American Association for Cancer Research
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Supplementary Table S1 from Utility of Single-Cell Genomics in Diagnostic Evaluation of Prostate Cancer

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posted on 2023-03-31, 01:25 authored by Joan Alexander, Jude Kendall, Jean McIndoo, Linda Rodgers, Robert Aboukhalil, Dan Levy, Asya Stepansky, Guoli Sun, Lubomir Chobardjiev, Michael Riggs, Hilary Cox, Inessa Hakker, Dawid G. Nowak, Juliana Laze, Elton Llukani, Abhishek Srivastava, Siobhan Gruschow, Shalini S. Yadav, Brian Robinson, Gurinder Atwal, Lloyd C. Trotman, Herbert Lepor, James Hicks, Michael Wigler, Alexander Krasnitz

A zipped file archive containing Supplementary Table 1 as an Excel spreadsheet and a subfolder with graphic images pointed to by the hyperlinks in the spreadsheet.


CSHL Flow Cytometry Shared Resource

Simons Foundation

National Cancer Institute

Department of the Army

Global Prostate Cancer Research Foundation

Long Island Cruizin' for a Cure



A distinction between indolent and aggressive disease is a major challenge in diagnostics of prostate cancer. As genetic heterogeneity and complexity may influence clinical outcome, we have initiated studies on single tumor cell genomics. In this study, we demonstrate that sparse DNA sequencing of single-cell nuclei from prostate core biopsies is a rich source of quantitative parameters for evaluating neoplastic growth and aggressiveness. These include the presence of clonal populations, the phylogenetic structure of those populations, the degree of the complexity of copy-number changes in those populations, and measures of the proportion of cells with clonal copy-number signatures. The parameters all showed good correlation to the measure of prostatic malignancy, the Gleason score, derived from individual prostate biopsy tissue cores. Remarkably, a more accurate histopathologic measure of malignancy, the surgical Gleason score, agrees better with these genomic parameters of diagnostic biopsy than it does with the diagnostic Gleason score and related measures of diagnostic histopathology. This is highly relevant because primary treatment decisions are dependent upon the biopsy and not the surgical specimen. Thus, single-cell analysis has the potential to augment traditional core histopathology, improving both the objectivity and accuracy of risk assessment and inform treatment decisions.Significance: Genomic analysis of multiple individual cells harvested from prostate biopsies provides an indepth view of cell populations comprising a prostate neoplasm, yielding novel genomic measures with the potential to improve the accuracy of diagnosis and prognosis in prostate cancer. Cancer Res; 78(2); 348–58. ©2017 AACR.

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