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Open Access Highly Accessed Research article

Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays

Joshua S Bloom1, Zia Khan2, Leonid Kruglyak345, Mona Singh23 and Amy A Caudy3*

Author Affiliations

1 Department of Molecular Biology, Princeton University, New Jersey, USA

2 Department of Computer Science, Princeton University, New Jersey, USA

3 Lewis-Sigler Institute of Integrative Genomics, Princeton University, New Jersey, USA

4 Department of Ecology and Evolutionary Biology, Princeton University, New Jersey, USA

5 Howard Hughes Medical Institute, Princeton University, New Jersey, USA

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BMC Genomics 2009, 10:221  doi:10.1186/1471-2164-10-221

Published: 12 May 2009

Additional files

Additional File 1:

Table S1 – Read Utilization. Table S2 – Unique Read Origin.Table S3 – Multiple Read Origin. Table S4 – Correlations of Differential Gene Expression Between Illumina 1 G and Agilent Arrays. Tables of Illumina sequencing read utilization and read origin. Correlations of differential gene expression, with and without thresholding on read coverage.

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