Multivariate segmentation in the analysis of transcription tiling array data

Authors:
Antonio Piccolboni
Affiliations:
Affymetrix, Inc., Emeryville, CA
Venue:
RECOMB'07 Proceedings of the 11th annual international conference on Research in computational molecular biology
Year:
2007

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Abstract

Tiling DNA microarrays extend current microarray technology by probing the non-repeat portion of a genome at regular intervals in an unbiased fashion. A fundamental problem in the analysis of these data is the detection of genomic regions that are differentially transcribed across multiple conditions. We propose a linear time algorithm based on segmentation techniques and linear modeling that can work at a user-selected false discovery rate. It also attains a four-fold sensitivity gain over the only competing algorithm when applied to a whole genome transcription data set spanning the embryonic development of Drosophila melanogaster.