Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations

Richard Shippy¹ , Timothy J Sendera¹ , Randall Lockner¹ , Chockalingam Palaniappan¹ , Tamma Kaysser-Kranich¹ , George Watts² and John Alsobrook³

¹GE Heathcare (formerly Amersham Biosciences) Chandler, Arizona 85248, USA

²Microarray Shared Service, Arizona Cancer Center, Tucson, Arizona 85724, USA

³Child Study Center, Yale University School of Medicine, New Haven, Connecticut 06510, USA

author email corresponding author email

BMC Genomics 2004, 5:61doi:10.1186/1471-2164-5-61


Published:	2 September 2004

Additional files

Additional File 1:

This file contains gene names, sample designations, C_Tvalues for triplicates, mean C_Tvalues, median C_Tvalues, standard deviation of replicates, and coefficient of variation of replicates for each gene evaluated by qrtPCR.

Format: XLS Size: 22KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 2:

This file contains gene names, oligonucleotide sequences, and oligonucleotide type (FORWARD PRIMER, HYB OLIGO, and REVERSE PRIMER) for each gene evaluated by qrtPCR.

Format: XLS Size: 19KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 3:

This file contains gene names, descriptions, GenBank accessions, log2 ratios (qrtPCR, CodeLink, and GeneChip), CodeLink probe names, and GeneChip probe set names for each gene examined by all three technologies.

Format: XLS Size: 18KB Download file

This file can be viewed with: Microsoft Excel Viewer