Table 3.

A. Genes 2-fold differentially expressed in mucinous ovarian cancers compared to other histotypes and with normal ovarian surface epithelial cells
SymbolGene descriptionM vs CCM vs EM vs SAvM vs OSEColon vs OSE
Cell growth, differentiation, cell cycle progression, apoptosis, and hormonal regulation
    TM4SF3Transmembrane 4 superfamily member 38.19.011.59.53.06.5
    SOX2SRY (sex determining region Y) box 28.35.96.77.07.1−1.3
    S100PS100 calcium-binding protein P4.57.38.96.910.72.6
    G0S2Putative lymphocyte G0/G1 switch gene2.63.63.33.22.0−3.6
    MIG-6Gene 33/Mig-62.42.83.12.82.1−1.1
    TM4SF4Transmembrane 4 superfamily member 42.62.42.42.52.2−1.0
    CLUClusterin−2.1−3.2−3.7−3.0−2.0−5.9
    EMX2Empty spiracles homologue 2 (Drosophila)−3.1−4.6−4.3−4.0−3.9−7.3
Cytoskeletal structure, extracellular matrix formation, cell adhesion, and coagulation
    AGR2Anterior gradient 2 (Xenopus laevis) homologue7.57.418.111.015.314.2
    CEACAM6Carcinoembryonic antigen-related cell adhesion molecule 6 (nonspecific cross-reacting antigen)8.07.18.47.88.26.0
    LGALS4Lectin, galactoside-binding, soluble, 4 (galectin 4)7.36.56.86.96.436.5
    MMP1Matrix metalloproteinase 1 (interstitial collagenase)7.64.07.76.410.01.2
    CEACAM5Carcinoembryonic antigen–related cell adhesion molecule 56.36.06.56.35.318.4
    GASGastrin6.35.96.06.15.7−1.2
    BCMP11Breast cancer membrane protein 114.84.77.15.53.46.4
    CLDN18Claudin 184.44.34.44.44.61.1
    TUBBTubulin, β polypeptide2.13.12.92.74.11.8
    ANXA10Annexin A102.62.52.62.62.2−1.3
    THBS2Thrombospondin 22.22.32.62.43.0−2.6
    PLS1Plastin 1 (I isoform)2.42.32.32.32.55.1
    EPLINEpithelial protein lost in neoplasm β2.22.22.22.22.12.2
Metabolism, proteolysis, and proteinase inhibition
    CYP3A5Cytochrome P450, subfamily IIIA (niphedipine oxidase), polypeptide 56.94.94.25.33.04.2
    CTSECathepsin E5.05.05.05.04.61.4
    SERPINE1Serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 13.15.54.94.53.5−2.5
    GCNT3Glucosaminyl (N-acetyl) transferase 3, mucin type4.92.65.44.36.412.2
    LDLRLow-density lipoprotein receptor (familial hypercholesterolemia)2.42.92.42.63.72.4
    SERPINB1Serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 12.82.22.32.42.92.3
    RNASE1RNase A family, 1 (pancreatic)2.42.52.12.33.11.6
Protein transport and binding
    REG4Regenerating islet-derived family, member 48.18.48.48.38.81.5
    SULT1C1Sulfotransferase family, cytosolic, 1C, member 14.66.14.65.17.61.0
    FABP1Fatty acid–binding protein 1, liver4.14.24.34.24.2122.8
    SDCBP2Syndecan-binding protein (syntenin) 24.73.83.64.03.915.0
    SLC28A2Solute carrier family 28 (sodium-coupled nucleoside transporter), member 22.12.12.22.12.01.3
    EFHD2EF hand domain containing 22.02.22.02.12.21.7
Immune response and cellular defense
    TFF1Trefoil factor 1 (breast cancer, estrogen-inducible sequence expressed in)12.012.713.812.813.21.8
    TFF3Trefoil factor 3 (intestinal)19.96.910.212.323.745.6
    LILRB1Leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 16.36.06.96.44.01.2
    IL6Interleukin-6 (IFN, β2)2.47.04.74.76.2−2.0
    RNF128Ring finger 1283.42.86.14.13.94.8
    IL8Interleukin-83.64.53.33.86.6−1.4
    FCGBPFc fragment of IgG-binding protein4.13.43.53.73.29.4
    CXCL12Stromal cell–derived factor 13.33.73.03.32.51.0
    TFF2Trefoil factor 2 (spasmolytic protein 1)2.93.13.33.12.9−1.2
    MRC1Mannose receptor, C-type 12.53.13.22.92.41.5
Unknown function
    PLAC8Placenta-specific 83.54.24.03.93.210.8
    MS4A7Membrane-spanning 4 domains, subfamily A, member 72.22.82.82.63.01.1
B. Genes 2-fold differentially expressed in endometrioid ovarian cancers compared to other histotypes and with normal ovarian surface epithelial cells (genes with negative fold changes are down-regulated)
Symbol
Gene description
E vs CC
E vs S
E vs M
Av
E vs OSE
Endometrium vs OSE
