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Table 1 Selected Differentially Expressed Genes Grouped by Pathways of Interest

From: A systematic comparison and evaluation of high density exon arrays and RNA-seq technology used to unravel the peripheral blood transcriptome of sickle cell disease

Genes

Symbol

Gene Title

FC

RNA-seq

FC MA

Apoptosis/cell cycle regulation

NM_005581

BCAM

basal cell adhesion molecule

12.27

1.73

NM_138578

BCL2L1

BCL2-like 1

5.44

1.45

NM_198892

BMP2K

BMP2 inducible kinase

4.09

1.93

NM_004331

BNIP3L

BCL2

4.98

1.37

NM_014326

DAPK2

death-associated protein kinase 2

0.33

0.48

NM_001923

DDB1

damage-specific DNA binding protein 1, 127 kDa

2.82

2.23

NM_001122665

DDX3Y

DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y

1.29

3.00

NM_017631

DDX60

DEAD (Asp-Glu-Ala-Asp) box polypeptide 60

1.51

2.25

NM_019030

DHX29

DEAH (Asp-Glu-Ala-His) box polypeptide 29

1.29

2.07

NM_024940

DOCK5

dedicator of cytokinesis 5

0.43

0.50

NM_004864

GDF15

growth differentiation factor 15

4.77

0.99

NM_002094

GSPT1

G1 to S phase transition 1

4.03

1.34

Cell-signaling

NM_017436

A4GALT

alpha 1,4-galactosyltransferase

4.70

0.98

NR_024080

ACP1

acid phosphatase 1, soluble

2.79

2.41

NM_015256

ACSL6

acyl-CoA synthetase long-chain family member 6

6.96

2.24

NM_005622

ACSM3

acyl-CoA synthetase medium-chain family member 3

3.90

2.72

NM_001629

ALOX5AP

arachidonate 5-lipoxygenase-activating protein

0.39

0.48

NM_020980

AQP9

aquaporin 9

0.48

0.37

NM_015313

ARHGEF12

Rho guanine nucleotide exchange factor (GEF) 12

3.42

2.49

NM_015994

ATP6V1D

ATPase, H + transporting, V1 subunit D

1.54

2.21

NM_199186

BPGM

2,3-bisphosphoglycerate mutase

11.03

2.89

NM_020850

RANBP10

RAN binding protein 10

5.70

2.31

NM_001145657

RAP1GAP

RAP1 GTPase activating protein

42.05

2.58

NM_014737

RASSF2

Ras association (RalGDS

0.45

0.47

NM_002923

RGS2

regulator of G-protein signaling 2, 24 kDa

0.32

0.44

NM_000062

SERPING1

serpin peptidase inhibitor, clade G (C1 inhibitor)

3.58

2.03

NM_001122752

SERPINI1

serpin peptidase inhibitor, clade I (neuroserpin), 1

1.47

3.07

NM_007111

TFDP1

transcription factor Dp-1

5.69

2.45

NM_003227

TFR2

transferrin receptor 2

5.67

1.42

NM_173804

TMEM86B

transmembrane protein 86B

5.22

1.39

NM_015049

TRAK2

trafficking protein, kinesin binding 2

5.51

3.24

NM_022066

UBE2O

ubiquitin-conjugating enzyme E2O

7.13

2.83

Oxidative stress/antioxidants/Stress Response

NM_000032

ALAS2

aminolevulinate, delta-, synthase 2

4.36

1.66

NM_001128829

CA1

carbonic anhydrase I

10.68

2.07

NM_000067

CA2

carbonic anhydrase II

5.03

3.45

NM_016417

GLRX5

glutaredoxin 5

5.24

1.59

NM_201397

GPX1

glutathione peroxidase 1

8.02

2.16

NM_001145260

NCOA4

nuclear receptor coactivator 4

4.77

2.12

NM_002501

NFIX

nuclear factor I

5.73

1.73

NM_000274

OAT

ornithine aminotransferase (gyrate atrophy)

1.30

2.19

NM_030758

OSBP2

oxysterol binding protein 2

11.80

2.57

NM_032523

OSBPL6

oxysterol binding protein-like 6

4.70

2.45

NM_005809

PRDX2

peroxiredoxin 2

4.10

1.12

NM_006745

SC4MOL

sterol-C4-methyl oxidase-like

1.31

2.47

NM_138432

SDSL

serine dehydratase-like

6.58

1.21

NM_003944

SELENBP1

selenium binding protein 1

5.76

1.92

NM_175839

SMOX

spermine oxidase

5.09

2.78

NM_003794

SNX4

sorting nexin 4

1.43

2.29

NM_003105

SORL1

sortilin-related receptor, L(DLR class) A repeats

0.48

0.41

NM_003227

TFR2

transferrin receptor 2

5.67

1.42

NM_022648

TNS1

tensin 1

4.21

1.05

Inflammatory Response

NM_005581

BCAM

basal cell adhesion molecule (Lutheran blood group)

