Table 2.
PC7 High Extreme Genes. Detailed info for (n = 88) extreme genes in PC7 set H7, ordered most extreme first, including common name, description, and associated Gene Ontology terms (provided with the GNF dataset). These extreme genes are shown as red points in Figure 1.
| PC-7 Value | Name | Description | Function |
| 18.63 | COL1A2 | collagen, type I, alpha 2 | (GO:0006817) phosphate transport; (GO:0001501) skeletal development; (GO:0008147) structural constituent of bone; |
| 17.89 | LUM | lumican | (GO:0005518) collagen binding; (GO:0030199) collagen fibril organization; (GO:0005207) extracellular matrix glycoprotein; (GO:0005201) extracellular matrix structural constituent; (GO:0005203) proteoglycan; (GO:0007601) visual perception; |
| 15.48 | TPM2 | tropomyosin 2 (beta) | (GO:0003779) actin binding; (GO:0007517) muscle development; (GO:0008307) structural constituent of muscle; |
| 15.30 | IGFBP7 | insulin-like growth factor binding protein 7 | (GO:0005520) insulin-like growth factor binding; (GO:0008285) negative regulation of cell proliferation; (GO:0001558) regulation of cell growth; |
| 14.54 | CAV1 | caveolin 1, caveolae protein, 22 kDa | (GO:0005198) structural molecule activity; (GO:0008181) tumor suppressor; |
| 14.08 | COL3A1 | collagen, type III, alpha 1 (Ehlers-Danlos syndrome type IV, autosomal dominant) | (GO:0008015) circulation; (GO:0005202) collagen; (GO:0005201) extracellular matrix structural constituent; (GO:0007397) histogenesis and organogenesis; (GO:0009887) organogenesis; (GO:0006817) phosphate transport; |
| 13.84 | KCTD12 | potassium channel tetramerisation domain containing 12 | (GO:0006813) potassium ion transport; (GO:0005515) protein binding; (GO:0005249) voltage-gated potassium channel activity; |
| 13.83 | COL1A1 | collagen, type I, alpha 1 | (GO:0005202) collagen; (GO:0005201) extracellular matrix structural constituent; (GO:0007605) perception of sound; (GO:0006817) phosphate transport; (GO:0001501) skeletal development; (GO:0008147) structural constituent of bone; |
| 13.71 | MGP | matrix Gla protein | (GO:0005509) calcium ion binding; (GO:0005201) extracellular matrix structural constituent; (GO:0007048) oncogenesis; (GO:0007605) perception of sound; (GO:0008147) structural constituent of bone; |
| 13.57 | COL3A1 | collagen, type III, alpha 1 (Ehlers-Danlos syndrome type IV, autosomal dominant) | (GO:0008015) circulation; (GO:0005202) collagen; (GO:0005201) extracellular matrix structural constituent; (GO:0007397) histogenesis and organogenesis; (GO:0009887) organogenesis; (GO:0006817) phosphate transport; |
| 13.25 | CALD1 | caldesmon 1 | (GO:0003779) actin binding; (GO:0005516) calmodulin binding; (GO:0006936) muscle contraction; (GO:0007517) muscle development; (GO:0017022) myosin binding; (GO:0005523) tropomyosin binding |
| 13.19 | MYL9 | myosin, light polypeptide 9, regulatory | (GO:0005509) calcium ion binding; (GO:0008307) structural constituent of muscle |
| 13.12 | FN1 | fibronectin 1 | (GO:0006953) acute-phase response; (GO:0007155) cell adhesion; (GO:0016477) cell migration; (GO:0005518) collagen binding; (GO:0005201) extracellular matrix structural constituent; (GO:0008201) heparin binding; (GO:0009611) response to wounding |
| 12.71 | PLK2 | polo-like kinase 2 (Drosophila) | (GO:0005524) ATP binding; (GO:0043123) positive regulation of I-kappaB kinase/NF-kappaB cascade; (GO:0006468) protein amino acid phosphorylation; (GO:0004674) protein serine/threonine kinase activity; (GO:0004871) signal transducer activity; (GO:0016740) transferase activity |
