Table 2

Genes overexpressed in AITL compared to PTCL-u

Gene symbolGene titleFold difference of geometric means
Cell-to-cell communication   
    CD151 CD151 antigen 1.35 
    CD200* CD200 antigen 2.38 
    CD24 CD24 antigen (small-cell lung carcinoma cluster 4 antigen) 1.78 
    CD40LG*† CD40 ligand (TNF superfamily, member 5, hyper-IgM syndrome) 1.64 
    CDH11 Cadherin 11, type 2, OB-cadherin (osteoblast) 1.7 
    CDH3 Cadherin 3, type 1, P-cadherin (placental) 1.47 
    CLEC4G C-type lectin superfamily 4, member G 2.02 
    ITGA5 Integrin, alpha 5 (fibronectin receptor, alpha polypeptide) 1.42 
    ITGAX Integrin, alpha X (antigen CD11C [p150], alpha polypeptide) 1.89 
    ITM2C Integral membrane protein 2C 2.65 
    KAL1 CD82 antigen 1.48 
    L1CAM L1 cell adhesion molecule 1.56 
    MAL Mal, T-cell differentiation protein 4.62 
    MME† Membrane metallopeptidase (neutral endopeptidase, CALLA, CD10) 2.26 
    PCDH17 Protocadherin 17 1.66 
    PCDHA Protocadherin alpha subfamily 2.9 
    PCDHG Protocadherin gamma subfamily 1.5 
    PDCD1*† Programmed cell death 1 1.64 
    PLEKHC1 Pleckstrin homology domain containing, family C member 1 1.81 
Vascular biology   
    AMOTL1 Angiomotin-like 1 1.35 
    ANGPT2 Angiopoietin 2 1.34 
    EDG2 Endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor, 2 2.03 
    EDG3 Endothelial differentiation, sphingolipid G-protein-coupled receptor, 3 4.05 
    EFNB2 Ephrin-B2 2.63 
    ENG Endoglin (Osler-Rendu-Weber syndrome 1) 1.56 
    EPAS1 Endothelial PAS domain protein 1 1.81 
    EPHA2 EPH receptor A2 1.38 
    FGF11 Fibroblast growth factor 11 1.65 
    GAS6 Growth-arrest specific 6 2.04 
    GJA1 Gap junction protein, alpha 1, 43 kDa (connexin 43) 2.18 
    GJA4 Gap junction protein, alpha 4, 37 kDa (connexin 37) 2.08 
    GP1BA Glycoprotein Ib (platelet), alpha polypeptide 1.98 
    L1CAM L1 cell adhesion molecule 1.56 
    PGF Placental growth factor, vascular endothelial growth factor-related protein 1.66 
    SELP Selectin P (granule membrane protein 140 kDa, antigen CD62) 2.42 
    SERPINF1 Serpin peptidase inhibitor, clade F (alpha-2 antiplasmin), member 1 1.67 
    SERPINH1 Serpin peptidase inhibitor, clade H (heat shock protein 47), member 1 1.66 
    THBD Thrombomodulin 2.03 
    THY1 Thy-1 cell surface antigen 2.42 
    VCAM1 Vascular cell adhesion molecule 1 1.76 
    VEGF Vascular endothelial growth factor 1.73 
    VWA1 Von Willebrand factor A domain containing 1 1.52 
Humoral immune response   
    C1QTNF1 C1q and tumor necrosis factor-related protein 1 1.8 
    C1R Complement component 1, r subcomponent 1.53 
    C3 Complement component 3 2.67 
    CLU Clusterin 3.26 
    CR2 Complement component (3d/Epstein-Barr virus) receptor 2 6.11 
    FCAMR Fc receptor, IgA, IgM, high affinity 4.94 
    IGH Immunoglobulin heavy locus 3.09 
    IGHM Immunoglobulin heavy constant mu 3.82 
    IGKC† Immunoglobulin kappa constant 2.38 
    IGL Immunoglobulin lambda locus 2.03 
    IGLC2 Immunoglobulin lambda constant 1 2.86 
    IGLC2 Immunoglobulin lambda joining 3 1.8 
    IGLV3-25 Immunoglobulin lambda variable 3-25 4.05 
    IGSF3 Immunoglobulin superfamily, member 3 2.21 
    SDC1 Syndecan 1 3.23 
    SPIB Spi-B transcription factor (Spi-1/PU.1 related) 2.94 
    TCF3 Transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47) 1.65 
    TNFRSF17 Tumor necrosis factor receptor superfamily, member 17 4.04 
Chemokine and cytokine pathways   
    CCL19 Chemokine (C-C motif) ligand 19 (EBV-induced receptor ligand chemokine, ELC) 1.99 
    CCL20 Chemokine (C-C motif) ligand 20 (secondary lymphoid tissue chemokine, SLC) 4.09 
    CCL22 Chemokine (C-C motif) ligand 22 (macrophage-derived chemokine, MDC) 3.68 
    CCL24 Chemokine (C-C motif) ligand 24 (eotaxin-2) 3 
