Table 2

Comparison of gene expression changes in Hdh-KO MEF and differentiated Hdh-null ES cells. The genes are classified into functional categories (groups) based on GO classification as explained by Strehlow at al (2007). The number of genes affected in differentiated Hdh-null ES cells is shown. The number of these genes present among the genes affected in our experiments with Hdh-KO MEF cells is also shown. The official gene symbols, accession numbers, Diff scores and fold changes are shown for all overlapping genes. The positive Diff score corresponds to the genes upregulated in Hdh-KO MEG cells, the negative Diff score corresponds to the genes downregulated in Hdh-KO MEF cells. The genes which expression is affected in the opposite direction when Hdh-null ES and Hdh-KO MEF data are compared are shown in italic.

Gene groups

Gene # HMG paper

overlap in SupTable 1

Overlap gene symbol

Accession

Diff_Score

change fold


extracellur space

99

1

ilvbl

NM_173751.3

0.037888

2.037322394

extracellular matrix/components conferring tensile strength/cell adhesion

38

2

Emp3 (Ymp)

NM_010129.1

85.9198

2.395867383

recepto binding/hormone activity

27

0

Epb4.1l3

NM_013813.1

23.5427

1.63780359

lysosome activity/protein degradation

17

0

enzyme inhibitor activity

15

0

growth, proliferation and differentiation

15

1

Emp3 (Ymp)

NM_010129.1

85.9198

2.395867383

apoptosis

10

1

Txnl1

NM_016792.2

0.003063

2.178257007

axonogenesis

10

0

synaptic activity

14

0

wnt signaling

6

0

metal ion transport

8

1

Crip1

NM_007763

0.049374

5.609568813

transport

4

0

retinol/retinal/retinoid/isoprenoid binding

5

0


Zhang et al. BMC Neuroscience 2008 9:38   doi:10.1186/1471-2202-9-38

Open Data