| 12.59 | CALD1 | caldesmon 1 | (GO:0003779) actin binding; (GO:0005516) calmodulin binding; (GO:0006936) muscle contraction; (GO:0007517) muscle development; (GO:0017022) myosin binding; (GO:0005523) tropomyosin binding |
| 12.54 | CTGF | connective tissue growth factor | (GO:0006259) DNA metabolism; (GO:0007155) cell adhesion; (GO:0005194) cell adhesion molecule activity; (GO:0008151) cell growth and/or maintenance; (GO:0006928) cell motility; (GO:0008201) heparin binding; (GO:0005520) insulin-like growth factor binding; (GO:0005515) protein binding; (GO:0001558) regulation of cell growth; (GO:0009611) response to wounding |
| 12.39 | D2S448 | Melanoma associated gene | (GO:0006955) immune response; (GO:0005152) interleukin-1 receptor antagonist activity; (GO:0004601) peroxidase activity |
| 12.28 | MFAP5 | microfibrillar associated protein 5 | (GO:0005201) extracellular matrix structural constituent |
| 12.24 | SEMA3C | sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C | (GO:0008151) cell growth and/or maintenance; (GO:0007275) development; (GO:0009315) drug resistance; (GO:0006955) immune response; (GO:0042493) response to drug |
| 12.20 | ADAMTS1 | a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 1 | (GO:0008201) heparin binding; (GO:0016787) hydrolase activity; (GO:0005178) integrin binding; (GO:0007229) integrin-mediated signaling pathway; (GO:0004222) metalloendopeptidase activity; (GO:0008237) metallopeptidase activity; (GO:0008285) negative regulation of cell proliferation; (GO:0006508) proteolysis and peptidolysis; (GO:0008270) zinc ion binding |
| 11.99 | SPARC | secreted protein, acidic, cysteine-rich (osteonectin) | (GO:0005509) calcium ion binding; (GO:0005518) collagen binding |
| 11.76 | F3 | coagulation factor III (thromboplastin, tissue factor) | (GO:0007596) blood coagulation; (GO:0003801) blood coagulation factor activity; (GO:0004896) hematopoietin/interferon-class (D200-domain) cytokine receptor activity; (GO:0006955) immune response; (GO:0004872) receptor activity; (GO:0004888) transmembrane receptor activity |
| 11.71 | PLS3 | plastin 3 (T isoform) | (GO:0003779) actin binding; (GO:0005509) calcium ion binding |
| 11.70 | THBS1 | thrombospondin 1 | (GO:0007596) blood coagulation; (GO:0005509) calcium ion binding; (GO:0007155) cell adhesion; (GO:0005194) cell adhesion molecule activity; (GO:0006928) cell motility; (GO:0007275) development; (GO:0004866) endopeptidase inhibitor activity; (GO:0008201) heparin binding; (GO:0007399) neurogenesis; (GO:0005515) protein binding; (GO:0004871) signal transducer activity; (GO:0005198) structural molecule activity |
| 11.69 | PLOD2 | procollagen-lysine, 2-oxoglutarate 5-dioxygenase (lysine hydroxylase) 2 | (GO:0016491) oxidoreductase activity; (GO:0016702) oxidoreductase activity\, acting on single donors with incorporation of molecular oxygen\, incorporation of two atoms of oxygen; (GO:0008475) procollagen-lysine 5-dioxygenase activity; (GO:0019538) protein metabolism; (GO:0006464) protein modification |
| 11.37 | CAV1 | caveolin 1, caveolae protein, 22 kDa | (GO:0005198) structural molecule activity; (GO:0008181) tumor suppressor |
| 11.36 | gnf1h04130_x_at | None | None |
| 11.28 | FN1 | fibronectin 1 | (GO:0006953) acute-phase response; (GO:0007155) cell adhesion; (GO:0016477) cell migration; (GO:0005518) collagen binding; (GO:0005201) extracellular matrix structural constituent; (GO:0008201) heparin binding; (GO:0009611) response to wounding |