    CCL26 Chemokine (C-C motif) ligand 26 (eotaxin-3) 5.37 
    CXCL13*† Chemokine (C-X-C motif) ligand 13 (B-cell chemoattractant) 2.79 
    CXCL14 Chemokine (C-X-C motif) ligand 14 (breast and kidney chemokine, BRAK) 2.17 
    IL4 Interleukin 4 2.41 
    LIF† Leukemia inhibitory factor (cholinergic differentiation factor) 3.8 
    OSMR Receptor to oncostatin M (an IL-6 type cytokine) 2.22 
Extracellular matrix   
    ADAM19 ADAM metallopeptidase domain 19 (meltrin beta) 2.23 
    ADAMTS9 ADAM metallopeptidase with thrombospondin type 1 motif, 9 1.65 
    CHPF Chondroitin polymerizing factor 1.47 
    COL15A1 Collagen, type XV, alpha 1 2.72 
    COL23A1 Collagen, type XXIII, alpha 1 1.25 
    COL27A1 Collagen, type XXVII, alpha 1 1.87 
    COL6A1 Collagen, type VI, alpha 1 2.28 
    COL6A2 Collagen, type VI, alpha 2 2.27 
    CTSH Cathepsin H 1.72 
    EFEMP2 EGF-containing fibulin-like extracellular matrix protein 2 1.54 
    FNDC1 Fibronectin type III domain containing 1 2.27 
    FOXF1 Forkhead box F1 1.74 
    HS3ST1 Heparan sulfate (glucosamine) 3-O-sulfotransferase 1 1.56 
    LAD1 Ladinin 1 1.38 
    LAMB2 Laminin, beta 2 (laminin S) 1.66 
    LAMC2 Laminin, gamma 2 1.63 
    MMP1 Matrix metallopeptidase 1 (interstitial collagenase) 3.72 
    MMP12 Matrix metallopeptidase 12 (macrophage elastase) 5.01 
    PCOLCE Procollagen C-endopeptidase enhancer 1.94 
    TGFB1/1 Transforming growth factor beta 1-induced transcript 1 1.87 
    TGFB3 Transforming growth factor, beta 3 1.27 
    TIMP1 TIMP metallopeptidase inhibitor 1 1.57 
    VTN Vitronectin (serum spreading factor, somatomedin B) 1.49 
Others/miscellaneous   
    NFATC1*† Nuclear factor of activated T cells cytoplasmic, calcineurin-dependent 1 1.69 
    PIM2† Pim-2 oncogene 1.66 
    VAV2 Vav 2 oncogene 1.82 
Gene symbolGene titleFold difference of geometric means
Cell-to-cell communication   
    CD151 CD151 antigen 1.35 
    CD200* CD200 antigen 2.38 
    CD24 CD24 antigen (small-cell lung carcinoma cluster 4 antigen) 1.78 
    CD40LG*† CD40 ligand (TNF superfamily, member 5, hyper-IgM syndrome) 1.64 
    CDH11 Cadherin 11, type 2, OB-cadherin (osteoblast) 1.7 
    CDH3 Cadherin 3, type 1, P-cadherin (placental) 1.47 
    CLEC4G C-type lectin superfamily 4, member G 2.02 
    ITGA5 Integrin, alpha 5 (fibronectin receptor, alpha polypeptide) 1.42 
    ITGAX Integrin, alpha X (antigen CD11C [p150], alpha polypeptide) 1.89 
    ITM2C Integral membrane protein 2C 2.65 
    KAL1 CD82 antigen 1.48 
    L1CAM L1 cell adhesion molecule 1.56 
    MAL Mal, T-cell differentiation protein 4.62 
    MME† Membrane metallopeptidase (neutral endopeptidase, CALLA, CD10) 2.26 
    PCDH17 Protocadherin 17 1.66 
    PCDHA Protocadherin alpha subfamily 2.9 
    PCDHG Protocadherin gamma subfamily 1.5 
    PDCD1*† Programmed cell death 1 1.64 
    PLEKHC1 Pleckstrin homology domain containing, family C member 1 1.81 
Vascular biology   
    AMOTL1 Angiomotin-like 1 1.35 
    ANGPT2 Angiopoietin 2 1.34 
    EDG2 Endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor, 2 2.03 
    EDG3 Endothelial differentiation, sphingolipid G-protein-coupled receptor, 3 4.05 
    EFNB2 Ephrin-B2 2.63 
    ENG Endoglin (Osler-Rendu-Weber syndrome 1) 1.56 
    EPAS1 Endothelial PAS domain protein 1 1.81 
    EPHA2 EPH receptor A2 1.38 
    FGF11 Fibroblast growth factor 11 1.65 
    GAS6 Growth-arrest specific 6 2.04 
    GJA1 Gap junction protein, alpha 1, 43 kDa (connexin 43) 2.18 
    GJA4 Gap junction protein, alpha 4, 37 kDa (connexin 37) 2.08 
    GP1BA Glycoprotein Ib (platelet), alpha polypeptide 1.98 
    L1CAM L1 cell adhesion molecule 1.56 
    PGF Placental growth factor, vascular endothelial growth factor-related protein 1.66 
