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Table 4 Summary of gene probe annotations for whole genome mouse microarrays and oligosets. The vendor annotated percent represents the fraction of probes that have a gene id provided by the vendor.ArrayGene annotations are automatically performed by the ArrayGene software by associating an Entrez Gene id to the sequence ids in gene lists provided by vendors. Gene coverage represents the percentage of uniquely mapped genes in the genome that are tested by gene-specific probes in the microarrays and oligosets.

From: Comparison of gene coverage of mouse oligonucleotide microarray platforms

Short Name Number of Probes Vendor annotated Vendor annotated (%) ArrayGene annotated ArrayGene annotated (%) Genes Gene coverage
Sigma 16,377 11,785 72.0 13,119 80.1 12,188 47.95
Operon3 32,149 26,245 81.6 23,298 72.5 17,764 69.89
Affy 45,102 40,627 90.1 38,086 84.4 19,214 75.6
ABI 33,012* 33,012 100.0 24,166 73.2 20,647 81.24
MEEBO 38,524 35,058 91.0 33,164 86.1 22,378 88.05
Agilent 41,174 34,866 84.7 33,709 81.9 20,163 79.33
Codelink 37,797 30,659 81.1 29,245 77.4 19,848 78.09
Operon4 36,232 18,102 50.0 27,659 76.3 21,357 84.03
Sentrix 46,133 44,399 96.2 37,895 82.1 22,993 90.47
  1. * Includes 3,817 probes targeting Celera genes with no public homolog. These probes are not annotated by ArrayGene and do not contribute the estimate of gene coverage