H. Laboratoire-de-génétique and . Herriot, Batiment 7, Place d'Arsonval, 69437 Lyon Cedex 03, France. 11 11 Laboratoire d'Anatomie Pathologique

B. Cedex and F. , Hôpital Cochin, 27 rue du Faubourg Saint- Jacques, 75679 Paris Cedex 14, France. 14 Service d, 39 rue Camile Desmoulins, 94805 Villejuif, France. 13 Department of Urology

. France, Hôpital Saint Joseph, 185 rue Raymond Losserand, 75674 Paris Cedex, France. 17 Laboratoire d'Anatomie Pathologique, Hôpital Cochin, 27 rue du Faubourg Saint-Jacques, 75679 Paris Cedex 14, France. 18 Consultation d'Oncogénétique Spécialisée, Service d'Urologie, Hôpital de Bicêtre, 78 rue du General Leclerc, 94275 Le Kremlin- Bicêtre, France. 19 Génétique Oncologique EPHE-INSERM U753 and Faculté de Médecine Paris-Sud, Le Kremlin-Bicêtre, and Institut de Cancérologie Gustave Roussy, 39 rue Camille Desmoulins, p.94805

S. Tickoo, M. Amin, and R. Zarbo, Colloidal Iron Staining in Renal Epithelial Neoplasms, Including Chromophobe Renal Cell Carcinoma, The American Journal of Surgical Pathology, vol.22, issue.4, pp.419-424, 1998.
DOI : 10.1097/00000478-199804000-00005

J. Oxley, J. Sullivan, A. Mitchelmore, and D. Gillatt, Metastatic renal oncocytoma, Journal of Clinical Pathology, vol.60, issue.6, pp.720-722, 2007.
DOI : 10.1136/jcp.2006.044198

J. Cheville, C. Lohse, H. Zincke, A. Weaver, and M. Blute, Comparisons of Outcome and Prognostic Features Among Histologic Subtypes of Renal Cell Carcinoma, The American Journal of Surgical Pathology, vol.27, issue.5, pp.612-624, 2003.
DOI : 10.1097/00000478-200305000-00005

S. Storkel, P. Steart, D. Drenckhahn, and W. Thoenes, The human chromophobe cell renal carcinoma: Its probable relation to intercalated cells of the collecting duct, Virchows Archiv B Cell Pathology Including Molecular Pathology, vol.52, issue.1, pp.237-245, 1989.
DOI : 10.1007/BF02890022

M. Nickerson, M. Warren, J. Toro, V. Matrosova, G. Glenn et al., 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-Dub?? syndrome, Cancer Cell, vol.2, issue.2, pp.157-164, 2002.
DOI : 10.1016/S1535-6108(02)00104-6

S. Khoo, M. Bradley, F. Wong, M. Hedblad, M. Nordenskjold et al., Birt-Hogg-Dub?? syndrome: mapping of a novel hereditary neoplasia gene to chromosome 17p12-q11.2, Oncogene, vol.20, issue.37, pp.5239-5242, 2001.
DOI : 10.1038/sj.onc.1204703

M. Tan, C. Rogers, J. Cooper, J. Ditlev, T. Maatman et al., Gene Expression Profiling of Renal Cell Carcinoma, Clinical Cancer Research, vol.10, issue.18, pp.6315-6321, 2004.
DOI : 10.1158/1078-0432.CCR-050002

M. Takahashi, X. Yang, J. Sugimura, J. Backdahl, M. Tretiakova et al., Molecular subclassification of kidney tumors and the discovery of new diagnostic markers, Oncogene, vol.22, issue.43, pp.6810-6818, 2003.
DOI : 10.1038/sj.onc.1206869

A. Schuetz, Q. Yin-goen, M. Amin, C. Moreno, C. Cohen et al., Molecular Classification of Renal Tumors by Gene Expression Profiling, The Journal of Molecular Diagnostics, vol.7, issue.2, pp.206-218, 2005.
DOI : 10.1016/S1525-1578(10)60547-8

X. Yang, M. Tan, H. Kim, J. Ditlev, M. Betten et al., A Molecular Classification of Papillary Renal Cell Carcinoma, Cancer Research, vol.65, issue.13, pp.5628-5637, 2005.
DOI : 10.1158/0008-5472.CAN-05-0533

S. Rohan, J. Tu, J. Kao, P. Mukherjee, F. Campagne et al., Gene Expression Profiling Separates Chromophobe Renal Cell Carcinoma from Oncocytoma and Identifies Vesicular Transport and Cell Junction Proteins as Differentially Expressed Genes, Clinical Cancer Research, vol.12, issue.23, pp.6937-6945, 2006.
DOI : 10.1158/1078-0432.CCR-06-1268

R. Gentleman, V. Carey, D. Bates, B. Bolstad, M. Dettling et al., Bioconductor: open software development for computational biology and bioinformatics, Genome Biology, vol.5, issue.10, p.80, 2004.
DOI : 10.1186/gb-2004-5-10-r80

V. Tusher, R. Tibshirani, and G. Chu, Significance analysis of microarrays applied to the ionizing radiation response, Proceedings of the National Academy of Sciences, vol.98, issue.9, pp.5116-5121, 2001.
DOI : 10.1073/pnas.091062498

