Genomic aberrations in an African American colorectal cancer cohort reveals a MSI-specific profile and chromosome X amplification in male patients

PLoS ONE

Volumn 7, Issue 8, 2012, Pages

  Brim, Hassan ^a   Lee, Edward ^a   Abu Asab, Mones S ^b   Chaouchi, Mohamed ^c   Razjouyan, Hadi ^a   Namin, Hassanzadeh ^a   Goel, Ajay ^d   Schäffer, Alejandro A ^e   Ashktorab, Hassan ^a  

^a HOWARD UNIVERSITY COLLEGE OF MEDICINE   (United States)

^b NATIONAL CANCER INSTITUTE   (United States)

^c GEORGETOWN UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d BAYLOR RESEARCH INSTITUTE   (United States)

^e NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

ADULT; AFRICAN AMERICAN; AGE; AGED; ARTICLE; CANCER LOCALIZATION; CANCER STAGING; CANCER TISSUE; CAUCASIAN; CHROMOSOMAL INSTABILITY; CHROMOSOME 20; CHROMOSOME 3; CHROMOSOME 5; CHROMOSOME 7; CHROMOSOME 8; CLINICAL ARTICLE; COHORT ANALYSIS; COLORECTAL CANCER; COMPARATIVE GENOMIC HYBRIDIZATION; DCC GENE; FEMALE; GENDER; GENE AMPLIFICATION; GENE DOSAGE; HUMAN; HUMAN TISSUE; LPL GENE; MALE; MICROSATELLITE INSTABILITY; ONCOGENE; PCNT GENE; PHYLOGENY; RAF1 GENE; SOMATIC MUTATION; STS GENE; THRB GENE; TUMOR GENE; X CHROMOSOME; XIST GENE;

AFRICAN AMERICANS; AGED; CHROMOSOME ABERRATIONS; CHROMOSOMES, HUMAN, PAIR 20; CHROMOSOMES, HUMAN, X; COHORT STUDIES; COLORECTAL NEOPLASMS; COMPARATIVE GENOMIC HYBRIDIZATION; DEMOGRAPHY; EUROPEAN CONTINENTAL ANCESTRY GROUP; FEMALE; GENE AMPLIFICATION; GENES, NEOPLASM; GENOME, HUMAN; HUMANS; MALE; MICROSATELLITE INSTABILITY; MIDDLE AGED; PHYLOGENY;

EID: 84864661112     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0040392     Document Type: Article

References (55)

