Table 1

Selected Differentially Expressed Genes Grouped by Pathways of Interest
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

* 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.

Raghavachari et al.

Raghavachari et al. BMC Medical Genomics 2012 5:28   doi:10.1186/1755-8794-5-28

Open Data