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Volumn 7, Issue 3, 2012, Pages

Integrated epigenome profiling of repressive histone modifications, DNA methylation and gene expression in normal and malignant urothelial cells

Author keywords

[No Author keywords available]

Indexed keywords

CYTOSINE; MESSENGER RNA; HISTONE;

EID: 84863281311     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0032750     Document Type: Article
Times cited : (36)

References (36)
  • 1
    • 77955635233 scopus 로고    scopus 로고
    • CA Cancer
    • Cancer statistics
    • Jemal A, Siegel R, Xu J, Ward E Cancer statistics (2010) CA Cancer. J Clin 60: 277-300.
    • (2010) J Clin , vol.60 , pp. 277-300
    • Jemal, A.1    Siegel, R.2    Xu, J.3    Ward, E.4
  • 2
    • 58849152774 scopus 로고    scopus 로고
    • FGFR3 mutations indicate better survival in invasive upper urinary tract and bladder tumours
    • van Oers JM, Zwarthoff EC, Rehman I, Azzouzi AR, Cussenot O, et al. (2009) FGFR3 mutations indicate better survival in invasive upper urinary tract and bladder tumours. Eur Urol 55: 650-657.
    • (2009) Eur Urol , vol.55 , pp. 650-657
    • van Oers, J.M.1    Zwarthoff, E.C.2    Rehman, I.3    Azzouzi, A.R.4    Cussenot, O.5
  • 5
    • 79952727299 scopus 로고    scopus 로고
    • Hypermethylation of CpG islands and shores around specific microRNAs and mirtrons is associated with the phenotype and presence of bladder cancer
    • Dudziec E, Miah S, Choudhry HM, Owen HC, Blizard S, et al. (2011) Hypermethylation of CpG islands and shores around specific microRNAs and mirtrons is associated with the phenotype and presence of bladder cancer. Clin Cancer Res 17: 1287-1296.
    • (2011) Clin Cancer Res , vol.17 , pp. 1287-1296
    • Dudziec, E.1    Miah, S.2    Choudhry, H.M.3    Owen, H.C.4    Blizard, S.5
  • 6
    • 33847076849 scopus 로고    scopus 로고
    • Chromatin modifications and their function
    • Kouzarides T, (2007) Chromatin modifications and their function. Cell 128: 693-705.
    • (2007) Cell , vol.128 , pp. 693-705
    • Kouzarides, T.1
  • 7
    • 34249026300 scopus 로고    scopus 로고
    • High-resolution profiling of histone methylations in the human genome
    • Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, et al. (2007) High-resolution profiling of histone methylations in the human genome. Cell 129: 823-837.
    • (2007) Cell , vol.129 , pp. 823-837
    • Barski, A.1    Cuddapah, S.2    Cui, K.3    Roh, T.Y.4    Schones, D.E.5
  • 8
    • 46249112085 scopus 로고    scopus 로고
    • Combinatorial patterns of histone acetylations and methylations in the human genome
    • Wang Z, Zang C, Rosenfeld JA, Schones DE, Barski A, et al. (2008) Combinatorial patterns of histone acetylations and methylations in the human genome. Nat Genetics 40: 897-903.
    • (2008) Nat Genetics , vol.40 , pp. 897-903
    • Wang, Z.1    Zang, C.2    Rosenfeld, J.A.3    Schones, D.E.4    Barski, A.5
  • 10
    • 24344466882 scopus 로고    scopus 로고
    • DNA methylation and histone modifications: teaming up to silence genes
    • Fuks F, (2005) DNA methylation and histone modifications: teaming up to silence genes. Current Opinion Genetics & Dev 15: 490-495.
    • (2005) Current Opinion Genetics & Dev , vol.15 , pp. 490-495
    • Fuks, F.1
  • 11
    • 21144456526 scopus 로고    scopus 로고
    • Promoter hypermethylation is associated with tumor location, stage, and subsequent progression in transitional cell carcinoma
    • Catto JW, Azzouzi AR, Rehman I, Feeley KM, Cross SS, et al. (2005) Promoter hypermethylation is associated with tumor location, stage, and subsequent progression in transitional cell carcinoma. J Clin Oncol 23: 2903-2910.