| 11.18 | SMARCA1 | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 | (GO:0005524) ATP binding; (GO:0008026) ATP-dependent helicase activity; (GO:0003677) DNA binding; (GO:0004002) adenosinetriphosphatase; (GO:0006338) chromatin remodeling; (GO:0004386) helicase activity; (GO:0045182) translation regulator activity |
| 11.08 | TAGLN | transgelin | (GO:0007517) Muscle development |
| 10.95 | COL4A1 | collagen, type IV, alpha 1 | (GO:0003677) DNA binding; (GO:0005202) collagen; (GO:0005201) extracellular matrix structural constituent; (GO:0006817) phosphate transport |
| 10.90 | CAV2 | caveolin 2 | (GO:0008181) tumor suppressor |
| 10.90 | TPM1 | tropomyosin 1 (alpha) | (GO:0003779) actin binding; (GO:0007517) muscle development; (GO:0008016) regulation of heart rate; (GO:0005200) structural constituent of cytoskeleton; (GO:0008307) structural constituent of muscle |
| 10.85 | GJA1 | gap junction protein, alpha 1, 43 kDa (connexin 43) | (GO:0007267) cell-cell signaling; (GO:0015285) connexon channel activity; (GO:0007507) heart development; (GO:0015075) ion transporter activity; (GO:0006936) muscle contraction; (GO:0007605) perception of sound; (GO:0043123) positive regulation of I-kappaB kinase/NF-kappaB cascade; (GO:0004871) signal transducer activity; (GO:0006832) small molecule transport; (GO:0006810) transport |
| 10.82 | COL1A2 | collagen, type I, alpha 2 | (GO:0005202) collagen; (GO:0005201) extracellular matrix structural constituent; (GO:0006817) phosphate transport; (GO:0001501) skeletal development; (GO:0008147) structural constituent of bone |
| 10.61 | FXR1 | fragile X mental retardation, autosomal homolog 1 | (GO:0003677) DNA binding; (GO:0003723) RNA binding; (GO:0006915) apoptosis; (GO:0003676) nucleic acid binding; (GO:0006913) nucleocytoplasmic transport |
| 10.60 | COL6A3 | collagen, type VI, alpha 3 | cell adhesion (GO:0007155);cell adhesion molecule activity (GO:0005194);collagen (GO:0005202);extracellular matrix structural constituent (GO:0005201);muscle development (GO:0007517);phosphate transport (GO:0006817);protein binding (GO:0005515);serine-type endopeptidase inhibitor activity (GO:0004867) |
| 10.52 | CYR61 | cysteine-rich, angiogenic inducer, 61 | cell adhesion (GO:0007155);cell proliferation (GO:0008283);chemotaxis (GO:0006935);embryogenesis and morphogenesis (GO:0007345);heparin binding (GO:0008201);insulin-like growth factor binding (GO:0005520);morphogenesis (GO:0009653);regulation of cell growth (GO:0001558) |
| 10.50 | 10-Sep | septin 10 | GTP binding (GO:0005525) |
| 10.44 | IL1R1 | interleukin 1 receptor, type I | cell surface receptor linked signal transduction (GO:0007166);immune response (GO:0006955);inflammatory response (GO:0006954);interleukin-1 receptor activity (GO:0004908);interleukin-1\, Type I\, activating receptor activity (GO:0004909);signal transducer activity (GO:0004871);transmembrane receptor activity (GO:0004888) |
| 10.37 | WBP5 | WW domain binding protein 1 | DNA binding (GO:0003677) |
| 10.35 | LAMB1 | laminin, beta 1 | cell adhesion (GO:0007155);cell adhesion molecule activity (GO:0005194);protein binding (GO:0005515);structural molecule activity (GO:0005198) |
| 10.33 | EMP1 | epithelial membrane protein 1 | cell death (GO:0008219);cell growth (GO:0016049);cell proliferation (GO:0008283);development (GO:0007275);oncogenesis (GO:0007048) |
