Gene network analyses point to the importance of human tissue kallikreins in melanoma progression

BMC Medical Genomics

Volumn 4, Issue , 2011, Pages

  Martins, Waleska K ^a,b,c   Esteves, Gustavo H ^c,d   Almeida, Otávio M ^a   Rezze, Gisele G ^a   Landman, Gilles ^a   Marques, Sarah M ^b,c   Carvalho, Alex F ^a,b   L Reis, Luiz F ^a,b,e   Duprat, João P ^a   Stolf, Beatriz S ^c  

^a A C CAMARGO CANCER CENTER   (Brazil)

^b LUDWIG INSTITUTE FOR CANCER RESEARCH   (Brazil)

^c UNIVERSITY OF SÃO PAULO   (Brazil)

^d STATE UNIVERSITY OF PARAÍBA   (Brazil)

^e HOSPITAL SÍRIO LIBANÊS   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

STRATUM CORNEUM CHYMOTRYPTIC ENZYME; TISSUE KALLIKREIN; KALLIKREIN; KLK6 PROTEIN, HUMAN; KLK7 PROTEIN, HUMAN; KLK7 PROTEIN, MOUSE; MESSENGER RNA;

ARTICLE; CANCER SURVIVAL; CELL COMMUNICATION; COMP GENE; CONTROLLED STUDY; CUTANEOUS MELANOMA; DEVELOPMENT; DNA MICROARRAY; EPIDERMIS; EVPL GENE; GENE EXPRESSION PROFILING; HUMAN; HUMAN TISSUE; KLK6 GENE; KLK7 GENE; KLK8 GENE; KRT4 GENE; LAMA3 GENE; MELANOMA; MICROARRAY ANALYSIS; PRIORITY JOURNAL; PROGNOSIS; PROTEIN EXPRESSION; SERPINB13 GENE; SERPING1 GENE; SLPI GENE; TUMOR GROWTH; VWF GENE; DISEASE COURSE; GENE REGULATORY NETWORK; GENETICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM; MORTALITY; PATHOLOGY;

CELL COMMUNICATION; DISEASE PROGRESSION; EPIDERMIS; GENE EXPRESSION PROFILING; GENE REGULATORY NETWORKS; HUMANS; KALLIKREINS; MELANOMA; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROGNOSIS; RNA, MESSENGER; TISSUE KALLIKREINS;

EID: 80054931151     PISSN: None     EISSN: 17558794     Source Type: Journal    
DOI: 10.1186/1755-8794-4-76     Document Type: Article

References (60)