    • (2005) J Clin Oncol , vol.23 , pp. 2903-2910
    • Catto, J.W.1    Azzouzi, A.R.2    Rehman, I.3    Feeley, K.M.4    Cross, S.S.5
  • 12
    • 70350536585 scopus 로고    scopus 로고
    • Distinct microRNA alterations characterize high and low grade bladder cancer
    • Catto JW, Miah S, Owen HC, Bryant H, Dudziec E, et al. (2009) Distinct microRNA alterations characterize high and low grade bladder cancer. Cancer Res 69: 8472-8481.
    • (2009) Cancer Res , vol.69 , pp. 8472-8481
    • Catto, J.W.1    Miah, S.2    Owen, H.C.3    Bryant, H.4    Dudziec, E.5
  • 13
    • 33745726728 scopus 로고    scopus 로고
    • Evidence for the early onset of aberrant promoter methylation in urothelial carcinoma
    • Dhawan D, Hamdy FC, Rehman I, Patterson J, Cross SS, et al. (2006) Evidence for the early onset of aberrant promoter methylation in urothelial carcinoma. J Pathol 209: 336-343.
    • (2006) J Pathol , vol.209 , pp. 336-343
    • Dhawan, D.1    Hamdy, F.C.2    Rehman, I.3    Patterson, J.4    Cross, S.S.5
  • 14
    • 34247485737 scopus 로고    scopus 로고
    • Promoter hypermethylation identifies progression risk in bladder cancer
    • Yates DR, Rehman I, Abbod MF, Meuth M, Cross SS, et al. (2007) Promoter hypermethylation identifies progression risk in bladder cancer. Clin Cancer Res 13: 2046-2053.
    • (2007) Clin Cancer Res , vol.13 , pp. 2046-2053
    • Yates, D.R.1    Rehman, I.2    Abbod, M.F.3    Meuth, M.4    Cross, S.S.5
  • 15
    • 59149084538 scopus 로고    scopus 로고
    • The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores
    • Irizarry RA, Ladd-Acosta C, Wen B, Wu Z, Montano C, et al. (2009) The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat Genetics 41: 178-186.
    • (2009) Nat Genetics , vol.41 , pp. 178-186
    • Irizarry, R.A.1    Ladd-Acosta, C.2    Wen, B.3    Wu, Z.4    Montano, C.5
  • 16
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
    • Huang da W, Sherman BT, Lempicki RA, (2009) Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 4: 44-57.
    • (2009) Nat Protoc , vol.4 , pp. 44-57
    • da Huang, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 17
    • 56449107474 scopus 로고    scopus 로고
    • BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams
    • Hulsen T, de Vlieg J, Alkema W, (2008) BioVenn- a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams. BMC genomics 9: 488.
    • (2008) BMC Genomics , vol.9 , pp. 488
    • Hulsen, T.1    de Vlieg, J.2    Alkema, W.3
  • 18
    • 2542565666 scopus 로고    scopus 로고
    • Gene expression in the urinary bladder: a common carcinoma in situ gene expression signature exists disregarding histopathological classification
    • Dyrskjot L, Kruhoffer M, Thykjaer T, Marcussen N, Jensen JL, et al. (2004) Gene expression in the urinary bladder: a common carcinoma in situ gene expression signature exists disregarding histopathological classification. Cancer Res 64: 4040-4048.
    • (2004) Cancer Res , vol.64 , pp. 4040-4048
    • Dyrskjot, L.1    Kruhoffer, M.2    Thykjaer, T.3    Marcussen, N.4    Jensen, J.L.5
  • 19
    • 76749089153 scopus 로고    scopus 로고
    • Predictive value of progression-related gene classifier in primary non-muscle invasive bladder cancer
    • Kim WJ, Kim EJ, Kim SK, Kim YJ, Ha YS, et al. (2010) Predictive value of progression-related gene classifier in primary non-muscle invasive bladder cancer. Mol Cancer 9: 3.
    • (2010) Mol Cancer , vol.9 , pp. 3
    • Kim, W.J.1    Kim, E.J.2    Kim, S.K.3    Kim, Y.J.4    Ha, Y.S.5
  • 20
    • 29344445843 scopus 로고    scopus 로고
    • Increased expression of the polycomb group gene, EZH2, in transitional cell carcinoma of the bladder
