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Volumn 6, Issue 7, 2011, Pages

Molecular Sub-Classification of renal epithelial tumors using Meta-Analysis of gene expression microarrays

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ALGORITHM; ARTICLE; CLEAR CELL CARCINOMA; GENE EXPRESSION; HISTOPATHOLOGY; KIDNEY CARCINOMA; KIDNEY TUMOR; MICROARRAY ANALYSIS; ONCOCYTOMA; PAPILLARY CARCINOMA; PREDICTION; TUMOR CLASSIFICATION; CLASSIFICATION; CLUSTER ANALYSIS; DNA MICROARRAY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETIC DATABASE; GENETICS; HUMAN; META ANALYSIS; METHODOLOGY; NEOPLASM; REPRODUCIBILITY; STANDARD;

EID: 79960758585     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0021260     Document Type: Article
Times cited : (8)

References (40)
  • 1
    • 0242608613 scopus 로고    scopus 로고
    • The genetic basis of cancer of the kidney
    • Linehan WM, Walther MM, Zbar B, (2003) The genetic basis of cancer of the kidney. J Urol 170: 2163-2172.
    • (2003) J Urol , vol.170 , pp. 2163-2172
    • Linehan, W.M.1    Walther, M.M.2    Zbar, B.3
  • 2
    • 0036190056 scopus 로고    scopus 로고
    • Prognostic impact of histologic subtyping of adult renal epithelial neoplasms: an experience of 405 cases
    • Amin MB, Tamboli P, Javidan J, Stricker H, de-Peralta Venturina M, et al. (2002) Prognostic impact of histologic subtyping of adult renal epithelial neoplasms: an experience of 405 cases. Am J Surg Pathol 26: 281-291.
    • (2002) Am J Surg Pathol , vol.26 , pp. 281-291
    • Amin, M.B.1    Tamboli, P.2    Javidan, J.3    Stricker, H.4    de-Peralta Venturina, M.5
  • 3
    • 34548839167 scopus 로고    scopus 로고
    • Outcome prediction for renal cell carcinoma: evaluation of prognostic factors for tumours divided according to histological subtype
    • Delahunt B, Bethwaite PB, Nacey JN, (2007) Outcome prediction for renal cell carcinoma: evaluation of prognostic factors for tumours divided according to histological subtype. Pathology 39: 459-465.
    • (2007) Pathology , vol.39 , pp. 459-465
    • Delahunt, B.1    Bethwaite, P.B.2    Nacey, J.N.3
  • 4
    • 0033535530 scopus 로고    scopus 로고
    • Novel mutations of the MET proto-oncogene in papillary renal carcinomas
    • Schmidt L, Junker K, Nakaigawa N, Kinjerski T, Weirich G, et al. (1999) Novel mutations of the MET proto-oncogene in papillary renal carcinomas. Oncogene 18: 2343-2350.
    • (1999) Oncogene , vol.18 , pp. 2343-2350
    • Schmidt, L.1    Junker, K.2    Nakaigawa, N.3    Kinjerski, T.4    Weirich, G.5
  • 5
    • 17344381429 scopus 로고    scopus 로고
    • Germline and somatic mutations in the tyrosine kinase domain of the MET proto-oncogene in papillary renal carcinomas
    • Schmidt L, Duh FM, Chen F, Kishida T, Glenn G, et al. (1997) Germline and somatic mutations in the tyrosine kinase domain of the MET proto-oncogene in papillary renal carcinomas. Nature Genetics 16: 68-73.
    • (1997) Nature Genetics , vol.16 , pp. 68-73
    • Schmidt, L.1    Duh, F.M.2    Chen, F.3    Kishida, T.4    Glenn, G.5
  • 6
    • 0000939691 scopus 로고    scopus 로고
    • Mutations in a novel gene lead to kidney tumors, lung wall defects, and benign tumors of the hair follicle in patients with the Birt-Hogg-Dube syndrome
    • Nickerson ML, Warren MB, Toro JR, Matrosova V, Glenn G, et al. (2002) Mutations in a novel gene lead to kidney tumors, lung wall defects, and benign tumors of the hair follicle in patients with the Birt-Hogg-Dube syndrome. Cancer Cell 2: 157-164.
