CpG methylation profiling in VHL related and VHL unrelated renal cell carcinoma

Molecular Cancer

Volumn 8, Issue , 2009, Pages

  McRonald, Fiona E ^a   Morris, Mark R ^a   Gentle, Dean ^a   Winchester, Laura ^b   Baban, Dilair ^b   Ragoussis, Jiannis ^b   Clarke, Noel W ^c   Brown, Michael D ^c   Kishida, Takeshi ^d   Yao, Masahiro ^d   Latif, Farida ^a   Maher, Eamonn R ^a  

^a UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^b UNIVERSITY OF OXFORD   (United Kingdom)

^c UNIVERSITY OF MANCHESTER   (United Kingdom)

^d YOKOHAMA CITY UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL MARKER; GENOMIC DNA; MITOGEN ACTIVATED PROTEIN KINASE; PROTEIN KINASE B; TRANSFORMING GROWTH FACTOR BETA; VON HIPPEL LINDAU PROTEIN;

ADULT; AGED; ARTICLE; CLEAR CELL CARCINOMA; CLINICAL ARTICLE; CONTROLLED STUDY; CPG ISLAND; DNA METHYLATION; EPIGENETICS; GENE EXPRESSION PROFILING; HISTOPATHOLOGY; HUMAN; HUMAN CELL; HUMAN TISSUE; KIDNEY CARCINOMA; PAPILLARY CARCINOMA; PHENOTYPE; SIGNAL TRANSDUCTION; WILD TYPE; CLUSTER ANALYSIS; GENE REGULATORY NETWORK; GENETIC EPIGENESIS; GENETICS; KIDNEY TUMOR; MIDDLE AGED; NONPARAMETRIC TEST; POISSON DISTRIBUTION; REPRODUCIBILITY; VON HIPPEL LINDAU DISEASE;

ADULT; AGED; CARCINOMA, RENAL CELL; CLUSTER ANALYSIS; CPG ISLANDS; DNA METHYLATION; EPIGENESIS, GENETIC; GENE REGULATORY NETWORKS; HUMANS; KIDNEY NEOPLASMS; MIDDLE AGED; POISSON DISTRIBUTION; REPRODUCIBILITY OF RESULTS; STATISTICS, NONPARAMETRIC; VON HIPPEL-LINDAU DISEASE;

EID: 67749113811     PISSN: None     EISSN: 14764598     Source Type: Journal    
DOI: 10.1186/1476-4598-8-31     Document Type: Article

References (29)

