Journal article

Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data

MH Dai, PL Wang, AD Boyd, G Kostov, B Athey, EG Jones, WE Bunney, RM Myers, TP Speed, H Akil, SJ Watson, F Meng

NUCLEIC ACIDS RESEARCH | OXFORD UNIV PRESS | Published : 2005

Abstract

Genome-wide expression profiling is a powerful tool for implicating novel gene ensembles in cellular mechanisms of health and disease. The most popular platform for genome-wide expression profiling is the Affymetrix GeneChip. However, its selection of probes relied on earlier genome and transcriptome annotation which is significantly different from current knowledge. The resultant informatics problems have a profound impact on analysis and interpretation the data. Here, we address these critical issues and offer a solution. We identified several classes of problems at the individual probe level in the existing annotation, under the assumption that current genome and transcriptome databases a..

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University of Melbourne Researchers