1. Ultraviolet radiation and cutaneous malignant melanoma. Jhappan C, Noonan FP, Merlino G, Oncogene 2003 22 3099 112 10.1038/sj.onc.1206450 12789287 (Pubitemid 36713762)
2. Melanoma etiology, where are we? Tucker MA, Goldstein AM, Nature 2003 22 3042 52
3. Cutaneous melanoma susceptibility and progression genes. Snoo FA, Hayward NK, Cancer Letters 2005 230 153 86 10.1016/j.canlet.2004.12.033 16297704 (Pubitemid 41613885)
4. Genetic pathways to melanoma tumorigenesis. Hussein MR, J Clin Pathol 2004 57 797 801 10.1136/jcp.2003.015800 15280398 (Pubitemid 39061426)
5. Melanoma genetics and the development of rational therapeutics. Chudnovsky Y, Khavari PA, Adams AE, J Clin Invest 2005 115 813 24 15841168 (Pubitemid 40489381)
6. N-cadherin-mediated intercellular interactions promote survival and migration of melanoma cells. Li G, Satyamoorthy K, Herlyn M, Cancer Res 2001 61 3819 25 11325858 (Pubitemid 32694999)
7. Dynamics of cell interactions and communications during melanoma development. Li G, Satyamoorthy K, Herlyn M, Crit Rev Oral Biol Med 2002 13 62 70 10.1177/154411130201300107 12097238 (Pubitemid 34792761)
8. Adhesion, migration and communication in melanocytes and melanoma. Haass NK, Smalley KS, Li L, Herlyn M, Pigment Cell Res 2005 18 3 150 9 10.1111/j.1600-0749.2005.00235.x 15892711 (Pubitemid 40733333)
9. Gene signature of the metastatic potential of cutaneous melanoma: too much for too little? Tímar J, Gyorffy B, Rásá E, Clin Exp Metastasis 2010 27 6 371 87 10.1007/s10585-010-9307-2 20177751
10. The gene expression profiles of primary and metastatic melanoma yields a transition point of tumor progression and metastasis. Riker AI, Enkemann SA, Fodstad O, Liu S, Ren S, Morris C, Xi Y, Howell P, Metge B, Samant RS, Shevde LA, Li W, Eschrich S, Daud A, Ju J, Matta J, BMC Med Genomics 2008 1 13 10.1186/1755-8794-1-13 18442402
11. Molecular classification of cutaneous malignant melanoma by gene expression profiling. Bittner M, Meltzer P, Chen Y, Jiang Y, Seftor E, Hendrix M, Radmacher M, Simon R, Yakhini Z, Ben-Dor A, Sampas N, Dougherty E, Wang E, Marincola F, Gooden C, Lueders J, Glatfelter A, Pollock P, Carpten J, Gillanders E, Leja D, Dietrich K, Beaudry C, Berens M, Alberts D, Sondak V, Nature 2000 406 536 40 10.1038/35020115 10952317 (Pubitemid 30625740)
12. Differentially expressed genes identified in human melanoma cell lines with differented metastatic behaviour using high density oligonucleotides arrays. de Wit NJW, Burtscher HJ, Weidle UH, Ruiter DJ, Van Muijen GNP, Melanoma Res 2002 12 57 69 10.1097/00008390-200202000-00009 11828259 (Pubitemid 34183690)
13. Rapid identification of dysregulated genes in cutaneous malignant melanoma metastases using cDNA technology. Mirmohammadsadegh A, Baer A, Nambiar S, Bardenheuer W, Hengge UR, Cells Tissues Organs 2004 177 119 23 10.1159/000079985 15388985 (Pubitemid 39279467)
14. Molecular signature of metastasis in primary solid tumors. Ramaswamy S, Ross KN, Lander ES, Golub TR, Nat Genet 2003 33 49 54 10.1038/ng1060 12469122 (Pubitemid 36068681)
15. The gene expression signatures of melanoma progression. Haqq C, Nosrati M, Sudilovsky D, Crothers J, Khodabakhsh D, Pulliam BL, Federman S, Miller JR, Allen RE, Singer MI, Leong SP, Ljung BM, Sagebiel RW, Kashani-Sabet M, Proc Natl Acad Sci USA 2005 102 6092 7 10.1073/pnas.0501564102 15833814 (Pubitemid 40594260)
16. Melanoma Group of the European Organization for Research and Treatment of Cancer: Gene expression profiling of primary cutaneous melanoma and clinical outcome. Winnepenninckx V, Lazar V, Michiels S, Dessen P, Stas M, Alonso SR, Avril MF, Ortiz Romero PL, Robert T, Balacescu O, Eggermont AM, Lenoir G, Sarasin A, Tursz T, van den Oord JJ, Spatz A, J Natl Cancer Inst 2006 98 472 82 10.1093/jnci/djj103 16595783