1. Latif F Tory K Gnarra J Yao M Duh FM Orcutt ML Stackhouse T Kuzmin I Modi W Geil L Schmidt L Zhou F Li H Wei MH Chen F Glenn G Choyke P Walther MM Weng Y Duan D-SR Dean M Glava D Richards FM Crossey PA Ferguson-Smith MA Le Paslier D Chumakov I Cohen D Chinault AC Maher ER Linehan WM Zbar B Lerman MI Identification of the von Hippel-Lindau disease tumor suppressor gene Science. 1994, 260(5112):1317-1320 10.1126/ science.8493574
2. Foster K Crossey PA Cairns P Hetherington JW Richards FM Jones MH Bentley E Affara NA Ferguson-Smith MA Maher ER Molecular genetic investigation of sporadic renal cell carcinoma: Analysis of allele loss on chromosomes 3p, 5q, 11p, 17 and 22 Br J Cancer 1994, 69:230-4 8297719
3. Gnarra JR Tory K Weng Y Schmidt L Wei MH Li H Latif F Liu S Chen F Duh FM Lubensky I Duan DR Florence C Pozzatti R Walther MM Bander NH Grossman HB Brauch H Pomer S Brooks JD Isaacs WB Lerman MI Zbar B Linehan WM Mutations of the VHL tumour suppressor gene in renal carcinoma Nat Genet 1994, 7:85-90 10.1038/ng0594-85 7915601
4. Banks RE Tirukonda P Taylor C Hornigold N Astuti D Cohen D Maher ER Stanley AJ Harnden P Joyce A Knowles M Selby PJ Genetic and epigenetic analysis of von Hippel-Lindau (VHL) gene alterations and relationship with clinical variables in sporadic renal cancer Cancer Res 2006, 66:2000-11 10.1158/0008-5472.CAN-05-3074 16488999
5. Herman JG Latif F Weng Y Lerman MI Zbar B Liu S Samid D Duan DS Gnarra JR Linehan WM Baylin SB Silencing of the VHL tumor-suppressor gene by DNA methylation in renal carcinoma Proc Natl Acad Sci USA 1994, 91:9700-4 44884 7937876 10.1073/pnas.91.21.9700
6. Clifford SC Prowse AH Affara NA Buys CH Maher ER Inactivation of the von Hippel-Lindau (VHL) tumour suppressor gene and allelic losses at chromosome arm 3p in primary renal cell carcinoma: Evidence for a VHL-independent pathway in clear cell renal tumourigenesis Genes Chromosomes Cancer 1998, 22:200-9 10.1002/ (SICI)1098-2264(199807)22:3<200::AID-GCC5>3.0.CO;2-# 9624531
7. Morrissey C Martinez A Zatyka M Agathanggelou A Honorio S Astuti D Morgan NV Moch H Richards FM Kishida T Yao M Schraml P Latif F Maher ER Epigenetic inactivation of the RASSF1A 3p21.3 tumor suppressor gene in both clear cell and papillary renal cell carcinoma Cancer Res 2001, 61:7277-81 11585766
8. Morris MR Gentle D Abdulrahman M Maina EN Gupta K Banks RE Wiesener MS Kishida T Yao M Teh B Latif F Maher ER Tumor suppressor activity and epigenetic inactivation of hepatocyte growth factor activator inhibitor type 2/SPINT2 in papillary and clear cell renal cell carcinoma Cancer Res 2005, 65:4598-606 10.1158/0008-5472.CAN-04-3371 15930277
9. Morris MR Gentle D Abdulrahman M Clarke N Brown M Kishida T Yao M Teh BT Latif F Maher ER Functional epigenomics approach to identify methylated candidate tumour suppressor genes in renal cell carcinoma Br J Cancer 2008, 98:496-501 10.1038/sj.bjc.6604180 18195710
10. Bibikova M Lin Z Zhou L Chudin E Garcia EW Wu B Doucet D Thomas NJ Wang Y Vollmer E Goldmann T Seifart C Jiang W Barker DL Chee MS Floros J Fan JB High-throughput DNA methylation profiling using universal bead arrays Genome Res 2006, 16:383-93 1415217 16449502 10.1101/gr.4410706
11. Cairns P Gene methylation and early detection of genitourinary cancer: the road ahead Nat Rev Cancer 2007, 7:531-43 10.1038/nrc2170 17585333
12. Weisenberger DJ Siegmund KD Campan M Young J Long TI Faasse MA Kang GH Widschwendter M Weener D Buchanan D Koh H Simms L Barker M Leggett B Levine J Kim M French AJ Thibodeau SN Jass J Haile R Laird PW CpG island methylator phenotype underlies sporadic microsatellite instability and is tightly associated with BRAF mutation in colorectal cancer Nat Genet 2006, 38:787-93 10.1038/ng1834 16804544
13. Marsit CJ Houseman EA Christensen BC Eddy K Bueno R Sugarbaker DJ Nelson HH Karagas MR Kelsey KT Examination of a CpG island methylator phenotype and implications of methylation profiles in solid tumors Cancer Res 2006, 66:10621-9 10.1158/0008-5472.CAN-06-1687 17079487
14. Dulaimi E Ibanez de Caceres I Uzzo RG Al-Saleem T Greenberg RE Polascik TJ Babb JS Grizzle WE Cairns P Promoter hypermethylation profile of kidney cancer Clin Cancer Res 2004, 10:3972-9 10.1158/ 1078-0432.CCR-04-0175 15217927
