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. Author manuscript; available in PMC: 2014 Jan 27.
Published in final edited form as: Front Biosci (Elite Ed). 2010 Jan 1;2:325–338. doi: 10.2741/e93

Table 4.

An overview of tools, resources, and studies that utilize Affymetrix probe sequence data.

Purpose Matching method Affymetrix chip considered Software Resources
Gautier Tools for redefining probe sets R function: matchprobes (using C library string) Hgu95Av2, Hgu133A Altcdfenvs RefSeq
Dai Resources for redefining probe sets NA All human, mouse, and rat GeneChips NA UniGene, RegSeq, DoTS, ENSEMNL, Exon
Kong Software for integrating different generations of Affymetrix chips Blat Some human and mouse hcips Crosschip Human genome assembly was used to filter out absent probes or ambiguous probes
Harbig Sequence-based correction for Hgu133Plus Blast Hgu133Plus NA Resource for Hgu133Plus
Liu Tools and resources for redefining probe sets Blat All GeneChips AffyProbeMiner Complete CDS from GenBank Refseq