1. Jemal A, Siegel R, Ward E, Murray T, Xu J, et al. ((2007)) Cancer statistics, 2007. CA Cancer J Clin 57:43-66.
2. Fearon ER, Vogelstein B, ((1990)) A genetic model for colorectal tumorigenesis. Cell 61:759-767.
3. Markowitz S, ((2000)) DNA repair defects inactivate tumor suppressor genes and induce hereditary and sporadic colon cancers. J Clin Oncol 18:75S-80S.
4. Lengauer C, Kinzler KW, Vogelstein B, ((1998)) Genetic instabilities in human cancers. Nature 396:643-649.
5. Wang Z, Cummins JM, Shen D, Cahill DP, Jallepalli PV, et al. ((2004)) Three classes of genes mutated in colorectal cancers with chromosomal instability. Cancer Res 64:2998-3001.
6. Boland CR, Goel A, ((2010)) Microsatellite instability in colorectal cancer. Gastroenterology138:2073-2087 e2073.
7. Ried T, Knutzen R, Steinbeck R, Blegen H, Schrock E, et al. ((1996)) Comparative genomic hybridization reveals a specific pattern of chromosomal gains and losses during the genesis of colorectal tumors. Genes Chromosomes Cancer 15:234-245.
8. Bomme L, Bardi G, Pandis N, Fenger C, Kronborg O, et al. ((1994)) Clonal karyotypic abnormalities in colorectal adenomas: clues to the early genetic events in the adenoma-carcinoma sequence. Genes Chromosomes Cancer 10:190-196.
9. He QJ, Zeng WF, Sham JS, Xie D, Yang XW, et al. ((2003)) Recurrent genetic alterations in 26 colorectal carcinomas and 21 adenomas from Chinese patients. Cancer Genet Cytogenet 144:112-118.
10. Bardi G, Sukhikh T, Pandis N, Fenger C, Kronborg O, et al. ((1995)) Karyotypic characterization of colorectal adenocarcinomas. Genes Chromosomes Cancer 12:97-109.
11. Tsafrir D, Bacolod M, Selvanayagam Z, Tsafrir I, Shia J, et al. ((2006)) Relationship of gene expression and chromosomal abnormalities in colorectal cancer. Cancer Res 66:2129-2137.
12. Muleris M, Dutrillaux AM, Olschwang S, Salmon RJ, Dutrillaux B, ((1995)) Predominance of normal karyotype in colorectal tumors from hereditary non-polyposis colorectal cancer patients. Genes Chromosomes Cancer 14:223-226.
13. Camps J, Armengol G, del Rey J, Lozano JJ, Vauhkonen H, et al. ((2006)) Genome-wide differences between microsatellite stable and unstable colorectal tumors. Carcinogenesis 27:419-428.
14. Aaltonen LA, Peltomaki P, Leach FS, Sistonen P, Pylkkanen L, et al. ((1993)) Clues to the pathogenesis of familial colorectal cancer. Science 260:812-816.
15. Ionov Y, Peinado MA, Malkhosyan S, Shibata D, Perucho M, ((1993)) Ubiquitous somatic mutations in simple repeated sequences reveal a new mechanism for colonic carcinogenesis. Nature 363:558-561.
16. Goel A, Arnold CN, Niedzwiecki D, Chang DK, Ricciardiello L, et al. ((2003)) Characterization of sporadic colon cancer by patterns of genomic instability. Cancer Res 63:1608-1614.
17. Tang R, Changchien CR, Wu MC, Fan CW, Liu KW, et al. ((2004)) Colorectal cancer without high microsatellite instability and chromosomal instability - an alternative genetic pathway to human colorectal cancer. Carcinogenesis 25:841-846.
18. Trautmann K, Terdiman JP, French AJ, Roydasgupta R, Sein N, et al. ((2006)) Chromosomal instability in microsatellite-unstable and stable colon cancer. Clin Cancer Res 12:6379-6385.
19. Lassmann S, Weis R, Makowiec F, Roth J, Danciu M, et al. ((2007)) Array CGH identifies distinct DNA copy number profiles of oncogenes and tumor suppressor genes in chromosomal- and microsatellite-unstable sporadic colorectal carcinomas. J Mol Med 85:289-300.
20. Ashktorab H, Schaffer AA, Daremipouran M, Smoot DT, Lee E, et al. ((2010)) Distinct genetic alterations in colorectal cancer. PLoS One 5:e8879.
21. Sjoblom T, Jones S, Wood LD, Parsons DW, Lin J, et al. ((2006)) The consensus coding sequences of human breast and colorectal cancers. Science 314:268-274.
22. Ashktorab H, Smoot DT, Carethers JM, Rahmanian M, Kittles R, et al. ((2003)) High incidence of microsatellite instability in colorectal cancer from African Americans. Clin Cancer Res 9:1112-1117.
23. Ashktorab H, Smoot DT, Farzanmehr H, Fidelia-Lambert M, Momen B, et al. ((2005)) Clinicopathological features and microsatellite instability (MSI) in colorectal cancers from African Americans. Int J Cancer 116:914-919.
24. Brim H, Mokarram P, Naghibalhossaini F, Saberi-Firoozi M, Al-Mandhari M, et al. ((2008)) Impact of BRAF, MLH1 on the incidence of microsatellite instability high colorectal cancer in populations based study. Mol Cancer 7:68.
25. Felsenstein J, ((1989)) Mathematics vs. Evolution: Mathematical Evolutionary Theory. Science 246:941-942.
26. Kibreab A, Dowlati E, Nouraie M, Brim H, Lee E, et al. ((2009)) Colorectal neoplasia in young African Americans, Could race be a risk factor? A 40 years experience in an inner city teaching hospital. Gastereoentrology pp. 136-A337.
27. Kelly KM, Dickinson SL, Degraffinreid CR, Tatum CM, editors. Paskett ((2007)) ED. (Colorectal cancer screening in 3 racial groups. Am J Health Behav 31:502-513.
28. Carethers JM, ((2011)) One Colon Lumen but Two Organs. Gastroenterology.
29. Hitchins MP, Lin VA, Buckle A, Cheong K, Halani N, et al. ((2007)) Epigenetic inactivation of a cluster of genes flanking MLH1 in microsatellite-unstable colorectal cancer. Cancer Res 67:9107-9116.