    • (2002) Cancer Cell , vol.2 , pp. 157-164
    • Nickerson, M.L.1    Warren, M.B.2    Toro, J.R.3    Matrosova, V.4    Glenn, G.5
  • 7
    • 0027954044 scopus 로고
    • Mutations of the VHL tumour suppressor gene in renal carcinoma
    • Gnarra JR, Tory K, Weng Y, Schmidt L, Wei MH, et al. (1994) Mutations of the VHL tumour suppressor gene in renal carcinoma. Nature Genetics 7: 85-90.
    • (1994) Nature Genetics , vol.7 , pp. 85-90
    • Gnarra, J.R.1    Tory, K.2    Weng, Y.3    Schmidt, L.4    Wei, M.H.5
  • 8
    • 51049084870 scopus 로고    scopus 로고
    • Improved identification of von Hippel-Lindau gene alterations in clear cell renal tumors
    • Nickerson ML, Jaeger E, Shi Y, Durocher JA, Mahurkar S, et al. (2008) Improved identification of von Hippel-Lindau gene alterations in clear cell renal tumors. Clinical Cancer Research 14: 4726-4734.
    • (2008) Clinical Cancer Research , vol.14 , pp. 4726-4734
    • Nickerson, M.L.1    Jaeger, E.2    Shi, Y.3    Durocher, J.A.4    Mahurkar, S.5
  • 10
    • 65249122512 scopus 로고    scopus 로고
    • Novel therapeutic inhibitors of the c-Met signaling pathway in cancer
    • Eder JP, Vande Woude GF, Boerner SA, LoRusso PM, (2009) Novel therapeutic inhibitors of the c-Met signaling pathway in cancer. Clin Cancer Res 15: 2207-2214.
    • (2009) Clin Cancer Res , vol.15 , pp. 2207-2214
    • Eder, J.P.1    Vande Woude, G.F.2    Boerner, S.A.3    LoRusso, P.M.4
  • 11
    • 57349113820 scopus 로고    scopus 로고
    • Diagnostic problems in the subtyping of renal tumors encountered by five pathologists
    • Kummerlin I, ten Kate F, Smedts F, Horn T, Algaba F, et al. (2009) Diagnostic problems in the subtyping of renal tumors encountered by five pathologists. Pathol Res Pract 205: 27-34.
    • (2009) Pathol Res Pract , vol.205 , pp. 27-34
    • Kummerlin, I.1    ten Kate, F.2    Smedts, F.3    Horn, T.4    Algaba, F.5
  • 13
    • 33748491517 scopus 로고    scopus 로고
    • The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements
    • Shi L, Reid LH, Jones WD, Shippy R, Warrington JA, et al. (2006) The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements. Nat Biotechnol 24: 1151-1161.
    • (2006) Nat Biotechnol , vol.24 , pp. 1151-1161
    • Shi, L.1    Reid, L.H.2    Jones, W.D.3    Shippy, R.4    Warrington, J.A.5
  • 14
    • 53149135477 scopus 로고    scopus 로고
    • Key issues in conducting a meta-analysis of gene expression microarray datasets
    • Ramasamy A, Mondry A, Holmes CC, Altman DG, (2008) Key issues in conducting a meta-analysis of gene expression microarray datasets. PLoS Med 5: e184.
    • (2008) PLoS Med , vol.5
    • Ramasamy, A.1    Mondry, A.2    Holmes, C.C.3    Altman, D.G.4
  • 15
    • 34447560961 scopus 로고    scopus 로고
    • Analysis of Gene Expression Data Using BRB-Array Tools
    • Simon R, Lam A, Li MC, Ngan M, Menenzes S, et al. (2007) Analysis of Gene Expression Data Using BRB-Array Tools. Cancer Inform 3: 11-17.
