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

doi:10.1186/gb-2003-4-10-r66

Genome Biology

Volume 4
Issue 10

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Castle J
Garrett-Engele P
Armour CD
Duenwald SJ
Loerch PM
Meyer MR
Schadt EE
Stoughton R
Parrish ML
Shoemaker DD
Johnson JM

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Castle J
Garrett-Engele P
Armour CD
Duenwald SJ
Loerch PM
Meyer MR
Schadt EE
Stoughton R
Parrish ML
Shoemaker DD
Johnson JM
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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

author email corresponding author email* Contributed equally

Genome Biology 2003, 4:R66doi:10.1186/gb-2003-4-10-r66


Published:	19 September 2003

Subject areas: Genome studies, Bioinformatics, Methods, Genetics

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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