30. Thean LF, Loi C, Ho KS, Koh PK, Eu KW, et al. ((2010)) Genome-wide scan identifies a copy number variable region at 3q26 that regulates PPM1L in APC mutation-negative familial colorectal cancer patients. Genes Chromosomes Cancer 49:99-106.
31. Arnold CN, Goel A, Niedzwiecki D, Dowell JM, Wasserman L, et al. ((2004)) APC promoter hypermethylation contributes to the loss of APC expression in colorectal cancers with allelic loss on 5q. Cancer Biol Ther 3:960-964.
32. Will O, Carvajal-Carmona LG, Gorman P, Howarth KM, Jones AM, et al. ((2007)) Homozygous PMS2 deletion causes a severe colorectal cancer and multiple adenoma phenotype without extraintestinal cancer. Gastroenterology 132:527-530.
33. Kratz CP, Emerling BM, Bonifas J, Wang W, Green ED, et al. ((2002)) Genomic structure of the PIK3CG gene on chromosome band 7q22 and evaluation as a candidate myeloid tumor suppressor. Blood 99:372-374.
34. Hutter CM, Slattery ML, Duggan DJ, Muehling J, Curtin K, et al. ((2010)) Characterization of the association between 8q24 and colon cancer: gene-environment exploration and meta-analysis. BMC Cancer 10:670.
35. Unotoro J, Kamiyama H, Ishido Y, Yaginuma Y, Kasamaki S, et al. ((2006)) Analysis of the relationship between sex and chromosomal aberrations in colorectal cancer by comparative genomic hybridization. J Int Med Res 34:397-405.
36. Arthold S, Kurowski A, Wutz A, ((2011)) Mechanistic insights into chromosome-wide silencing in X inactivation. Hum Genet.
37. Chura JC, Ryu HS, Simard M, Poirier D, Tremblay Y, et al. ((2009)) Steroid-converting enzymes in human ovarian carcinomas. Mol Cell Endocrinol 301:51-58.
38. Salhab M, Jiang WG, Newbold RF, Mokbel K, ((2008)) The expression of gene transcripts of telomere-associated genes in human breast cancer: correlation with clinico-pathological parameters and clinical outcome. Breast Cancer Res Treat 109:35-46.
39. Jian B, Nagineni CN, Meleth S, Grizzle W, Bland K, et al. ((2009)) Anosmin-1 involved in neuronal cell migration is hypoxia inducible and cancer regulated. Cell Cycle 8:3770-3776.
40. Shin SK, Nagasaka T, Jung BH, Matsubara N, Kim WH, et al. ((2007)) Epigenetic and genetic alterations in Netrin-1 receptors UNC5C and DCC in human colon cancer. Gastroenterology 133:1849-1857.
41. Lu C, Mishra A, Zhu YJ, Meltzer P, Cheng SY, ((2011)) Genomic profiling of genes contributing to metastasis in a mouse model of thyroid follicular carcinoma. Am J Cancer Res 1:1-13.
42. Palanisamy N, Ateeq B, Kalyana-Sundaram S, Pflueger D, Ramnarayanan K, et al. ((2010)) Rearrangements of the RAF kinase pathway in prostate cancer, gastric cancer and melanoma. Nat Med 16:793-798.
43. Zhao C, Yasui K, Lee CJ, Kurioka H, Hosokawa Y, et al. ((2003)) Elevated expression levels of NCOA3, TOP1, and TFAP2C in breast tumors as predictors of poor prognosis. Cancer 98:18-23.
44. Chen G, Rong M, Luo D, ((2010)) TNFRSF6B neutralization antibody inhibits proliferation and induces apoptosis in hepatocellular carcinoma cell. Pathol Res Pract 206:631-641.
45. Copelli SB, Mazzeo C, Gimenez A, Casco C, Meiss R, et al. ((2001)) Molecular analysis of p53 tumor-suppressor gene and microsatellites in preneoplastic and neoplastic lesions of the colon and esophagus. Oncol Rep 8:923-929.
46. Maliekal TT, Antony ML, Nair A, Paulmurugan R, Karunagaran D, ((2003)) Loss of expression, and mutations of Smad 2 and Smad 4 in human cervical cancer. Oncogene 22:4889-4897.
47. Cacev T, Radosevic S, Spaventi R, Pavelic K, Kapitanovic S, ((2005)) NF1 gene loss of heterozygosity and expression analysis in sporadic colon cancer. Gut 54:1129-1135.
48. Babaei-Jadidi R, Li N, Saadeddin A, Spencer-Dene B, Jandke A, et al. ((2011)) FBXW7 influences murine intestinal homeostasis and cancer, targeting Notch, Jun, and DEK for degradation. J Exp Med 208:295-312.
49. Rmali KA, Puntis MC, Jiang WG, ((2005)) Prognostic values of tumor endothelial markers in patients with colorectal cancer. World J Gastroenterol 11:1283-1286.
50. Yu J, Bulk E, Ji P, Hascher A, Tang M, et al. ((2010)) The EPHB6 receptor tyrosine kinase is a metastasis suppressor that is frequently silenced by promoter DNA hypermethylation in non-small cell lung cancer. Clin Cancer Res 16:2275-2283.
51. Wong JC, Chan SK, Schaeffer DF, Sagaert X, Lim HJ, et al. ((2011)) Absence of MMP2 Expression Correlates with Poor Clinical Outcomes in Rectal Cancer, and Is Distinct from MMP1-Related Outcomes in Colon Cancer. Clin Cancer Res 17:4167-4176.
52. Tominaga E, Tsuda H, Arao T, Nishimura S, Takano M, et al. ((2010)) Amplification of GNAS may be an independent, qualitative, and reproducible biomarker to predict progression-free survival in epithelial ovarian cancer. Gynecol Oncol 118:160-166.
53. Wilson CH, McIntyre RE, Arends MJ, Adams DJ, ((2010)) The activating mutation R201C in GNAS promotes intestinal tumourigenesis in Apc(Min/+) mice through activation of Wnt and ERK1/2 MAPK pathways. Oncogene 29:4567-4575.
54. Hu Q, Guo C, Li Y, Aronow BJ, Zhang J, ((2011)) LMO7 Mediates Cell-Specific Activation of Rho-MRTF-SRF Pathway and Plays an Important Role in Breast Cancer Cell Migration. Mol Cell Biol.
55. Abu-Asab MS, Chaouchi M, Alesci S, Galli S, Laassri M, et al. ((2011)) Biomarkers in the age of omics: time for a systems biology approach. OMICS 15:105-112.