Table 2

Summary of 41 genes over- or underexpressed in ESCC

No.Gene/location on chromosomePutative functionUniGeneMeanaSDbPNo. of casesFold change
Overexpressed
 1Collagen type III α 1 (COL3A1)/2q31Extracellular matrixHs.1195711.541.00<0.0001192.91
 2Keratin 14 (KRT14)/17q12–q21CytoskeletonHs.1177291.381.400.0004192.60
 3Collagen, type VII, α (COL7A1)/3p21.1Extracellular matrixHs.16401.210.95<0.0001192.31
 4SNL (Fascin)/7p22Cytoskeleton/regulation of cellular processesHs.1184001.150.82<0.0001192.22
 5SPARC/5q31.3–q32Extracellular matrix remodellingHs.1117791.060.73<0.0001172.08
 6Transgelin 2 (TAGLN2)/1q21–q25Cytoplasmic/anti-pathogen responseHs.757251.040.78<0.0001192.06
 7Laminin γ 2 (LAMC2)/1q25–q31Extracellular matrixHs.544511.040.970.0002192.06
 8FADD=MORT/11q13.3Death receptor/cytoplasmic responseHs.861311.030.950.0006162.04
 9Cystatin SN (CST1)/20p11.21Cysteine protease inhibitorHs.1231141.031.050.0005192.04
 10HLA-B/6p21.3Immune systemHs.779611.021.000.0003192.03
 11SCYB10/4q21Positive control of cell proliferation/cell motility/extracellular matrixHs.22481.021.060.0005192.03
 12CDC25B/20p13Mitosis/cell cycle controlHs.1537521.011.000.0003192.01
 13Collagen, type I, alpha 2 (COL1A2)/7q22.1Extracellular matrixHs.1795731.010.75<0.0001192.01
Underexpressed
 14Keratin 4 (KRT4)/12q12–q13CytoskeletonHs.3235−2.672.340.0001190.16
 15Transglutaminase 3 (TGM3)/20q11.2Protein modificationHs.2022−2.281.62<0.0001170.21
 16Cystatin A (stefin A) (CSTA)/3q21Proteinase inhibitorHs.2621−1.941.740.0001190.26
 17NICE-1 protein (NICE-1)/1q21Epidermal differentiationHs.110196−1.901.780.0002190.27
 18Small proline-rich protein SPRK (SPRK)/1q21–q22Cross-linked envelope protein of keratinocytesHs.46320−1.861.940.0006190.28
 19FOS-like antigen 1(FOSL1)/11q13Positive control of cell proliferation/cellular defense responseHs.283565−1.811.490.0001190.29
 20Uroplakin 1A (UPK1A)/19q13.1Cell-surface protein/regulation of cell development/activation/growth/motilityHs.159309−1.771.480.0001190.29
 21Epithelial membrane protein 1 (EMP1)/12p12.3Cell death/oncogenesis/cell proliferationHs.79368−1.701.530.0001190.31
 22SPINK5/5q32Serine protease inhibitorHs.331555−1.691.460.0001190.31
 23Cystatin B (stefin B) (CSTB)/21q22.3Protease inhibitorHs.695−1.571.560.0003190.34
 24Adipose specific 2 (APM2)/10q23.2UnknownHs.74120−1.551.14<0.0001190.34
 25Proline rich 4 (lacrimal) (PROL4)/12p13Extracellular processesHs.45033−1.521.510.0003190.35
 26ARS component B (ARS)/8q24.3Cell activation/cell adhesionHs.103505−1.481.03<0.0001190.36
 27Kallikrein 13 (KLK13)/19q13.3–q13.4Serine proteaseHs.165296−1.421.480.0006190.37
 28Calponin 3, acidic (CNN3)/1p22–p21CytoskeletonHs.194662−1.411.10<0.0001190.38
 29S100A9/1q21Calcium binding/signal transduction/extracellular spaceHs.112405−1.401.460.0005190.38
 30Betacellulin (BTC)/4q13–q21Positive control of cell proliferationHs.73105−1.401.300.0002190.38
 31Hypothetical protein EDAG-1 (EDAG-1)/9q22.32Transforming gene, associated with development of tumorHs.176626−1.341.290.0003190.40
 32Periplakin (PPL)/16p13.3CytoskeletonHs.74304−1.281.380.0008190.41
 33Early growth response 1 (EGR1)/5q31.1Transcriptional regulator/DNA bindingHs.326035−1.211.330.0009190.43
 34Adenomatous polyposis coli like (APCL)/19p13.3β-Catenin binding/tumor suppressor/signal transductionHs.20912−1.181.300.0009190.44
 35Kallikrein 11 (KLK11)/19q13.3–q13.4Serine-type peptidaseHs.57771−1.141.230.0008190.45
 36HPGD/4q34–q35Inactivation of prostaglandins/enzyme/electron transporterHs.77348−1.141.260.001190.45
 37ASE-1/19q13.3rDNA transcriptionHs.211956−1.081.130.0006190.47
 38DUSP5=dual specificity phosphatase 5/10q25Heat shock response/protein dephosphorylationHs.2128−1.081.010.0002190.47
 39RAR-beta=retinoic acid receptor, β (BARB)/3p24Epidermal banding/retinoic acid receptor/oncogenesisHs.171495−1.071.070.0004190.48
 40Enoplakin (EVPL)/17q25Epidermal differentiation and maintenanceHs.25482−1.070.890.0001190.48
 41Extracellular matrix protein 1 (ECM)/1q21Extracellular matrixHs.81071−1.010.980.0003190.50
  • a Mean is the mean of log-ratio (base 2).

  • b SD is the standard deviation of log-ratio (base 2).