Table 2

Simulation of expected number of differentially expressed ortholog sets: ortholog overview statistics

Category

Total

Up/down


Unique Ames mouse genes

7,188

3,517/3,671

Unique Little mouse genes

7,157

3,442/3,715

Unique fly genes

10,395

4,951/5,444

Unique worm genes

12,414

5,799/6,615

Worm-fly orthologs

3,588

NA

Worm-Ames orthologs

2,469

NA

Fly-Ames orthologs

3,125

NA

Fly-Little orthologs

3,105

NA

Worm-Little orthologs

2,464

NA

Worm-fly-Little orthologs

2,152

NA

Worm-fly-Ames orthologs

2,323

NA

DE unique genes, worm

953

558/395

DE unique genes, fly

1,169

893/276

DE genes, Ames

1,416

761/655

DE genes, Little

1,042

575/467


The number of unique genes for each dataset shows the number of remaining probe sets in each analysis following removal of non-reporting probe sets, promiscuous and orphan probe sets, and multiple probe sets that report the same gene (in each case, the most significant probe set was retained). Total orthologs: number of ortholog pairs/sets with expression data in each of the relevant datasets. Differentially expressed (DE) unique genes: number of significantly differentially expressed (at q < 0.1) unique genes in each dataset.

McElwee et al. Genome Biology 2007 8:R132   doi:10.1186/gb-2007-8-7-r132

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