Table 3

Example genes from the consensus sets of groups 1-3 ordered by their average rank across all DTs

ProbeID

Average rank

Gene symbol

Description


Consensus group 1

Early

201577_at

627.1

NME1*

Non-metastatic cells 1, protein (NM23A)

200812_at

633.8

CCT7

Chaperonin containing TCP1, subunit 7 (eta)

201202_at

875.7

PCNA

Proliferating cell nuclear antigen

205436_s_at

890.0

H2AFX

H2A histone family, member X

201476_s_at

904.6

RRM1

Ribonucleotide reductase M1 polypeptide

200910_at

922.9

CCT3

Chaperonin containing TCP1, subunit 3 (gamma)

202330_s_at

924.1

UNG

Uracil-DNA glycosylase

202503_s_at

1060.0

KIAA0101*

KIAA0101

222077_s_at

1146.2

RACGAP1

Rac GTPase activating protein 1

204170_s_at

1188.5

CKS2

CDC28 protein kinase regulatory subunit 2

Consensus group 2

Early

204766_s_at

530.6

NUDT1

Nudix (nucleoside diphosphate linked moiety X)-type motif 1

204825_at

629.0

MELK

Maternal embryonic leucine zipper kinase

203270_at

636.6

DTYMK

Deoxythymidylate kinase (thymidylate kinase)

218585_s_at

768.5

DTL

Denticleless homolog (Drosophila)

220085_at

772.6

HELLS

Helicase, lymphoid-specific

Late

205741_s_at

3587.9

DTNA

Dystrobrevin, alpha

204279_at

3816.5

PSMB9

Proteasome (prosome, macropain) subunit, beta type, 9 (large multifunctional peptidase 2)

204416_x_at

3944.6

APOC1

Apolipoprotein C-I

202307_s_at

3987.2

TAP1

Transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)

209040_s_at

4243.6

PSMB8

Proteasome (prosome, macropain) subunit, beta type, 8 (large multifunctional peptidase 7)

Consensus group 3

Early

204825_at

629.0

MELK

Maternal embryonic leucine zipper kinase

202503_s_at

1060.0

KIAA0101*

KIAA0101

202705_at

1095.9

CCNB2

Cyclin B2

222077_s_at

1146.2

RACGAP1

Rac GTPase activating protein 1

204170_s_at

1188.5

CKS2

CDC28 protein kinase regulatory subunit 2

Late

208997_s_at

3296.1

UCP2

Uncoupling protein 2 (mitochondrial, proton carrier)

205798_at

3499.9

MMP7

Matrix metallopeptidase 7 (matrilysin, uterine)

202307_s_at

3724.7

PPGB

Protective protein for beta-galactosidase (galactosialidosis)

209166_s_at

3946.3

IL7R

Interleukin 7 receptor

206707_x_at

3987.2

TAP1

Transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)

208812_x_at

4485.7

HLA-C

Major histocompatibility complex, class I, C


To identify only the most relevant genes, the definition of 'consensus gene set' was tightened from the definition employed in Figure 7. Consensus group 1 = 20 genes overexpressed in at least 15/16 data sets belonging to group 1; consensus group 2 = 58 genes overexpressed in all data sets (6/6) belonging to group 2; consensus group 3 = 29 genes overexpressed in 9/13 data sets belonging to group 3. Bold entries are those expressed more than three times above median in at least one of murine E6, E7, E8, E9, E10 (Symatlas). Italicized entries are those expressed more than three times above median in at least one of the following human cell types: CD4+ T cells, CD8+ T cells, CD19+ B cells (peripheral blood), BDCA4+ dendritic cells, B lymphoblasts (peripheral blood). *Expression data not available in Symatlas.

Naxerova et al. Genome Biology 2008 9:R108   doi:10.1186/gb-2008-9-7-r108

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