17. Down-regulation of pro-apoptotic genes is an early event in the progression of malignant melanoma. Jensen EH, Lewis JM, McLoughlin JM, Alvarado MD, Daud A, Messina J, Enkemann S, Yeatman TJ, Sondak VK, Riker AI, Ann Surg Oncol 2007 14 4 1416 23 10.1245/s10434-006-9226-2 17195911 (Pubitemid 46536811)
18. Gene expression signatures for tumor progression, tumor subtype, and tumor thickness in laser-microdissected melanoma tissues. Jaeger J, Koczan D, Thiesen HJ, Ibrahim SM, Gross G, Spang R, Kunz M, Clin Cancer Res 2007 13 3 806 15 10.1158/1078-0432.CCR-06-1820 17289871 (Pubitemid 46340353)
19. A high-throughput study in melanoma identifies epithelial-mesenchymal transition as a major determinant of metastasis. Alonso SR, Tracey L, Ortiz P, Pérez-Gámez B, Palacios J, Pollán M, Linares J, Serrano S, Sáez-Castillo AI, Sánchez L, Pajares R, Sánchez-Aguilera A, Artiga MJ, Piris MA, Rodríguez-Peralto JL, Cancer Res 2007 67 7 3450 60 10.1158/0008-5472.CAN-06-3481 17409456 (Pubitemid 46724886)
20. Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data. Segal E, Shapira M, Regev A, Pe'er D, Botstein D, Koller D, Friedman N, Nat Genet 2003 34 166 176 10.1038/ng1165 12740579 (Pubitemid 36666927)
21. Comparative analysis of amplified and nonamplified RNA for hybridization in cDNA microarray. Gomes LI, Silva RL, Stolf BS, Cristo EB, Hirata R, Soares FA, Reis LF, Neves EJ, Carvalho AF, Anal Biochem 2003 321 2 244 51 10.1016/S0003-2697(03)00466-4 14511690 (Pubitemid 37162745)
22. The new kallikrein gene family-implications in carcinogenesis. Diamandis EP, Yousef GM, Luo LY, Magklara A, Obiezu C, Trends Endocrinol Metab 2000 11 54 60 10.1016/S1043-2760(99)00225-8 10675891 (Pubitemid 30106476)
23. Human tissue kallikreins: a family of new cancer biomarkers. Diamandis EP, Yousef GM, Clin Chem 2002 48 8 1198 205 12142373 (Pubitemid 34809825)
24. Parallel overexpression of seven kallikrein genes in ovarian cancer. Fracchioli S, Katsaros D, Diamandis EP, Cancer Res 2003 63 2223 7 12727843 (Pubitemid 36538630)
25. Prognostic value of quantitatively assessed KLK7 expression in ovarian cancer. Kyriakopoulou LG, Yousef GM, Scorilas A, Katsaros D, Massobrio M, Fracchioli S, Diamandis EP, Clin Biochem 2003 36 135 43 40 10.1016/S0009- 9120(02)00446-0 12633763 (Pubitemid 36287493)
26. The kallikrein world: an update on the human tissue kallikreins. Paliouras M, Diamandis EP, Biol Chem 2006 387 6 643 52 10.1515/BC.2006.083 16800725 (Pubitemid 43964786)
27. Human tissue kallikreins: the cancer biomarker family. Paliouras M, Borgono C, Diamandis EP, Cancer Lett 2007 249 1 61 79 10.1016/j.canlet.2006.12. 018 17275179 (Pubitemid 46427999)
28. The emerging roles of human tissue kallikreins in cancer. Borgõo CA, Diamandis EP, Nat Rev Cancer 2004 4 11 876 90 10.1038/nrc1474 15516960 (Pubitemid 39472954)
29. Characterization of global transcription profile of normal and HPV-immortalized keratinocytes and their response to TNF treatment. Termini L, Boccardo E, Esteves GH, Hirata R Jr, Martins WK, Colo AE, Neves EJ, Villa LL, Reis LF, BMC Med Genomics 2008 1 29 10.1186/1755-8794-1-29 18588690
30. Cell adhesion and communication proteins are differentially expressed in melanoma progression model. Rezze GG, Fregnani JH, Duprat J, Landman G, Hum Pathol 2011 42 3 409 18 10.1016/j.humpath.2010.09.004 21193224
31. Parallel overexpression of seven kallikrein genes in ovarian cancer. Yousef GM, Polymeris ME, Yacoub GM, Scorilas A, Soosaipillai A, Popalis C, Fracchioli S, Katsaros D, Diamandis EP, Cancer Res 2003 63 2223 7 12727843 (Pubitemid 36538630)
