Abstract #301662

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JSM 2003 Abstract #301662
Activity Number: 273
Type: Invited
Date/Time: Tuesday, August 5, 2003 : 2:00 PM to 3:50 PM
Sponsor: Biometrics Section
Abstract - #301662
Title: Monitoring the Human Transcriptome with Genome Tiling Microarrays
Author(s): Simon Cawley*+ and Stefan Bekiranov and Antonio Piccolboni and Philipp Kapranov and Jorg Drenkow and Gregg Helt and Jill Cheng and Thomas R. Gingeras
Companies: Affymetrix Inc. and Affymetrix Inc. and Affymetrix Inc. and Affymetrix Inc. and Affymetrix Inc. and Affymetrix Inc. and Affymetrix Inc. and Affymetrix Inc.
Address: 6550 Vallejo St., Emeryville, CA, 94608,
Keywords: DNA ; microarray ; gene expression
Abstract:

DNA microarrays have emerged as a powerful tool, the most common application of which has been to monitor gene expression. Most microarrays to date have been designed to interrogate a select set of sequences determined a priori to be expressed under at least some biological conditions, typically by using probes complementary to known genes or EST clusters. Taking advantage of the high density of Affymetrix arrays, a genome tiling array has been constructed using 25-mer probes to interrogate the non-repetitive sequence of human chromosomes 21 and 22 at a resolution of 35 base pairs, thereby avoiding the need to make prior assumptions about which sequences should be represented. These arrays have been used in the study of RNA expression in a set of 11 cell lines. We discuss some of the statistical problems arising in the estimation of expression within these cell lines and the discovery of much more transcription than can be accounted for by current genomic annotations.

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