class |
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QUESTIONS AND ANSWERS:For proper use of this tool and related questions, see this list of Frequently Asked Questions (FAQ). If you have any question that's not covered by this FAQ, please don't hesitate to let us know. All feedbacks on problems and suggestions to improve the tool are appreciated. |
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PUBLICATIONS:
Zhi-Liang Hu, Jie Bao and James M. Reecy (2007).
"A Gene Ontology (GO) Terms Classifications Counter".
Plant & Animal Genome XV Conference, San Diego, CA, January 13-17, 2007.
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