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OJBTM
Online Journal of Bioinformatics ©
Volume 9 (2):108-112,
2008
CateGOrizer: A Web-Based Program
to Batch Analyze
Gene Ontology Classification
Categories
Hu Zhi-Liang1, Bao J2, Reecy
JM1
1Department(s) of Animal
Science and 2Computer Science,
abstract
Zhi-Liang Hu, Bao J, Reecy JM., CateGOrizer:
A Web-Based Program to Batch Analyze Gene Ontology Classification Categories,
Online J Bioinformatics 9(2):108-112, 2008. With the accelerating rate at which gene-associated
research data are accumulated, there is a growing need for batch analysis of
large-scale sequence annotations such as Gene Ontology (GO). A
frustrating problem with GO annotation has been the inability to properly count
the occurrences of GO terms within certain parental categories under a given
classification method such as GO Slim. The GO term occurrence count by
category can also be time consuming when all possible paths are searched with
looped structured query language (SQL). The CateGOrizer we present here
is designed to overcome these problems. The CateGOrizer utilizes
pre-computed transitive closure paths, performs GO classification count under
any given GO slim through a web interface. Our approach has significantly
reduced the run time and improved flexibility in comparison to peer
programs. However, users are advised to take caution when choosing a
proper classification system, to design a strategy objectively count GO terms
and properly interpret the results.
Key-Words: Analysis, Gene Ontology, classifications
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