15. Teodoridis JM Hardie C Brown R CpG island methylator phenotype (CIMP) in cancer: Causes and implications Cancer Lett 2008, 268:177-86 10.1016/ j.canlet.2008.03.022 18471961
16. Matsuda D Khoo SK Massie A Iwamura M Chen J Petillo D Wondergem B Avallone M Kloostra SJ Tan MH Koeman J Zhang Z Kahnoski RJ The French Kidney Cancer Study Group Baba S Teh BT Identification of copy number alterations and its association with pathological features in clear cell and papillary RCC Cancer Lett 2008, 272:260-7 10.1016/ j.canlet.2008.06.015 18682315
17. Frigola J Song J Stirzaker C Hinshelwood RA Peinado MA Clark SJ Epigenetic remodeling in colorectal cancer results in coordinate gene suppression across an entire chromosome band Nat Genet 2006, 38:540-9 10.1038/ng1781 16642018
18. Guilford P Hopkins J Harraway J McLeod M McLeod N Harawira P Taite H Scoular R Miller A Reeve AE E-cadherin germline mutations in familial gastric cancer Nature 1998, 392:402-405 10.1038/32918 9537325
19. Sahlin P Windh P Lauritzen C Emanuelsson M Gronberg H Stenman G Women with Saethre-Chotzen syndrome are at increased risk of breast cancer Genes Chromosomes Cancer 2007, 46:656-660 10.1002/gcc.20449 17437280
20. Costa VL Henrique R Ribeiro FR Pinto M Oliveira J Lobo F Teixeira MR Jerónimo C Quantitative promoter methylation analysis of multiple cancer-related genes in renal cell tumors BMC Cancer 2007, 7:133 1940017 17645803 10.1186/1471-2407-7-133
21. Nijman SM Hijmans EM El Messaoudi S van Dongen MM Sardet C Bernards R A functional genetic screen identifies TFE3 as a gene that confers resistance to the anti-proliferative effects of the retinoblastoma protein and transforming growth factor-beta J Biol Chem 2006, 281:21582-7 10.1074/jbc.M602312200 16737956
22. Medendorp K van Groningen JJ Schepens M Vreede L Thijssen J Schoenmakers EF van den Hurk WH Geurts van Kessel A Kuiper RP Molecular mechanisms underlying the MiT translocation subgroup of renal cell carcinomas Cytogenet Genome Res 2007, 118:157-65 10.1159/000108296 18000366
23. Zatyka M da Silva NF Clifford SC Morris MR Wiesener MS Eckardt KU Houlston RS Richards FM Latif F Maher ER Identification of cyclin D1 and other novel targets for the von Hippel-Lindau tumor suppressor gene by expression array analysis and investigation of cyclin D1 genotype as a modifier in von Hippel-Lindau disease Cancer Res 2002, 62:3803-11 12097293
24. Agathanggelou A Bièche I Ahmed-Choudhury J Nicke B Dammann R Baksh S Gao B Minna JD Downward J Maher ER Latif F Identification of novel gene expression targets for the Ras association domain family 1 (RASSF1A) tumor suppressor gene in non-small cell lung cancer and neuroblastoma Cancer Res 2003, 63:5344-51 14500366
25. Baba M Hirai S Yamada-Okabe H Hamada K Tabuchi H Kobayashi K Kondo K Yoshida M Yamashita A Kishida T Nakaigawa N Nagashima Y Kubota Y Yao M Ohno S Loss of von Hippel-Lindau protein causes cell density dependent deregulation of CyclinD1 expression through hypoxia-inducible factor Oncogene 2003, 22:2728-38 10.1038/sj.onc.1206373 12743597
26. Baba M Furihata M Hong SB Tessarollo L Haines DC Southon E Patel V Igarashi P Alvord WG Leighty R Yao M Bernardo M Ileva L Choyke P Warren MB Zbar B Linehan WM Schmidt LS Kidney-targeted Birt-Hogg-Dube gene inactivation in a mouse model: Erk1/2 and Akt-mTOR activation, cell hyperproliferation, and polycystic kidneys J Natl Cancer Inst 2008, 100:140-54 10.1093/jnci/djm288 18182616
27. Huang D Ding Y Luo WM Bender S Qian CN Kort E Zhang ZF VandenBeldt K Duesbery NS Resau JH Teh BT Inhibition of MAPK kinase signaling pathways suppressed renal cell carcinoma growth and angiogenesis in vivo Cancer Res 2008, 68:81-8 10.1158/0008-5472.CAN-07-5311 18172299
28. An J Rettig MB Mechanism of von Hippel-Lindau protein-mediated suppression of nuclear factor kappa B activity Mol Cell Biol 2005, 25:7546-56 1190288 16107702 10.1128/MCB.25.17.7546-7556.2005
29. Morris MR Hesson LB Wagner KJ Morgan NV Astuti D Lees RD Cooper WN Lee J Gentle D Macdonald F Kishida T Grundy R Yao M Latif F Maher ER Multigene methylation analysis of Wilms' tumour and adult renal cell carcinoma Oncogene 2003, 22:6794-801 10.1038/sj.onc.1206914 14555992