    • (2007) Cancer Inform , vol.3 , pp. 11-17
    • Simon, R.1    Lam, A.2    Li, M.C.3    Ngan, M.4    Menenzes, S.5
  • 16
    • 2542610720 scopus 로고    scopus 로고
    • Preprocessing of oligonucleotide array data
    • author reply 658
    • Wu Z, Irizarry RA, (2004) Preprocessing of oligonucleotide array data. Nat Biotechnol 22: 656-658; author reply 658.
    • (2004) Nat Biotechnol , vol.22 , pp. 656-658
    • Wu, Z.1    Irizarry, R.A.2
  • 17
    • 14644425442 scopus 로고    scopus 로고
    • MergeMaid: R tools for merging and cross-study validation of gene expression data
    • Cope L, Zhong X, Garrett E, Parmigiani G, (2004) MergeMaid: R tools for merging and cross-study validation of gene expression data. Stat Appl Genet Mol Biol 3: Article29.
    • (2004) Stat Appl Genet Mol Biol , vol.3
    • Cope, L.1    Zhong, X.2    Garrett, E.3    Parmigiani, G.4
  • 18
    • 40749107034 scopus 로고    scopus 로고
    • How large a training set is needed to develop a classifier for microarray data?
    • Dobbin KK, Zhao Y, Simon RM, (2008) How large a training set is needed to develop a classifier for microarray data? Clin Cancer Res 14: 108-114.
    • (2008) Clin Cancer Res , vol.14 , pp. 108-114
    • Dobbin, K.K.1    Zhao, Y.2    Simon, R.M.3
  • 19
    • 33751006151 scopus 로고    scopus 로고
    • RankProd: a bioconductor package for detecting differentially expressed genes in meta-analysis
    • Hong F, Breitling R, McEntee CW, Wittner BS, Nemhauser JL, et al. (2006) RankProd: a bioconductor package for detecting differentially expressed genes in meta-analysis. Bioinformatics 22: 2825-2827.
    • (2006) Bioinformatics , vol.22 , pp. 2825-2827
    • Hong, F.1    Breitling, R.2    McEntee, C.W.3    Wittner, B.S.4    Nemhauser, J.L.5
  • 20
    • 38849106351 scopus 로고    scopus 로고
    • A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments
    • Hong F, Breitling R, (2008) A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments. Bioinformatics 24: 374-382.
    • (2008) Bioinformatics , vol.24 , pp. 374-382
    • Hong, F.1    Breitling, R.2
  • 21
    • 0036372855 scopus 로고    scopus 로고
    • New feature subset selection procedures for classification of expression profiles
    • Bo T, Jonassen I, (2002) New feature subset selection procedures for classification of expression profiles. Genome Biol 3: RESEARCH0017.
    • (2002) Genome Biol , vol.3
    • Bo, T.1    Jonassen, I.2
  • 22
    • 79960823374 scopus 로고    scopus 로고
    • Impact of ischemia and tissue procurement conditions on gene expression in renal cell carcinoma
    • Liu N, Khurana K, Sanford T, Aprelikova O, Worrell R, et al. (2009) Impact of ischemia and tissue procurement conditions on gene expression in renal cell carcinoma. J Urol 181: 155-156.
    • (2009) J Urol , vol.181 , pp. 155-156
    • Liu, N.1    Khurana, K.2    Sanford, T.3    Aprelikova, O.4    Worrell, R.5
  • 23
    • 0043192901 scopus 로고    scopus 로고
    • A gene expression-based method to diagnose clinically distinct subgroups of diffuse large B cell lymphoma
    • Wright G, Tan B, Rosenwald A, Hurt EH, Wiestner A, et al. (2003) A gene expression-based method to diagnose clinically distinct subgroups of diffuse large B cell lymphoma. Proc Natl Acad Sci U S A 100: 9991-9996.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 9991-9996
    • Wright, G.1    Tan, B.2    Rosenwald, A.3    Hurt, E.H.4    Wiestner, A.5
  • 24
    • 27944493276 scopus 로고    scopus 로고
    • Classification of microarrays to nearest centroids
    • Dabney AR, (2005) Classification of microarrays to nearest centroids. Bioinformatics 21: 4148-4154.