    • Raman JD, Mongan NP, Tickoo SK, Boorjian SA, Scherr DS, et al. (2005) Increased expression of the polycomb group gene, EZH2, in transitional cell carcinoma of the bladder. Clin Cancer Res 11: 8570-8576.
    • (2005) Clin Cancer Res , vol.11 , pp. 8570-8576
    • Raman, J.D.1    Mongan, N.P.2    Tickoo, S.K.3    Boorjian, S.A.4    Scherr, D.S.5
  • 21
    • 67349203626 scopus 로고    scopus 로고
    • Somatic mutations of the histone H3K27 demethylase gene UTX in human cancer
    • van Haaften G, Dalgliesh GL, Davies H, Chen L, Bignell G, et al. (2009) Somatic mutations of the histone H3K27 demethylase gene UTX in human cancer. Nat Genetics 41: 521-523.
    • (2009) Nat Genetics , vol.41 , pp. 521-523
    • van Haaften, G.1    Dalgliesh, G.L.2    Davies, H.3    Chen, L.4    Bignell, G.5
  • 22
    • 33846649587 scopus 로고    scopus 로고
    • Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer
    • Schlesinger Y, Straussman R, Keshet I, Farkash S, Hecht M, et al. (2007) Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nat Genetics 39: 232-236.
    • (2007) Nat Genetics , vol.39 , pp. 232-236
    • Schlesinger, Y.1    Straussman, R.2    Keshet, I.3    Farkash, S.4    Hecht, M.5
  • 23
    • 73449144780 scopus 로고    scopus 로고
    • Targeting of EZH2 to a defined genomic site is sufficient for recruitment of Dnmt3a but not de novo DNA methylation
    • Rush M, Appanah R, Lee S, Lam LL, Goyal P, et al. (2009) Targeting of EZH2 to a defined genomic site is sufficient for recruitment of Dnmt3a but not de novo DNA methylation. Epigenetics 4: 404-414.
    • (2009) Epigenetics , vol.4 , pp. 404-414
    • Rush, M.1    Appanah, R.2    Lee, S.3    Lam, L.L.4    Goyal, P.5
  • 24
    • 44349131472 scopus 로고    scopus 로고
    • Gene silencing in cancer by histone H3 lysine 27 trimethylation independent of promoter DNA methylation
    • Kondo Y, Shen L, Cheng AS, Ahmed S, Boumber Y, et al. (2008) Gene silencing in cancer by histone H3 lysine 27 trimethylation independent of promoter DNA methylation. Nat Genetics 40: 741-750.
    • (2008) Nat Genetics , vol.40 , pp. 741-750
    • Kondo, Y.1    Shen, L.2    Cheng, A.S.3    Ahmed, S.4    Boumber, Y.5
  • 25
    • 19544366580 scopus 로고    scopus 로고
    • Mutation analysis of the 8p candidate tumour suppressor genes DBC2 (RHOBTB2) and LZTS1 in bladder cancer
    • Knowles MA, Aveyard JS, Taylor CF, Harnden P, Bass S, (2005) Mutation analysis of the 8p candidate tumour suppressor genes DBC2 (RHOBTB2) and LZTS1 in bladder cancer. Cancer Letters 225: 121-130.
    • (2005) Cancer Letters , vol.225 , pp. 121-130
    • Knowles, M.A.1    Aveyard, J.S.2    Taylor, C.F.3    Harnden, P.4    Bass, S.5
  • 26
    • 13044313477 scopus 로고    scopus 로고
    • The FEZ1 gene at chromosome 8p22 encodes a leucine-zipper protein, and its expression is altered in multiple human tumors
    • Ishii H, Baffa R, Numata SI, Murakumo Y, Rattan S, et al. (1999) The FEZ1 gene at chromosome 8p22 encodes a leucine-zipper protein, and its expression is altered in multiple human tumors. Proc Natl Acad Sci USA 96: 3928-3933.
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 3928-3933
    • Ishii, H.1    Baffa, R.2    Numata, S.I.3    Murakumo, Y.4    Rattan, S.5
  • 27
    • 0029144456 scopus 로고
    • Gelsolin: a candidate for suppressor of human bladder cancer
    • Tanaka M, Mullauer L, Ogiso Y, Fujita H, Moriya S, et al. (1995) Gelsolin: a candidate for suppressor of human bladder cancer. Cancer Res 55: 3228-3232.
    • (1995) Cancer Res , vol.55 , pp. 3228-3232
    • Tanaka, M.1    Mullauer, L.2    Ogiso, Y.3    Fujita, H.4    Moriya, S.5
  • 28
    • 77951877764 scopus 로고    scopus 로고
