CrossChip: a system supporting comparative analysis of different generations of Affymetrix arrays
Open Access
- 31 January 2005
- journal article
- research article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 21 (9) , 2116-2117
- https://doi.org/10.1093/bioinformatics/bti288
Abstract
Summary: To increase compatibility between different generations of Affymetrix GeneChip arrays, we propose a method of filtering probes based on their sequences. Our method is implemented as a web-based service for downloading necessary materials for converting the raw data files (*.CEL) for comparative analysis. The user can specify the appropriate level of filtering by setting the criteria for the minimum overlap length between probe sequences and the minimum number of usable probe pairs per probe set. Our website supports a within-species comparison for human and mouse GeneChip arrays. Availability:http://www.crosschip.org Contact:skong@cgr.harvard.eduKeywords
This publication has 4 references indexed in Scilit:
- Combining gene expression data from different generations of oligonucleotide arraysBMC Bioinformatics, 2004
- Sequence-matched probes produce increased cross-platform consistency and more reproducible biological results in microarray-based gene expression measurementsNucleic Acids Research, 2004
- Reproducibility of gene expression across generations of Affymetrix microarraysBMC Bioinformatics, 2003
- Analysis of matched mRNA measurements from two different microarray technologiesBioinformatics, 2002