    • (2005) Bioinformatics , vol.21 , pp. 4148-4154
    • Dabney, A.R.1
  • 25
    • 23844524767 scopus 로고    scopus 로고
    • Gene signatures of progression and metastasis in renal cell cancer
    • Jones J, Otu H, Spentzos D, Kolia S, Inan M, et al. (2005) Gene signatures of progression and metastasis in renal cell cancer. Clin Cancer Res 11: 5730-5739.
    • (2005) Clin Cancer Res , vol.11 , pp. 5730-5739
    • Jones, J.1    Otu, H.2    Spentzos, D.3    Kolia, S.4    Inan, M.5
  • 27
    • 66749104378 scopus 로고    scopus 로고
    • High-resolution DNA copy number and gene expression analyses distinguish chromophobe renal cell carcinomas and renal oncocytomas
    • Yusenko MV, Kuiper RP, Boethe T, Ljungberg B, van Kessel AG, et al. (2009) High-resolution DNA copy number and gene expression analyses distinguish chromophobe renal cell carcinomas and renal oncocytomas. BMC Cancer 9: 152.
    • (2009) BMC Cancer , vol.9 , pp. 152
    • Yusenko, M.V.1    Kuiper, R.P.2    Boethe, T.3    Ljungberg, B.4    van Kessel, A.G.5
  • 28
    • 3042667856 scopus 로고    scopus 로고
    • Robust classification of renal cell carcinoma based on gene expression data and predicted cytogenetic profiles
    • Furge KA, Lucas KA, Takahashi M, Sugimura J, Kort EJ, et al. (2004) Robust classification of renal cell carcinoma based on gene expression data and predicted cytogenetic profiles. Cancer Res 64: 4117-4121.
    • (2004) Cancer Res , vol.64 , pp. 4117-4121
    • Furge, K.A.1    Lucas, K.A.2    Takahashi, M.3    Sugimura, J.4    Kort, E.J.5
  • 29
    • 34548071005 scopus 로고    scopus 로고
    • Secreted frizzled-related protein 1 loss contributes to tumor phenotype of clear cell renal cell carcinoma
    • Gumz ML, Zou H, Kreinest PA, Childs AC, Belmonte LS, et al. (2007) Secreted frizzled-related protein 1 loss contributes to tumor phenotype of clear cell renal cell carcinoma. Clin Cancer Res 13: 4740-4749.
    • (2007) Clin Cancer Res , vol.13 , pp. 4740-4749
    • Gumz, M.L.1    Zou, H.2    Kreinest, P.A.3    Childs, A.C.4    Belmonte, L.S.5
  • 30
    • 52949143124 scopus 로고    scopus 로고
    • Somatic pairing of chromosome 19 in renal oncocytoma is associated with deregulated EGLN2-mediated [corrected] oxygen-sensing response
    • Koeman JM, Russell RC, Tan MH, Petillo D, Westphal M, et al. (2008) Somatic pairing of chromosome 19 in renal oncocytoma is associated with deregulated EGLN2-mediated [corrected] oxygen-sensing response. PLoS Genet 4: e1000176.