| 10.23 | NRP1 | neuropilin 1 | axon guidance (GO:0007411);cell adhesion (GO:0007155);cell-cell signaling (GO:0007267);histogenesis and organogenesis (GO:0007397);neurogenesis (GO:0007399);organogenesis (GO:0009887);positive regulation of cell proliferation (GO:0008284);receptor activity (GO:0004872);signal transduction (GO:0007165);vascular endothelial growth factor receptor activity (GO:0005021) |
| 10.12 | COL3A1 | collagen, type III, alpha 1 (Ehlers-Danlos syndrome type IV, autosomal dominant) | circulation (GO:0008015);collagen (GO:0005202);extracellular matrix structural constituent (GO:0005201);histogenesis and organogenesis (GO:0007397);organogenesis (GO:0009887);phosphate transport (GO:0006817) |
| 10.10 | CALD1 | caldesmon 1 | actin binding (GO:0003779);calmodulin binding (GO:0005516);muscle contraction (GO:0006936);muscle development (GO:0007517);myosin binding (GO:0017022);tropomyosin binding (GO:0005523) |
| 10.10 | THBS1 | thrombospondin 1 | blood coagulation (GO:0007596);calcium ion binding (GO:0005509);cell adhesion (GO:0007155);cell adhesion molecule activity (GO:0005194);cell motility (GO:0006928);development (GO:0007275);endopeptidase inhibitor activity (GO:0004866);heparin binding (GO:0008201);neurogenesis (GO:0007399);protein binding (GO:0005515);signal transducer activity (GO:0004871);structural molecule activity (GO:0005198) |
| 10.05 | FN1 | fibronectin 1 | acute-phase response (GO:0006953);cell adhesion (GO:0007155);cell migration (GO:0016477);collagen binding (GO:0005518);extracellular matrix structural constituent (GO:0005201);heparin binding (GO:0008201);response to wounding (GO:0009611) |
| 10.03 | SPARC | secreted protein, acidic, cysteine-rich (osteonectin) | calcium ion binding (GO:0005509);collagen binding (GO:0005518) |
| 10.02 | IGFBP7 | insulin-like growth factor binding protein 7 | insulin-like growth factor binding (GO:0005520);negative regulation of cell proliferation (GO:0008285);regulation of cell growth (GO:0001558) |
| 9.99 | IL6ST | interleukin 6 signal transducer (gp130, oncostatin M receptor) | cell surface receptor linked signal transduction (GO:0007166);gp130 (GO:0004898);immune response (GO:0006955);interleukin-6 receptor activity (GO:0004915);oncostatin-M receptor activity (GO:0004924);receptor activity (GO:0004872);signal transduction (GO:0007165) |
| 9.98 | LAMB1 | laminin, beta 1 | cell adhesion (GO:0007155);cell adhesion molecule activity (GO:0005194);protein binding (GO:0005515);structural molecule activity (GO:0005198) |
| 9.94 | TAZ | transcriptional co-activator with PDZ-binding motif (TAZ) | transcription coactivator activity (GO:0003713) |
| 9.93 | DCN | decorin | chondroitin sulfate/dermatan sulfate proteoglycan (GO:0005205);histogenesis and organogenesis (GO:0007397);organogenesis (GO:0009887) |
| 9.93 | ANXA1 | annexin A1 | calcium ion binding (GO:0005509);calcium-dependent phospholipid binding (GO:0005544);cell motility (GO:0006928);cell surface receptor linked signal transduction (GO:0007166);inflammatory response (GO:0006954);lipid metabolism (GO:0006629);phospholipase A2 inhibitor activity (GO:0019834);phospholipase inhibitor activity (GO:0004859);phospholipid binding (GO:0005543);receptor binding (GO:0005102) |
| 9.89 | MYH11 | myosin, heavy polypeptide 11, smooth muscle | ATP binding (GO:0005524);actin binding (GO:0003779);calmodulin binding (GO:0005516);cell growth and/or maintenance (GO:0008151);motor activity (GO:0003774);muscle development (GO:0007517);protein amino acid alkylation (GO:0008213);striated muscle contraction (GO:0006941) |