R. Tibshirani, T. Hastie, B. Narasimhan, and G. Chu, Diagnosis of multiple cancer types by shrunken centroids of gene expression, Proceedings of the National Academy of Sciences, vol.99, issue.10, pp.6567-6572, 2002.
DOI : 10.1073/pnas.082099299

K. Furge, K. Lucas, M. Takahashi, J. Sugimura, E. Kort et al., Robust Classification of Renal Cell Carcinoma Based on Gene Expression Data and Predicted Cytogenetic Profiles, Cancer Research, vol.64, issue.12, pp.4117-4121, 2004.
DOI : 10.1158/0008-5472.CAN-04-0534

X. Zhao, C. Li, J. Paez, K. Chin, P. Janne et al., An Integrated View of Copy Number and Allelic Alterations in the Cancer Genome Using Single Nucleotide Polymorphism Arrays, Cancer Research, vol.64, issue.9, pp.3060-3071, 2004.
DOI : 10.1158/0008-5472.CAN-03-3308

M. Tan, C. Morrison, P. Wang, X. Yang, C. Haven et al., Loss of Parafibromin Immunoreactivity Is a Distinguishing Feature of Parathyroid Carcinoma, Clinical Cancer Research, vol.10, issue.19, pp.6629-6637, 2004.
DOI : 10.1158/1078-0432.CCR-04-0493

P. Bugert and G. Kovacs, Molecular differential diagnosis of renal cell carcinomas by microsatellite analysis, Am J Pathol, vol.149, pp.2081-2088, 1996.

H. Decker, C. Neuhaus, A. Jauch, M. Speicher, T. Ried et al., Detection of a germline mutation and somatic homozygous loss of the von Hippel-Lindau tumor-suppressor gene in a family with a de novo mutation, Human Genetics, vol.55, issue.6, pp.770-776, 1996.
DOI : 10.1007/BF02346188

M. Picken, B. Chyna, R. Flanigan, and J. Lee, Analysis of Chromosome 1p Abnormalities in Renal Oncocytomas by Loss of Heterozygosity Studies, American Journal of Clinical Pathology, vol.129, issue.3, pp.377-382, 2008.
DOI : 10.1309/KC2465ANDWVAXYDM

G. Hudes, M. Carducci, P. Tomczak, J. Dutcher, R. Figlin et al., Temsirolimus, Interferon Alfa, or Both for Advanced Renal-Cell Carcinoma, New England Journal of Medicine, vol.356, issue.22, pp.2271-2281, 2007.
DOI : 10.1056/NEJMoa066838

B. Seliger, Y. Rongcun, D. Atkins, S. Hammers, C. Huber et al., HER-2/neu is expressed in human renal cell carcinoma at heterogeneous levels independently of tumor grading and staging and can be recognized by HLA-A2.1-restricted cytotoxic T lymphocytes, International Journal of Cancer, vol.50, issue.3, pp.349-359, 2000.
DOI : 10.1002/1097-0215(20000801)87:3<349::AID-IJC7>3.0.CO;2-O

G. Gasparre, E. Hervouet, E. De-laplanche, J. Demont, L. Pennisi et al., Clonal expansion of mutated mitochondrial DNA is associated with tumor formation and complex I deficiency in the benign renal oncocytoma, Human Molecular Genetics, vol.17, issue.7, pp.986-995, 2008.
DOI : 10.1093/hmg/ddm371

O. Baris, F. Savagner, V. Nasser, B. Loriod, S. Granjeaud et al., Transcriptional Profiling Reveals Coordinated Up-Regulation of Oxidative Metabolism Genes in Thyroid Oncocytic Tumors, The Journal of Clinical Endocrinology & Metabolism, vol.89, issue.2, pp.994-1005, 2004.
DOI : 10.1210/jc.2003-031238

S. Selvarajan, L. Sii, A. Lee, G. Yip, B. Bay et al., Parafibromin expression in breast cancer: a novel marker for prognostication?, Journal of Clinical Pathology, vol.61, issue.1, pp.64-67, 2008.
DOI : 10.1136/jcp.2007.048694

C. Mosimann, G. Hausmann, and K. Basler, Parafibromin/Hyrax Activates Wnt/Wg Target Gene Transcription by Direct Association with ??-catenin/Armadillo, Cell, vol.125, issue.2, pp.327-341, 2006.
DOI : 10.1016/j.cell.2006.01.053
URL : http://doi.org/10.1016/j.cell.2006.01.053

J. Zhao, A. Yart, S. Frigerio, A. Perren, P. Schraml et al., Sporadic human renal tumors display frequent allelic imbalances and novel mutations of the HRPT2 gene, Oncogene, vol.25, issue.23, pp.3440-3449, 2007.
DOI : 10.1038/sj.onc.1210131

M. Yasui, T. Kwon, M. Knepper, S. Nielsen, and P. Agre, Aquaporin-6: An intracellular vesicle water channel protein in renal epithelia, Proceedings of the National Academy of Sciences, vol.96, issue.10, pp.5808-5813, 1999.
DOI : 10.1073/pnas.96.10.5808

R. Belizaire, C. Komanduri, K. Wooten, M. Chen, C. Thaller et al., Characterization of synaptogyrin 3 as a new synaptic vesicle protein, The Journal of Comparative Neurology, vol.284, issue.3, pp.266-281, 2004.
DOI : 10.1002/cne.20008