    SELP Selectin P (granule membrane protein 140 kDa, antigen CD62) 2.42 
    SERPINF1 Serpin peptidase inhibitor, clade F (alpha-2 antiplasmin), member 1 1.67 
    SERPINH1 Serpin peptidase inhibitor, clade H (heat shock protein 47), member 1 1.66 
    THBD Thrombomodulin 2.03 
    THY1 Thy-1 cell surface antigen 2.42 
    VCAM1 Vascular cell adhesion molecule 1 1.76 
    VEGF Vascular endothelial growth factor 1.73 
    VWA1 Von Willebrand factor A domain containing 1 1.52 
Humoral immune response   
    C1QTNF1 C1q and tumor necrosis factor-related protein 1 1.8 
    C1R Complement component 1, r subcomponent 1.53 
    C3 Complement component 3 2.67 
    CLU Clusterin 3.26 
    CR2 Complement component (3d/Epstein-Barr virus) receptor 2 6.11 
    FCAMR Fc receptor, IgA, IgM, high affinity 4.94 
    IGH Immunoglobulin heavy locus 3.09 
    IGHM Immunoglobulin heavy constant mu 3.82 
    IGKC† Immunoglobulin kappa constant 2.38 
    IGL Immunoglobulin lambda locus 2.03 
    IGLC2 Immunoglobulin lambda constant 1 2.86 
    IGLC2 Immunoglobulin lambda joining 3 1.8 
    IGLV3-25 Immunoglobulin lambda variable 3-25 4.05 
    IGSF3 Immunoglobulin superfamily, member 3 2.21 
    SDC1 Syndecan 1 3.23 
    SPIB Spi-B transcription factor (Spi-1/PU.1 related) 2.94 
    TCF3 Transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47) 1.65 
    TNFRSF17 Tumor necrosis factor receptor superfamily, member 17 4.04 
Chemokine and cytokine pathways   
    CCL19 Chemokine (C-C motif) ligand 19 (EBV-induced receptor ligand chemokine, ELC) 1.99 
    CCL20 Chemokine (C-C motif) ligand 20 (secondary lymphoid tissue chemokine, SLC) 4.09 
    CCL22 Chemokine (C-C motif) ligand 22 (macrophage-derived chemokine, MDC) 3.68 
    CCL24 Chemokine (C-C motif) ligand 24 (eotaxin-2) 3 
    CCL26 Chemokine (C-C motif) ligand 26 (eotaxin-3) 5.37 
    CXCL13*† Chemokine (C-X-C motif) ligand 13 (B-cell chemoattractant) 2.79 
    CXCL14 Chemokine (C-X-C motif) ligand 14 (breast and kidney chemokine, BRAK) 2.17 
    IL4 Interleukin 4 2.41 
    LIF† Leukemia inhibitory factor (cholinergic differentiation factor) 3.8 
    OSMR Receptor to oncostatin M (an IL-6 type cytokine) 2.22 
Extracellular matrix   
    ADAM19 ADAM metallopeptidase domain 19 (meltrin beta) 2.23 
    ADAMTS9 ADAM metallopeptidase with thrombospondin type 1 motif, 9 1.65 
    CHPF Chondroitin polymerizing factor 1.47 
    COL15A1 Collagen, type XV, alpha 1 2.72 
    COL23A1 Collagen, type XXIII, alpha 1 1.25 
    COL27A1 Collagen, type XXVII, alpha 1 1.87 
    COL6A1 Collagen, type VI, alpha 1 2.28 
    COL6A2 Collagen, type VI, alpha 2 2.27 
    CTSH Cathepsin H 1.72 
    EFEMP2 EGF-containing fibulin-like extracellular matrix protein 2 1.54 
    FNDC1 Fibronectin type III domain containing 1 2.27 
    FOXF1 Forkhead box F1 1.74 
    HS3ST1 Heparan sulfate (glucosamine) 3-O-sulfotransferase 1 1.56 
    LAD1 Ladinin 1 1.38 
    LAMB2 Laminin, beta 2 (laminin S) 1.66 
    LAMC2 Laminin, gamma 2 1.63 
    MMP1 Matrix metallopeptidase 1 (interstitial collagenase) 3.72 
    MMP12 Matrix metallopeptidase 12 (macrophage elastase) 5.01 
    PCOLCE Procollagen C-endopeptidase enhancer 1.94 
    TGFB1/1 Transforming growth factor beta 1-induced transcript 1 1.87 
    TGFB3 Transforming growth factor, beta 3 1.27 
    TIMP1 TIMP metallopeptidase inhibitor 1 1.57 
    VTN Vitronectin (serum spreading factor, somatomedin B) 1.49 
Others/miscellaneous   
    NFATC1*† Nuclear factor of activated T cells cytoplasmic, calcineurin-dependent 1 1.69 
    PIM2† Pim-2 oncogene 1.66 
    VAV2 Vav 2 oncogene 1.82 

A complete list of genes is available in Table S2.

*

Genes reported as part of the follicular helper T-cell signature.

†

Genes of the AITL tumor cell signature.

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