Table 4

Representatives of putative immune relevant genes/homologs as predicted by DGE

Catalogs

Consensus ID

Putative Identification

Fold Change


Pattern Recognition Proteins

TLR and relevant

3365

TLR 1

-6.45

8296

TLR 21

-374.00

Mannose receptor

158882

Macrophage mannose receptor 1

-2.94

NOD

117946

NOD protein 2

+4.25

C-type lectin

36609

Collectin-12

+3.69

HMG

3367

HMG AT-hook 1

-218.00

LRR-containing proteins

128723

F-box/LRR protein 14

+5.87

5434

F-box/LRR protein 20

-2.35

36369

F-box/LRR protein

-249.00

3391

LRR-containing protein 68

-6.14

39099

LRR flightless-interacting protein 2

+2.32

NALP

62330

NALP 3

-2.04

43979

NALP 6

-2.47

719

NALP 12

-312.00

14950

NALP 13

-3.77

BTK

37665

BTK

-249.00

Complement System

C1

39636

C1q-like protein 4

+5.03

Complement factor

58617

Complement factor H-related protein 3

-2.55

Inflammatory Cytokines and Receptors

IL, ILR, and relevant

7183

IL6R subunit β

-3.06

4828

IL7R subunit α

-218.00

29

IL10R α chain

+265.00

8308

IL12R β-2 chain

-7.09

70266

Putative IL17R E-like

+2.23

9160

IL18R

-2.33

36378

IL18R accessory protein

-2.96

67818

IL31RA

-2.38

4392

IL enhancer-binding factor 3

-4.29

IFN and relevant

34

similar to IFN-inducible protein Gig1

-3.76

39770

IFN-induced helicase C domain-containing protein 1

-2.15

39343

IFN-induced GTP-binding protein Mx

+2.22

42748

IFN-induced transmembrane protein 2

-8.97

41016

IFN regulatory factor 4

-5.98

43856

IFN regulatory factor 8

-6.14

CXCR

41529

CXC chemokine receptor 5

-2.59

CCL

71546

C-C motif chemokine 19

+2.20

XCR

70282

XC Chemokine receptor 1

+4.03

EGF

8053

SNED

-312.00

FAM

37053

Protein FAM3C

-2.35

FLT

9012

FLT3 ligand cytokine receptor

-405.00

GATA

42892

GATA-binding factor 2

-15.43

GFI

6300

Zinc finger protein GFI-1

+6.58

16357

Zinc finger protein GFI-1B

-2.01

Integrin

169765

Integrin α-3

+298.00

PCGF

36691

PCGF 2

-2.54

TGF

34228

TGF β-1-induced transcript 1 protein

-4.02

Thrombopoietin

8606

Thrombopoietin receptor

-4.19

TNF and TNR

167272

TNF α-induced protein 8-like protein 2

-6.38

36673

TNR 1A

-405.00

2890

TNR 12A

-281.00

9356

EMILIN 1

-2.40

Adapters, Effectors, and Signal Transducers

ASB

71979

ASB2

-5.04

DEDD

1437

DEDD

-3.40

Heme oxygenase

71817

Heme oxygenase

+2.48

CSF

50449

Macrophage CSF 1 receptor 1

-2.09

11081

Macrophage CSF 1 receptor 2

-218.00

49226

Granulocyte CSF receptor

-3.09

NR2C

42918

NR2C 2-associated protein

+4.22

SMAD

42078

SMAD 1

-437.00

42615

SMAD 5

-405.00

TRAF

42729

TRAF7

-2.27

70242

TANK

-2.11

UBE

2069

UBE E2C

+2.07

9613

UBE E2H

-2.42

NF κ

1073

NF κ-A

+3.18

MAPK

68093

MAPK 3

-9.45

70484

MAPK 6

-312.00

MAP2K

37130

MAP2K4

-10.39

MAP3K

38157

MAP3K3

-3.26

7280

MAP3K4

-4.92

T-cell and B-cell Antigen Activation

CD

60890

CD2

+2.81

70094

CD22

+4.10

4032

CD40 (TNR5)

-343.00

26107

CD79B

-2.48

DOCK2

4848

DOCK2

-2.54

RAG

36208

RGA2

-6.39

RGS

905

RGS12

-2.60

TYK2

9722

Non-receptor TYK2

-2.11

VAV oncogene family

9761

VAV2

-343.00

Antigen Processing and Regulators

MHC I/II

65343

MHC II transactivator

-218.00

PSM

115644

PSMB3

+3.06

5004

PSMC2

+2.71

42169

PSMC6

+3.39

208

PSMD3

-2.05

7477

PSMD8

+5.29

TAPBP

10433

TAPBP

-281.00

RAC

36540

RAC1

-2.72

CDC

70253

CDC 16

+2.78

55784

CDC 42

+331.00

CDK-inhibitor

43078

CDK 4 inhibitor D

+2.58

Other Genes Related to Immune Cell Response

AP-1

41196

AP-1 complex subunit σ-2

+4.03

10356

AP1 subunit mu-1

+2.05

JAK

818

JAK2

-312.00

MALT

21139

MALT protein

-6.14

PPM

365

Protein phosphatase 1F

-2.14

RIPK

1908

RIPK1

-7.88

TMED

8436

TMED2

-3.18

Hepcidin

56643

Hepcidin

+6.10

HSP

37584

HSP 71

-2.96

Lysozyme

51

Lysozyme g

+2.18

Macroglobulin

2234

α-2-macroglobulin

+3.31

Microtubule-associated

12594

EMAP 3

-249.00

Proteolipid protein

38379

Proteolipid protein 2

-3.60

Prohibitin

70061

Prohibitin-2

-7.09

Selenoprotein

80124

Selenoprotein K

+3.19

ABCF

3906

ABCF 2

-3.49

CARD

1588

CARD 11

-3.08

Caspase

42397

Caspase 1

-2.05

31546

Caspase 8

-5.07

Stress response protein

44158

Stress response protein NST1

-2.15


Limitations of all differentially expressed genes are based on P ≤ 0.01. The absolute value of Log2Ratio≥1 and FDR≤0.05 showed that the genes were significantly altered after bacterial challenge. The cutoff E-value was set to 1e-10 during the gene annotation process. The absolute value of "Fold Change" means magnitude of up- or down-regulation for each gene/homolog after bacteria challenge; "+" indicates up-regulation, "-" indicates down-regulation.

Xiang et al. BMC Genomics 2010 11:472   doi:10.1186/1471-2164-11-472

Open Data