Interpreting microarray results with gene ontology and MeSH

John D Osborne; Lihua Julie Zhu; Simon M Lin; Warren A Kibbe

doi:10.1007/978-1-59745-390-5_14

Interpreting microarray results with gene ontology and MeSH

Methods Mol Biol. 2007:377:223-42. doi: 10.1007/978-1-59745-390-5_14.

Authors

John D Osborne¹, Lihua Julie Zhu, Simon M Lin, Warren A Kibbe

Affiliation

¹ Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, USA.

PMID: 17634620
DOI: 10.1007/978-1-59745-390-5_14

Abstract

Methods are described to take a list of genes generated from a microarray experiment and interpret these results using various tools and ontologies. A workflow is described that details how to convert gene identifiers with SOURCE and MatchMiner and then use these converted gene lists to search the gene ontology (GO) and the medical subject headings (MeSH) ontology. Examples of searching GO with DAVID, EASE, and GOMiner are provided along with an interpretation of results. The mining of MeSH using high-density array pattern interpreter with a set of gene identifiers is also described.

Publication types

Review

MeSH terms

Cluster Analysis
Database Management Systems
Databases, Genetic
Gene Expression Profiling
Genes*
Humans
Internet
Medical Subject Headings*
Molecular Biology / methods*
Oligonucleotide Array Sequence Analysis / methods*