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.

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

* 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

Verdugo and Medrano BMC Genomics 2006 7:58   doi:10.1186/1471-2164-7-58