32. Degradation of corneodesmosome proteins by two serine proteases of the kallikrein family, SCTE/KLK5/hK5 and SCCE/KLK7/hK7. Caubet C, Jonca N, Brattsand M, Guerrin M, Bernard D, Schmidt R, Egelrud T, Simon M, Serre G, J Invest Dermatol 2004 122 1235 44 10.1111/j.0022-202X.2004.22512.x 15140227 (Pubitemid 38651099)
33. A potential role for multiple tissue kallikrein serine proteases in epidermal desquamation. Borgõo CA, Michael IP, Komatsu N, Jayakumar A, Kapadia R, Clayman GL, Sotiropoulou G, Diamandis EP, J Biol Chem 2007 282 6 3640 52 17158887 (Pubitemid 47084449)
34. Stratum corneum tryptic enzyme in normal epidermis: a missing link in the desquamation process? Ekholm IE, Brattsand M, Egelrud T, J Invest Dermatol 2000 114 56 63 10.1046/j.1523-1747.2000.00820.x 10620116 (Pubitemid 30195973)
35. Optimization and evaluation of T7 based RNA linear amplification protocols for cDNA microarray analysis. Zhao H, Hastie T, Whitfield ML, Borresen-Dale A, Jeffrey SS, BMC Genomics 2002 3 1 31 10.1186/1471-2164-3-31 12445333 (Pubitemid 39565254)
36. Fluorescent DNA hybridization probe preparation using amine modification and reactive dye coupling. Cox WG, Singer VL, Biotechniques 2004 36 1 114 22 14740493 (Pubitemid 38076388)
37. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. Dias Neto E, Correa RG, Verjovski-Almeida S, Briones MR, Nagai MA, da Silva W Jr, Zago MA, Bordin S, Costa FF, Goldman GH, Carvalho AF, Matsukuma A, Baia GS, Simpson DH, Brunstein A, de Oliveira PS, Bucher P, Jongeneel CV, O'Hare MJ, Soares F, Brentani RR, Reis LF, de Souza SJ, Simpson AJ, Proc Natl Acad Sci USA 2000 97 7 3491 6 10.1073/pnas.97.7.3491 10737800 (Pubitemid 30183330)
38. The contribution of 700, 000 ORF sequence tags to the definition of the human transcriptome. Camargo AA, Samaia HP, Dias-Neto E, Simão DF, Migotto IA, Briones MR, Costa FF, Nagai MA, Verjovski-Almeida S, Zago MA, Andrade LE, Carrer H, El-Dorry HF, Espreafico EM, Habr-Gama A, Giannella-Neto D, Goldman GH, Gruber A, Hackel C, Kimura ET, Maciel RM, Marie SK, Martins EA, Nobrega MP, Paco-Larson ML, Pardini MI, Pereira GG, Pesquero JB, Rodrigues V, Rogatto SR, et al. Proc Natl Acad Sci USA 2001 98 21 12103 8 Erratum in: Proc Natl Acad Sci USA2004; 101(1):414 10.1073/pnas.201182798 11593022 (Pubitemid 32959834)
39. Experimental design of DNA microarray experiments. Simon RM, Dobbin K, Biotechniques 2003 Suppl 16 21
40. R: a language for data analysis and graphics. Ihaka R, Gentleman R, J Comput Graph Statist 1996 5 299 314 10.2307/1390807
41. Bioconductor: open software development for computational biology and bioinformatics. Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J, Genome Biol 2004 5 10 80 10.1186/gb-2004-5-10- r80 15461798
42. Expression profile of malignant and nonmalignant lesions of esophagus and stomach: differential activity of functional modules related to inflammation and lipid metabolism. Gomes LI, Esteves GH, Carvalho AF, Cristo EB, Hirata R Jr, Martins WK, Marques SM, Camargo LP, Brentani H, Pelosof A, Zitron C, Sallum RA, Montagnini A, Soares FA, Neves EJ, Reis LF, Cancer Res 2005 65 16 7127 36 10.1158/0008-5472.CAN-05-1035 16103062 (Pubitemid 41161242)
43. GeneCards: integrating information about genes, proteins and diseases. Rebhan M, Chalifa-Caspi V, Prilusky J, Lancet D, Trends in Genetics 1997 13 163 10.1016/S0168-9525(97)01103-7 9097728 (Pubitemid 127739947)
44. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G, Nat Genet 2000 25 1 25 9 10.1038/75556 10802651 (Pubitemid 30257031)