12.27

1.73

NM_003965

CCRL2

chemokine (C-C motif) receptor-like 2

2.00

2.28

NM_012120

CD2AP

CD2-associated protein

2.30

2.20

NM_001001548

CD36

CD36 molecule (thrombospondin receptor)

1.68

2.11

NM_152243

CDC42EP1

CDC42 effector protein (Rho GTPase binding) 1

8.43

1.04

NM_004344

CETN2

centrin, EF-hand protein, 2

2.85

2.46

NM_001008388

CISD2

CDGSH iron sulfur domain 2

7.29

3.91

NM_033554

HLA-DPA1

major histocompatibility complex, DP alpha 1

1.32

2.11

NM_002125

HLA-DRB5

major histocompatibility complex, class II, DR beta 5

1.96

2.09

NM_001130080

IFI27

interferon, alpha-inducible protein 27

51.57

6.64

NM_006417

IFI44

interferon-induced protein 44

3.14

3.21

NM_006820

IFI44L

interferon-induced protein 44-like

3.86

5.37

NM_001548

IFIT1

interferon-induced protein with tetratricopeptide 1

3.04

2.62

NM_000576

IL1B

interleukin 1, beta

0.43

0.41

NM_004633

IL1R2

interleukin 1 receptor, type II

0.17

0.27

NM_002182

IL1RAP

interleukin 1 receptor accessory protein

0.29

0.40

NM_002183

IL3RA

interleukin 3 receptor, alpha (low affinity)

0.52

0.49

NM_003024

ITSN1

intersectin 1 (SH3 domain protein)

6.28

1.87

NM_003189

TAL1

T-cell acute lymphocytic leukemia 1

5.37

1.76

NM_017772

TBC1D22B

TBC1 domain family, member 22B

3.78

2.82

NM_152772

TCP11L2

t-complex 11 (mouse)-like 2

3.32

2.64

Red Cell genes

NM_020476

ANK1

ankyrin 1, erythrocytic

4.04

1.62

NM_152326

ANKRD9

ankyrin repeat domain 9

9.23

1.08

NM_001728

BSG

basigin (Ok blood group)

5.01

1.50

NM_016633

ERAF

erythroid associated factor

9.64

3.91

NM_001017922

ERMAP

erythroblast membrane-associated protein

3.86

2.05

NM_001012515

FECH

ferrochelatase (protoporphyria)

8.10

2.56

NM_002099

GYPA

glycophorin A (MNS blood group)

11.49

4.40

NM_002100

GYPB

glycophorin B (MNS blood group)

7.43

2.11

NM_198682

GYPE

glycophorin E

6.67

2.70

NM_000558

HBA1

hemoglobin, alpha 1

51.86

5.54

NM_000518

HBB

hemoglobin, beta

28.47

1.12

NM_000519

HBD

hemoglobin, delta

44.50

2.88

NM_005330

HBE1

hemoglobin, epsilon 1

24.48

2.34

NM_000559

HBG1

hemoglobin, gamma A

43.18

2.17

NM_001003938

HBM

hemoglobin, mu

3.75

2.04

NM_005332

HBZ

hemoglobin, zeta

8.72

2.34

NM_018437

HEMGN

hemogen

5.83

2.18

NM_000420

KEL

Kell blood group, metallo-endopeptidase

4.59

1.67

NM_006563

KLF1

Kruppel-like factor 1 (erythroid)

6.76

1.41

Novel Genes

NM_007021

C10orf10

chromosome 10 open reading frame 10

10.26

1.35

NM_001009894

C12orf29

chromosome 12 open reading frame 29

1.39

2.71

NM_014059

C13orf15

chromosome 13 open reading frame 15

2.22

2.03

NM_025057

C14orf45

chromosome 14 open reading frame 45

4.54

4.02

AK303128

C17orf99

chromosome 17 open reading frame 99

5.43

1.24

BC038410

C1orf105

chromosome 1 open reading frame 105

6.00

1.16

NM_020362

C1orf128

chromosome 1 open reading frame 128

5.23

2.58

NM_015680

C2orf24

chromosome 2 open reading frame 24

4.06

1.75

NM_001042521

C2orf88

chromosome 2 open reading frame 88

5.41

2.19

NM_001002029

C4B

complement component 4B

4.22

1.37

NM_000715

C4BPA

complement component 4 binding protein, alpha

0.04

0.23

NM_001128424

C4orf18

chromosome 4 open reading frame 18

1.35

2.60

NM_032412

C5orf32

chromosome 5 open reading frame 32

3.04

2.12

NM_032385

C5orf4

chromosome 5 open reading frame 4

7.20

2.18

NM_052831

C6orf192

chromosome 6 open reading frame 192

2.08

2.36

NR_027330

C7orf54

chromosome 7 open reading frame 54

0.67

0.49

  1. * Differentially expressed genes were selected if they showed greater than 4-fold change (SCD v Control) in RNAseq or greater than 2-fold change in Microarray.
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BMC Medical Genomics

ISSN: 1755-8794

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