Table 1

Downregulated genes in the ATRX-null forebrain at E13.5 and P0.5.

Chromosome


Gene

Description

Mouse

Human

Fold Change

Genbank


E13.5 Downregulated Genes

IMAGE:354942

Similar to dehydrogenase/reductase (SDR family) X chromosome (Dhrsxy)1

4

X/Y PAR

-4.81

W45978

Csf2ra

Colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)

19

X/Y PAR

-3.05

BM941868

Vit

Vitrin

17

2

-2.74

AF454755

Shox2

Short stature homeobox 2

3

X/Y PAR

-2.73

AV332957

Tcf7l2

Transcription factor 7-like 2, T-cell specific, HMG-box

19

10

-2.72

BB175494

Gbx2

Gastrulation brain homeobox 2

1

2

-2.55

L39770

IMAGE:3326212

Similar to Arylsulfatase E (Arse)1

-

X/Y

-2.21

BE457721

Syt13

Synaptotagmin 13

2

11

-2.19

BB244585

Cd99

CD99 antigen

4

X/Y PAR

-2.09

AK004342

Nxph1

Neurexophilin 1

6

7

-1.92

BB274960

Neurod4

Neurogenic differentiation 4

10

12

-1.86

NM_007501

Nxph2

Neurexophilin 2

2

2

-1.86

BB169128

Peg10

Paternally expressed 10

6

7

-1.86

BG076799

RIKEN:1810009N02

Similar to Asmtl (acetylserotonin O-methyltransferase-like)1

-

X/Y PAR

-1.81

AK007409

Wif1

Wnt inhibitory factor 1

10

12

-1.81

BC004048



P0.5 Downregulated Genes

Csf2ra

Colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)

19

X/Y PAR

-7.14

BM941868

Nr4a2

Nuclear receptor subfamily 4, group A, member 2

2

2

-3.33

NM_013613

IMAGE:354942

Similar to Dhrsxy (dehydrogenase/reductase (SDR family) X chromosome1

4

X/Y PAR

-3.33

W45978

IMAGE:5656844

Unknown EST

-

-

-2.86

BI320076

Met

Met proto-oncogene

6

7

-2.78

BG060788

Cd99

CD99 antigen

4

X/Y PAR

-2.22

AK004342

Dsc3

Desmocollin 3

18

18

-2.22

NM_007882

Mbp

Myelin basic protein

18

18

-2.17

AI323506

Cbln4

Cerebellin 4 precursor protein

2

20

-2.08

AV343573

EST

Unknown EST

-

-

-2.08

BI202412

Trpc4

Tansient receptor potential cation channel, subfamily C, member 4

3

13

-2.04

BB271442

RIKEN:1810009N02

Similar to Asmtl (acetylserotonin O-methyltransferase-like)1

-

X/Y PAR

-2.00

AK007409


1By BLASTn

cRNA was generated from total forebrain RNA from three pairs of littermate-matched ATRX-null and wild type forebrain tissue and hybridized to an Affymetrix Mouse Genome 430 2.0 Array. Data was analyzed using GeneSpring. Probesets were filtered by fold change (1.8 fold at P0.5, 2 fold at E13.5) and confidence, P < 0.05, and duplicate genes were removed. Ancestral PAR genes are highlighted in grey.

Levy et al. BMC Genomics 2008 9:468   doi:10.1186/1471-2164-9-468

Open Data