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Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing

John Castle†, Phil Garrett-Engele†, Christopher D Armour, Sven J Duenwald, Patrick M Loerch, Michael R Meyer, Eric E Schadt, Roland Stoughton, Mark L Parrish, Daniel D Shoemaker and Jason M Johnson*

Rosetta Inpharmatics, Merck & Co. Inc., 12040 115th Ave NE, Kirkland, Washington 98034, USA

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Genome Biology 2003, 4:R66 doi:10.1186/gb-2003-4-10-r66

Published: 19 September 2003

Additional files

Additional data file 1:

A figure showing the optimization of formamide concentration and probe length for detecting insertions and deletions in exon-exon junctions

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Additional data file 2:

A figure showing the ANXA7 junction probe intensities for all pairwise combinations of exons

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Additional data file 3:

A figure showing the ANXA7 junction probe intensities for all pairwise combinations of exons

Format: PDF Size: 43KB Download file

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Additional data file 4:

Additional details of the full-length mRNA amplification and labeling protocol

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Open Data