45. Applications of array technology: melanoma research and diagnosis. Nambiar S, Mirmohammadsadegh A, Bar A, Bardenheuer W, Roeder G, Hengge UR, Expert Rev Mol Diagn 2004 4 549 57 10.1586/14737159.4.4.549 15225102 (Pubitemid 38915280)
46. Signaling networks in cutaneous melanoma metastasis identified by complementary DNA microarrays. Nambiar S, Mirmohammadsadegh A, Doroudi R, Gustrau A, Marini A, Roeder G, Ruzicka T, Hengge UR, Arch Dermatol 2005 141 2 165 173 10.1001/archderm.141.2.165 15724012 (Pubitemid 40216258)
47. Gene expression profiling: from microarrays to medicine. Weeraratna AT, Nagel JE, de Mello-Coelho V, Taub DD, J Clin Immunol 2004 24 213 24 15114052 (Pubitemid 39030669)
48. Antileukoprotease inhibits stratum corneum chymotryptic enzyme: evidence for a regulative function in desquamation. Franzke CW, Baici A, Bartels J, Christophers, Wiedow O, J Biol Chem 1996 271 21886 90 10.1074/jbc.271.36.21886 8702990 (Pubitemid 26303810)
49. The KLK7 (PRSS6) gene, enconding for the stratum corneum chymotryptic enzyme is a new member of the human kallikrein gene family-genomic characterization, mapping, tissue expression and hormonal regulation. Yousef GM, Scorilas A, Magklara A, Soosaipillai A, Diamandis EP, Gene 2000 254 119 28 10.1016/S0378-1119(00)00280-8 10974542
50. Discovering functional relationships between RNA expression and chemotherapeutic susceptibility using relevance networks. Butte AJ, Tamayo P, Slonim D, Golub TR, Kohane IS, Proc Natl Acad Sci USA 2000 97 12182 6 10.1073/pnas.220392197 11027309
51. New insights about host response to smallpox using microarray data. Esteves GH, Simoes AC, Souza E, Dias RA, Ospina R, Venancio TM, BMC Syst Biol 2007 1 38 10.1186/1752-0509-1-38 17718913 (Pubitemid 350141721)
52. Biostatistical Analysis. Zar J, Prentice Hall 2 1999
53. Gene expression arrays in cancer research: methods and applications. Brentani RR, Carraro DM, Verjovski-Almeida S, Reis EM, Neves EJ, de Souza SJ, Carvalho AF, Brentani H, Reis LF, Crit Rev Oncol Hematol 2005 54 2 95 105 10.1016/j.critrevonc.2004.12.006 15843092 (Pubitemid 40544947)
54. A gene expression signature associated with survival in metastatic melanoma. Mandruzzato S, Callegaro A, Turcatel G, Francescato S, Montesco MC, Chiarion-Sileni V, Mocellin S, Rossi CR, Bicciato S, Wang E, Marincola FM, Zanovello P, J Transl Med 2006 4 50 10.1186/1479-5876-4-50 17129373 (Pubitemid 44971024)
55. The impact of genomics in understanding human melanoma progression and metastasis. Ren S, Liu S, Howell P Jr, Xi Y, Enkemann SA, Ju J, Riker AI, Cancer Control 2008 15 3 202 15 18596672
56. A proteolytic cascade of kallikreins in the stratum corneum. Brattsand M, Stefansson K, Lundh C, Haasum Y, Egelrud T, J Invest Dermatol 2005 124 198 203 10.1111/j.0022-202X.2004.23547.x 15654974 (Pubitemid 40100969)
57. Human kallikrein 13 involvement in extracellular matrix degradation. Kapadia C, Ghosh MC, Grass L, Diamandis EP, Biochem Biophys Res Commun 2004 323 3 1084 90 10.1016/j.bbrc.2004.08.206 15381110 (Pubitemid 39243429)
58. Human kallikrein 6 degrades extracellular matrix proteins and may enhance the metastatic potential of tumour cells. Ghosh MC, Grass L, Soosaipillai A, Sotiropoulou G, Diamandis EP, Tumour Biol 2004 25 4 193 9 10.1159/000081102 15557757 (Pubitemid 39551746)
59. The extracellular matrix protein fibronectin is a substrate for kallikrein 7. Ramani VC, Haun RS, Biochem Biophys Res Commun 2008 369 4 1169 73 10.1016/j.bbrc.2008.03.021 18343220
60. Kallikrein-related peptidase-8 (KLK8) is an active serine protease in human epidermis and sweat and is involved in a skin barrier proteolytic cascade. Eissa A, Amodeo V, Smith CR, Diamandis EP, J Biol Chem 2011 286 1 687 706 10.1074/jbc.M110.125310 20940292