Cell growth, differentiation, cell cycle progression, apoptosis, and hormonal regulation
    FGF9Fibroblast growth factor 9 (glia-activating factor)5.94.35.55.23.2−1.2
    DKK4Dickkopf homologue 4 (X. laevis)3.63.63.13.43.31.3
    APCDD1Adenomatosis polyposis coli down-regulated 13.03.13.63.22.82.6
    FZD10Frizzled (Drosophila) homologue 102.42.72.62.65.01.3
    IHHIndian hedgehog homologue2.62.52.12.42.31.1
Cytoskeletal structure, extracellular matrix formation, cell adhesion, and coagulation
    SFNStratifin2.22.72.02.34.31.9
    SCGB1D2Secretoglobin, family 1D, member 22.02.02.62.22.410.4
Metabolism, proteolysis, and proteinase inhibition
    SERPINA5Serine (or cysteine) proteinase inhibitor, clade A (α-1 antiproteinase, antitrypsin), member 52.54.24.43.75.55.2
    SERPINA1Serine (or cysteine) proteinase inhibitor, clade A (α-1 antiproteinase, antitrypsin), member 13.44.03.63.78.41.1
    GAD1Glutamate decarboxylase 1 (brain, 67 kDa)2.62.52.62.62.31.0
    SERPINA3Serine (or cysteine) proteinase inhibitor, clade A (α-1 antiproteinase, antitrypsin), member 32.02.32.22.22.01.0
Protein transport and binding
    MT4Metallothionein IV3.13.43.43.32.8−1.2
    MT1GMetallothionein 1G4.02.23.53.29.111.5
Immune response and cellular defense
    C4BP4Complement component 4 binding protein, α3.34.44.24.02.91.4
    CXCL14Small inducible cytokine subfamily B (Cys-X-Cys), member 14 (BRAK)2.43.53.03.017.023.9
C. Genes 2-fold differentially expressed in clear cell ovarian cancers compared to other histotypes and with normal ovarian surface epithelial cells (genes with negative fold changes are down-regulated)
Symbol
Gene Description
CC vs E
CC vs S
CC vs M
Av
CC vs OSE
Endometrium vs OSE
Cell growth, differentiation, cell cycle progression, apoptosis, and hormonal regulation
    BCAT1Branched chain aminotransferase 1, cytosolic4.73.15.64.55.01.1
    CALB1Calbindin 1 (28 kDa)3.54.54.74.24.7−1.1
    LEFTBLeft-right determination, factor B4.42.73.03.44.11.2
    LGR7Leucine-rich repeat-containing G protein–coupled receptor 72.53.13.53.03.16.3
Cytoskeletal structure, extracellular matrix formation, cell adhesion, and coagulation
    PROM1Prominin-like 1 (mouse)2.53.02.92.810.42.8
Metabolism, proteolysis, and proteinase inhibition
    GALNT11UDP-N-acetyl-α-d-galactosamine:polypeptide N-acetylgalactosaminyltransferase 112.92.63.83.12.81.0
    GPX3Glutathione peroxidase 3 (plasma)2.62.42.62.52.42.5
    GDAGuanine deaminase2.13.22.22.52.92.1
Protein transport and binding
    ABP1Amiloride-binding protein 1 [amine oxidase (copper-containing)]9.67.44.17.014.11.4
    RBP4Retinol-binding protein 4, plasma6.26.73.05.36.42.6
    GLRXGlutaredoxin (thioltransferase)4.84.73.04.25.41.9
    FXYD2FXYD domain-containing ion transport regulator 22.82.62.92.82.81.0
    SLC7A2Solute carrier family 7 (cationic amino acid transporter, y+ system), member 22.62.02.12.22.62.4
    SLC40A1Solute carrier family 40 (iron-regulated transporter), member 1−2.0−2.6−2.6−2.4−4.9−1.5
Unknown function
    PHF8PHD finger protein 82.32.22.32.22.41.6
D. Genes 2-fold differentially expressed in serous ovarian cancers compared to other histotypes and with normal ovarian surface epithelial cells (genes with negative fold changes are down-regulated)
Symbol
Gene description
S vs E
S vs CC
S vs M
Av
S vs OSE
Fallopian tube vs OSE
Cell growth, differentiation, cell cycle progression, apoptosis, and hormonal regulation
    ID1Inhibitor of DNA binding 1, dominant-negative helix-loop-helix protein−2.8−2.5−2.7−2.7−2.4−1.7
Cytoskeletal structure, extracellular matrix formation, cell adhesion, and coagulation
    CHI3L1Chitinase 3–like 1 (cartilage glycoprotein-39)2.13.82.72.93.81.5
Metabolism, proteolysis, and proteinase inhibition
    AMY2BAmylase, α2B; pancreatic3.42.63.53.22.74.5
  • NOTE: Genes with negative fold changes are down-regulated. M, mucinous; S, serous; CC, clear cell; E, endometrioid; OSE, ovarian surface epithelium.