    • (2008) PLoS Genet , vol.4
    • Koeman, J.M.1    Russell, R.C.2    Tan, M.H.3    Petillo, D.4    Westphal, M.5
  • 31
    • 33845734138 scopus 로고    scopus 로고
    • Gene expression profiling separates chromophobe renal cell carcinoma from oncocytoma and identifies vesicular transport and cell junction proteins as differentially expressed genes
    • Rohan S, Tu JJ, Kao J, Mukherjee P, Campagne F, et al. (2006) Gene expression profiling separates chromophobe renal cell carcinoma from oncocytoma and identifies vesicular transport and cell junction proteins as differentially expressed genes. Clin Cancer Res 12: 6937-6945.
    • (2006) Clin Cancer Res , vol.12 , pp. 6937-6945
    • Rohan, S.1    Tu, J.J.2    Kao, J.3    Mukherjee, P.4    Campagne, F.5
  • 32
    • 33646349993 scopus 로고    scopus 로고
    • Classification of renal neoplasms based on molecular signatures
    • Yang XJ, Sugimura J, Schafernak KT, Tretiakova MS, Han M, et al. (2006) Classification of renal neoplasms based on molecular signatures. J Urol 175: 2302-2306.
    • (2006) J Urol , vol.175 , pp. 2302-2306
    • Yang, X.J.1    Sugimura, J.2    Schafernak, K.T.3    Tretiakova, M.S.4    Han, M.5
  • 33
    • 10944260135 scopus 로고    scopus 로고
    • Clinical trial design for microarray predictive marker discovery and assessment
    • Pusztai L, Hess KR, (2004) Clinical trial design for microarray predictive marker discovery and assessment. Ann Oncol 15: 1731-1737.
    • (2004) Ann Oncol , vol.15 , pp. 1731-1737
    • Pusztai, L.1    Hess, K.R.2
  • 35
    • 33748710231 scopus 로고    scopus 로고
    • Development and evaluation of therapeutically relevant predictive classifiers using gene expression profiling
    • Simon R, (2006) Development and evaluation of therapeutically relevant predictive classifiers using gene expression profiling. Journal of the National Cancer Institute 98: 1169-1171.
    • (2006) Journal of the National Cancer Institute , vol.98 , pp. 1169-1171
    • Simon, R.1
  • 37
    • 0026497586 scopus 로고
    • PAX8, a human paired box gene: isolation and expression in developing thyroid, kidney and Wilms' tumors
    • Poleev A, Fickenscher H, Mundlos S, Winterpacht A, Zabel B, et al. (1992) PAX8, a human paired box gene: isolation and expression in developing thyroid, kidney and Wilms' tumors. Development 116: 611-623.
    • (1992) Development , vol.116 , pp. 611-623
    • Poleev, A.1    Fickenscher, H.2    Mundlos, S.3    Winterpacht, A.4    Zabel, B.5
  • 39
    • 77951991212 scopus 로고    scopus 로고
    • Genomic expression and single-nucleotide polymorphism profiling discriminates chromophobe renal cell carcinoma and oncocytoma
    • Tan MH, Wong CF, Tan HL, Yang XJ, Ditlev J, et al. (2010) Genomic expression and single-nucleotide polymorphism profiling discriminates chromophobe renal cell carcinoma and oncocytoma. BMC Cancer 10: 196.
    • (2010) BMC Cancer , vol.10 , pp. 196
    • Tan, M.H.1    Wong, C.F.2    Tan, H.L.3    Yang, X.J.4    Ditlev, J.5
  • 40
    • 34248168006 scopus 로고    scopus 로고
    • Detection of DNA copy number changes and oncogenic signaling abnormalities from gene expression data reveals MYC activation in high-grade papillary renal cell carcinoma
    • Furge KA, Chen J, Koeman J, Swiatek P, Dykema K, et al. (2007) Detection of DNA copy number changes and oncogenic signaling abnormalities from gene expression data reveals MYC activation in high-grade papillary renal cell carcinoma. Cancer Research 67: 3171-3176.
    • (2007) Cancer Research , vol.67 , pp. 3171-3176
    • Furge, K.A.1    Chen, J.2    Koeman, J.3    Swiatek, P.4    Dykema, K.5


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