FOR THE DIAGNOSIS OF MORPHOLOGICALLY CHALLENGING RENAL TUMORS (below):
Clear cell (CRCC), Papillary (PRCC), Chromophobe (CHRCC), and Oncocytoma (OC)

From: Monzon FA and Hagenkord JM, Lyons-Weiler MA, Balani JP, Parwani AV, Sciulli CM, Li J, Chandran UR, Bastacky SI, Dhir R. Whole genome SNP arrays as a potential diagnostic tool for the detection of characteristic chromosomal aberrations in renal epithelial tumors. Mod Pathol. 2008 May;21(5):599-608. RCC1.pdf

See also these manuscripts for use of virtual karyotypes for renal tumors:
Hagenkord JM, Parwani AV, Lyons-Weiler MA, Alvarez K, Amato R, Gatalica Z, Gonzalez-Berjon JM, Peterson L, Dhir R, Monzon FA.Virtual karyotyping with SNP microarrays reduces uncertainty in the diagnosis of renal epithelial tumors. Diagn Pathol. 2008 Nov 6;3:44. RCC2.pdf

Federico A Monzon, Karla Alvarez, Zoran Gatalica, Julia A Bridge, Marilu Nelson, Hyun-Jung Kim, Jill M Hagenkord. Detection of chromosomal aberrations in renal tumors: a comparative study of conventional cytogenetics and virtual karyotyping with SNP microarrays. Arch Pathol Lab Med, 2009, in press. RCC3.pdf

Hyun-Jung Kim M.D., Steven S. Shen M.D., Ph.D., Alberto G. Ayala M.D., Jae Y. Ro M.D., M.S., Ph.D, Luan D. Truong M.D., Karla Alvarez B.Sc., Julia A. Bridge M.D., Zoran Gatalica M.D., Jill M. Hagenkord, José M. Gonzalez-Berjon M.D., and Federico A. Monzon M.D. Virtual-Karyotyping with SNP microarrays in morphologically challenging renal cell neoplasms: a practical and useful diagnostic modality. Am J Surg Pathol, 2009, in press.

Colorectal carcinoma, whole genome view (below)

Breast Cancer (below): Her2Neu amplification, 3 whole genome views

3 breast cancers samples, whole genome views.

Pediatric glial tumor , paraffin embedded (below). Top plots shows SNP array virtual karyotype from 10K2.0 array showing acquired UPD of 1q and 9p. ArrayCGH of sample sample does not detect any genetic abnormalities. (Data courtesy of Robert Sobel, PhD, University of Pittsburgh)