| 9.89 | EFEMP1 | EGF-containing fibulin-like extracellular matrix protein 1 | calcium ion binding (GO:0005509);visual perception (GO:0007601) |
| 9.88 | SPUVE | protease, serine, 23 | chymotrypsin activity (GO:0004263);hydrolase activity (GO:0016787);proteolysis and peptidolysis (GO:0006508);trypsin activity (GO:0004295) |
| 9.87 | Hs.514018 | CDNA: FLJ22209 fis, clone HRC01496 | None |
| 9.80 | FN1 | fibronectin 1 | acute-phase response (GO:0006953);cell adhesion (GO:0007155);cell migration (GO:0016477);collagen binding (GO:0005518);extracellular matrix structural constituent (GO:0005201);heparin binding (GO:0008201);response to wounding (GO:0009611) |
| 9.77 | COL16A1 | collagen, type XVI, alpha 1 | cell adhesion (GO:0007155);collagen (GO:0005202);extracellular matrix structural constituent (GO:0005201);phosphate transport (GO:0006817);pregnancy (GO:0007565) |
| 9.73 | SNX7 | sorting nexin 7 | intracellular protein transport (GO:0006886);intracellular signaling cascade (GO:0007242);protein transporter activity (GO:0008565) |
| 9.69 | AHR | aryl hydrocarbon receptor | DNA binding (GO:0003677);apoptosis (GO:0006915);ligand-dependent nuclear receptor activity (GO:0004879);response to stress (GO:0006950);response to xenobiotic stimulus (GO:0009410);signal transduction (GO:0007165);transcription factor activity (GO:0003700);transcription from Pol II promoter (GO:0006366) |
| 9.57 | COL6A1 | collagen, type VI, alpha 1 | DNA binding (GO:0003677);cell adhesion (GO:0007155);cell adhesion molecule activity (GO:0005194);collagen (GO:0005202);extracellular matrix structural constituent (GO:0005201);histogenesis and organogenesis (GO:0007397);molecular_function unknown (GO:0005554);phosphate transport (GO:0006817);protein binding (GO:0005515) |
| 9.55 | KIAA0992 | palladin | amino acid metabolism (GO:0006520) |
| 9.54 | COL5A2 | collagen, type V, alpha 2 | cell growth and/or maintenance (GO:0008151);collagen (GO:0005202);extracellular matrix glycoprotein (GO:0005207);extracellular matrix structural constituent (GO:0005201);phosphate transport (GO:0006817) |
| 9.53 | FBN1 | fibrillin 1 (Marfan syndrome) | calcium ion binding (GO:0005509);development (GO:0007275);extracellular matrix structural constituent (GO:0005201);skeletal development (GO:0001501);visual perception (GO:0007601) |
| 9.51 | PAM | peptidylglycine alpha-amidating monooxygenase | electron transporter activity (GO:0005489);monooxygenase activity (GO:0004497);peptide amidation (GO:0001519);peptidylglycine monooxygenase activity (GO:0004504);protein modification (GO:0006464) |
| 9.50 | LOC92912 | hypothetical protein LOC92912 | ligase activity (GO:0016874);ubiquitin conjugating enzyme activity (GO:0004840);ubiquitin cycle (GO:0006512);ubiquitin-protein ligase activity (GO:0004842) |
| 9.47 | COL6A2 | collagen, type VI, alpha 2 | cell-cell adhesion (GO:0016337);collagen (GO:0005202);extracellular matrix organization and biogenesis (GO:0030198);extracellular matrix structural constituent (GO:0005201);muscle development (GO:0007517);phosphate transport (GO:0006817);protein binding, bridging (GO:0030674) |
| 9.45 | PTX1 | PTX1 protein | None |
| 9.41 | KIAA0992 | palladin | amino acid metabolism (GO:0006520) |
| 9.33 | CSPG2 | chondroitin sulfate proteoglycan 2 (versican) | calcium ion binding (GO:0005509);cell adhesion (GO:0007155);chondroitin sulfate proteoglycan (GO:0005204);development (GO:0007275);glycosaminoglycan binding (GO:0005539);heterophilic cell adhesion (GO:0007157);hyaluronic acid binding (GO:0005540);lectin (GO:0005530);proteoglycan (GO:0005203);sugar binding (GO:0005529) |