    • Identification of tumor and invasion suppressor gene modulators in bladder cancer by different classes of histone deacetylase inhibitors using reverse phase protein arrays
    • Gould JJ, Kenney PA, Rieger-Christ KM, Silva Neto B, Wszolek MF, et al. (2010) Identification of tumor and invasion suppressor gene modulators in bladder cancer by different classes of histone deacetylase inhibitors using reverse phase protein arrays. J Urol 183: 2395-2402.
    • (2010) J Urol , vol.183 , pp. 2395-2402
    • Gould, J.J.1    Kenney, P.A.2    Rieger-Christ, K.M.3    Silva Neto, B.4    Wszolek, M.F.5
  • 29
    • 0037249834 scopus 로고    scopus 로고
    • CSE1L/CAS: its role in proliferation and apoptosis
    • Behrens P, Brinkmann U, Wellmann A, (2003) CSE1L/CAS: its role in proliferation and apoptosis. Apoptosis 8: 39-44.
    • (2003) Apoptosis , vol.8 , pp. 39-44
    • Behrens, P.1    Brinkmann, U.2    Wellmann, A.3
  • 30
    • 34547956843 scopus 로고    scopus 로고
    • hCAS/CSE1L associates with chromatin and regulates expression of select p53 target genes
    • Tanaka T, Ohkubo S, Tatsuno I, Prives C, (2007) hCAS/CSE1L associates with chromatin and regulates expression of select p53 target genes. Cell 130: 638-650.
    • (2007) Cell , vol.130 , pp. 638-650
    • Tanaka, T.1    Ohkubo, S.2    Tatsuno, I.3    Prives, C.4
  • 31
    • 0028152842 scopus 로고
    • Normal human urothelial cells in vitro: proliferation and induction of stratification
    • Southgate J, Hutton KA, Thomas DF, Trejdosiewicz LK, (1994) Normal human urothelial cells in vitro: proliferation and induction of stratification. Lab Invest 71: 583-594.
    • (1994) Lab Invest , vol.71 , pp. 583-594
    • Southgate, J.1    Hutton, K.A.2    Thomas, D.F.3    Trejdosiewicz, L.K.4
  • 32
    • 0346363606 scopus 로고    scopus 로고
    • Distinct patterns of microsatellite instability are seen in tumours of the urinary tract
    • Catto JW, Azzouzi AR, Amira N, Rehman I, Feeley KM, et al. (2003) Distinct patterns of microsatellite instability are seen in tumours of the urinary tract. Oncogene 22: 8699-8706.
    • (2003) Oncogene , vol.22 , pp. 8699-8706
    • Catto, J.W.1    Azzouzi, A.R.2    Amira, N.3    Rehman, I.4    Feeley, K.M.5
  • 33
    • 79959875909 scopus 로고    scopus 로고
    • De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics
    • Adamidi C, Wang Y, Gruen D, Mastrobuoni G, You X, et al. (2011) De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics. Genome Res 21: 1193-1200.
    • (2011) Genome Res , vol.21 , pp. 1193-1200
    • Adamidi, C.1    Wang, Y.2    Gruen, D.3    Mastrobuoni, G.4    You, X.5
  • 34
    • 79953177468 scopus 로고    scopus 로고
    • Aligning short sequencing reads with Bowtie
    • Andreas D Baxevanis [Et Al] Chapter 11: Unit 11 17
    • Langmead B, (2010) Aligning short sequencing reads with Bowtie. Current protocols in bioinformatics/editoral board, Andreas D Baxevanis [et al] Chapter 11: Unit 11 17.
    • (2010) Current Protocols in Bioinformatics/Editoral Board
    • Langmead, B.1
  • 36
    • 34548157024 scopus 로고    scopus 로고
    • Microarray analysis of the cellular pathways involved in the adaptation to and progression of motor neuron injury in the SOD1 G93A mouse model of familial ALS
    • Ferraiuolo L, Heath PR, Holden H, Kasher P, Kirby J, et al. (2007) Microarray analysis of the cellular pathways involved in the adaptation to and progression of motor neuron injury in the SOD1 G93A mouse model of familial ALS. J Neurosci 27: 9201-9219.
    • (2007) J Neurosci , vol.27 , pp. 9201-9219
    • Ferraiuolo, L.1    Heath, P.R.2    Holden, H.3    Kasher, P.4    Kirby, J.5


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