Chip Comparer
This program will first map each probeset ID in your selected microarray chips (A and B) to corresponding LocusID using LocusLink and UniGene dbs, then report the probeset ID pair (from A and B) that refer to the same gene locus (if same organism) or the orthologs (if different organisms, using NCBI-HomoloGene).
Compare microarray chip A:
Hs: HG_U133_Plus_2
Hs: HG_U133A_2
Hs: HG_U133A
Hs: HG_U133B
Hs: HG_U133_X3P
Hs: HG_U95Av2
Hs: HuGeneFL
Hs: OPERON_HUMANv2
Hs: Atlas_v1.2
Hs: Stanford_cDNA_array
Hs: Human_V3.0.3_s+
Mm: Mouse430_2
Mm: Mouse430A_2
Mm: MOE430A
Mm: MOE430B
Mm: MG_U74Av2
Mm: MG_U74Bv2
Mm: MG_U74Cv2
Mm: Mu11KsubA
Mm: Mu11KsubB
Mm: OPERON_MOUSEv2
Mm: OPERON_MOUSEv3
Mm: MEEBO
Mm: Incyte_GEM1_8k
Mm: Incyte_GEM1_6k
Mm: Agilent_G4121A
with B:
Hs: HG_U133_Plus_2
Hs: HG_U133A_2
Hs: HG_U133A
Hs: HG_U133B
Hs: HG_U133_X3P
Hs: HG_U95Av2
Hs: HuGeneFL
Hs: OPERON_HUMANv2
Hs: Atlas_v1.2
Hs: Stanford_cDNA_array
Hs: Human_V3.0.3_s+
Mm: Mouse430_2
Mm: Mouse430A_2
Mm: MOE430A
Mm: MOE430B
Mm: MG_U74Av2
Mm: MG_U74Bv2
Mm: MG_U74Cv2
Mm: Mu11KsubA
Mm: Mu11KsubB
Mm: OPERON_MOUSEv2
Mm: OPERON_MOUSEv3
Mm: MEEBO
Mm: Incyte_GEM1_8k
Mm: Incyte_GEM1_6k
Mm: Agilent_G4121A
Hint: to see the chip annotation and probe convergence, compare a chip to itself.
When a probesetID-corresponding UniGene cluster matches multiple LocusIDs, use
primary LocusID
all LocusIDs
When a probesetID in chip A matches multiple probesetIDs in B, report the matched pairs
in separate rows
(format A, one:multiple)
in separate rows
(format B, one:one)
in one row
Last updated: 08/08/2005
Comments and suggestions: to Guang Yao (
yao00003@mc.duke.edu
)