Table 2

Expression regulation of rat orthologs of human genes localised in DN susceptibility loci and not represented on the Affymetrix arrays.

GK vs WKY

STZ-WKY vs WKY

STZ-WKY v GK

Human Ensembl

Description

Symbol

Rat Ensembl

TR

p-value

TR

p-value

TR

p-value

(ENSG00000)

(ENSRNO G000000)


Human 3q23

175066

Glycerol kinase 5

GK5

10942

1.00

Ns

0.66

0.026

0.67

2 × 10-3

114120

Solute carrier family 25, member 36

SLC25A36

39085

1.28

Ns

1.54

4 × 10-3

1.21

Ns

175093

SPRY domain-containing SOCS box protein 4

SPSB4

12862

0.78

Ns

0.37

5 × 10-3

0.47

0.013

114126

Transcription factor Dp-2 (E2F dimerization partner 2)

TFDP2

11241

0.76

Ns

1.56

Ns

2.04

Ns

114127

5'-3' exoribonuclease 1

XRN1

10027

0.71

Ns

0.66

0.030

0.93

Ns

177311

Zinc finger and BTB domain-containing protein 38

ZBTB38

12386

1.08

Ns

1.27

0.026

1.17

Ns

206250

Protein coding sequence

-

22555

0.81

Ns

0.82

Ns

1.01

Ns

Human 7q33

146856

ATP/GTP binding protein-like 3

AGBL3

10397

0.95

Ns

0.52

1 × 10-4

0.55

3 × 10-4

198074

Aldo-keto reductase 1 member B10

AKR1B10

27433

1.94

0.035

0.77

Ns

0.40

1 × 10-4

122783

Uncharacterized protein C7orf49

C7orf49

26958

0.95

Ns

0.59

0.016

0.62

5 × 10-3

Human 18q22.3-23

179981

Teashirt zinc finger homeobox 1

TSHZ1

16246

0.91

Ns

1.00

Ns

1.10

Ns

141665

F-box only protein 15

FBXO15

38225

0.72

Ns

0.69

Ns

0.97

Ns

130856

Zinc finger protein 236

ZNF236

16303

1.45

0.025

1.48

0.011

1.02

Ns

166540

zinc finger protein 407

ZNF407

16008

0.87

Ns

0.77

0.015

0.88

Ns

101493

Zinc finger protein 516

ZNF516

16258

1.07

Ns

1.20

Ns

1.12

Ns

Human 20p12.3-13

149451

Disintegrin and metalloproteinase 33

ADAM33

21242

0.85

Ns

1.28

Ns

1.51

Ns

101222

Uncharacterized protein C20orf28

C20orf28

21247

1.19

Ns

0.80

Ns

0.67

0.016

101311

Unc-112-related protein 1 (Kindlin-1)

C20orf42

21274

0.70

0.050

0.53

2.2 × 10-3

0.75

Ns

125872

Uncharacterized protein C20orf75

C20orf75

32989

1.65

Ns

5.48

1 × 10-3

3.31

1 × 10-3

171984

Uncharacterized protein C20orf196

C20orf196

21268

1.40

Ns

1.22

Ns

0.87

Ns

125885

Minichromosome maintenance complex component 8

MCM8

21272

2.63

Ns

2.82

Ns

1.08

Ns

171864

Prion protein 2

PRND

21260

0.64

Ns

0.53

Ns

0.83

Ns

101236

RING finger protein 24

RNF24

21250

0.81

Ns

0.60

0.010

0.74

Ns

088827

Sialic acid-binding Ig-like lectin 1

SIGLEC1

21243

0.73

0.033

0.81

Ns

1.11

Ns

149345

Putative ubiquitin-conjugating enzyme E2 D3-like

U2D3L

13741

1.27

Ns

0.64

0.020

0.51

2 × 10-3


The EnsMart browser http://http:www.ensembl.org/ webcite was used to identify human-rat homologies (synteny conservation) in regions of the human genome associated with DN. Transcription ratios (TR) between models were assessed by QRT-PCR with kidney samples of GK, STZ-WKY and WKY rats previously used to hybridize microarrays. Ns, not statistically significant.

Hu et al. BMC Medical Genomics 2009 2:41   doi:10.1186/1755-8794-2-41

Open Data