| 9.32 | CSPG2 | chondroitin sulfate proteoglycan 2 (versican) | calcium ion binding (GO:0005509);cell adhesion (GO:0007155);chondroitin sulfate proteoglycan (GO:0005204);development (GO:0007275);glycosaminoglycan binding (GO:0005539);heterophilic cell adhesion (GO:0007157);hyaluronic acid binding (GO:0005540);lectin (GO:0005530);proteoglycan (GO:0005203);sugar binding (GO:0005529) |
| 9.30 | SERPINH1 | serine (or cysteine) proteinase inhibitor, clade H (heat shock protein 47), member 1, (collagen binding protein 1) | collagen binding (GO:0005518);heat shock protein activity (GO:0003773);response to stress (GO:0006950);serine-type endopeptidase inhibitor activity (GO:0004867);serpin (GO:0004868) |
| 9.23 | TM4SF6 | transmembrane 4 superfamily member 6 | cell adhesion molecule activity (GO:0005194);cell motility (GO:0006928);positive regulation of I-kappaB kinase/NF-kappaB cascade (GO:0043123);signal transducer activity (GO:0004871) |
| 9.20 | PTRF | polymerase I and transcript release factor | None |
| 9.19 | LATS2 | LATS, large tumor suppressor, homolog 2 (Drosophila) | ATP binding (GO:0005524);protein amino acid phosphorylation (GO:0006468);protein serine/threonine kinase activity (GO:0004674);transferase activity (GO:0016740);tumor suppressor (GO:0008181) |
| 9.12 | CTBP2 | C-terminal binding protein 2 | L-serine biosynthesis (GO:0006564);negative regulation of cell proliferation (GO:0008285);oxidoreductase activity (GO:0016491);oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor (GO:0016616);tumor suppressor (GO:0008181);viral replication (GO:0008166) |
| 9.06 | ITGAV | integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51) | cell adhesion (GO:0007155);cell adhesion receptor activity (GO:0004895);cell-matrix adhesion (GO:0007160);integrin-mediated signaling pathway (GO:0007229);protein binding (GO:0005515) |
| 9.05 | RCN2 | reticulocalbin 2, EF-hand calcium binding domain | calcium ion binding (GO:0005509);protein binding (GO:0005515);tumor suppressor (GO:0008181) |
| 8.98 | CPD | carboxypeptidase D | carboxypeptidase A activity (GO:0004182);carboxypeptidase D activity (GO:0004187);carboxypeptidase activity (GO:0004180);hydrolase activity (GO:0016787);proteolysis and peptidolysis (GO:0006508);zinc ion binding (GO:0008270) |
| 8.98 | FLJ21174 | hypothetical protein FLJ21174 | None |
| 8.96 | MGC5395 | hypothetical protein MGC5395 | intracellular signaling cascade (GO:0007242);neurogenesis (GO:0007399);protein binding (GO:0005515) |
| 8.96 | MFAP2 | microfibrillar-associated protein 2 | extracellular matrix glycoprotein (GO:0005207);extracellular matrix structural constituent (GO:0005201) |
| 8.94 | CRIM1 | cysteine-rich motor neuron 1 | cysteine-type endopeptidase activity (GO:0004197);insulin-like growth factor binding (GO:0005520);insulin-like growth factor receptor activity (GO:0005010);neurogenesis (GO:0007399);proteolysis and peptidolysis (GO:0006508);regulation of cell growth (GO:0001558);serine-type endopeptidase inhibitor activity (GO:0004867) |
| 8.92 | ALDH1A3 | aldehyde dehydrogenase 1 family, member A3 | alcohol metabolism (GO:0006066);aldehyde dehydrogenase [NAD(P)+] activity (GO:0004030);aldehyde dehydrogenase activity (GO:0004028);lipid metabolism (GO:0006629);metabolism (GO:0008152);oxidoreductase activity (GO:0016491) |
| 8.92 | MGC34132 | hypothetical protein MGC34132 | None |