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Genomic copy number variations in the genomes of leukocytes predict prostate cancer clinical outcomes

Yu, YP and Liu, S and Huo, Z and Martin, A and Nelson, JB and Tseng, GC and Luo, JH (2015) Genomic copy number variations in the genomes of leukocytes predict prostate cancer clinical outcomes. PLoS ONE, 10 (8).

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Abstract

© 2015 Yu et al. Accurate prediction of prostate cancer clinical courses remains elusive. In this study, we performed whole genome copy number analysis on leukocytes of 273 prostate cancer patients using Affymetrix SNP6.0 chip. Copy number variations (CNV) were found across all chromosomes of the human genome. An average of 152 CNV fragments per genome was identified in the leukocytes from prostate cancer patients. The size distributions of CNV in the genome of leukocytes were highly correlative with prostate cancer aggressiveness. A prostate cancer outcome prediction model was developed based on large size ratio of CNV from the leukocyte genomes. This prediction model generated an average prediction rate of 75.2%, with sensitivity of 77.3% and specificity of 69.0% for prostate cancer recurrence. When combined with Nomogram and the status of fusion transcripts, the average prediction rate was improved to 82.5%with sensitivity of 84.8%and specificity of 78.2%. In addition, the leukocyte prediction model was 62.6%accurate in predicting short prostate specific antigen doubling time. When combined with Gleason's grade, Nomogram and the status of fusion transcripts, the prediction model generated a correct prediction rate of 77.5% with 73.7% sensitivity and 80.1% specificity. To our knowledge, this is the first study showing that CNVs in leukocyte genomes are predictive of clinical outcomes of a human malignancy. Copyright:


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Details

Item Type: Article
Status: Published
Creators/Authors:
CreatorsEmailPitt UsernameORCID
Yu, YP
Liu, S
Huo, Z
Martin, A
Nelson, JB
Tseng, GCctseng@pitt.eduCTSENG
Luo, JHLUOJH@pitt.eduLUOJH
Contributors:
ContributionContributors NameEmailPitt UsernameORCID
EditorCulig, ZoranUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Date: 21 August 2015
Date Type: Publication
Access Restriction: No restriction; Release the ETD for access worldwide immediately.
Journal or Publication Title: PLoS ONE
Volume: 10
Number: 8
DOI or Unique Handle: 10.1371/journal.pone.0135982
Institution: University of Pittsburgh
Schools and Programs: Graduate School of Public Health > Biostatistics
School of Medicine > Pathology
School of Medicine > Urology
Refereed: Yes
Date Deposited: 23 Aug 2016 14:28
Last Modified: 02 Feb 2019 16:56
URI: http://d-scholarship.pitt.edu/id/eprint/28396

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