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Title: Patient-Specific Factors Influence Somatic Variations in VHL Tumors      
citations:
27174753
description:
Patients affected with von Hippel-Lindau disease are at risk of developing multiple independent clear cell renal carcinomas. This study performed whole genome sequencing on 40 tumors from 6 VHL patients to compare somatic variation patterns within and between patients. Although tumors from the same patient showed many differences, within-patient patterns were discernible. Single-nucleotide substitution type rates were significantly different between patients and showed biases in trinucleotide mutation context. We also observed biases in chromosome copy number aberrations. These results show that genetic background and/or environment can influence the types of mutations that occur.
Identifier:
phs001107.v1.p1
accesstypes:
download
enclave
landingpage: http://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001107.v1.p1
authentication: simpleLogin
none
authorization:
none
duaIndividual
name:
von Hippel-Lindau Disease
affiliations:
Oregon Health and Science University, Portland, OR, USA
name:
Paul Spellman, PhD
roles:
Principal Investigators
affiliations:
Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
name:
W. Marston Linehan, MD
roles:
Principal Investigators
affiliations:
Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
name:
Intramural Research Program of the National Insititutes of Health
roles:
Funding Source
performedBy:
TitleNameInstitute Principal InvestigatorsPaul Spellman, PhDOregon Health and Science University, Portland, OR, USA Principal InvestigatorsW. Marston Linehan, MDCenter for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA Funding SourceIntramural Research Program of the National Insititutes of HealthCenter for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
downloadURL: https://dbgap.ncbi.nlm.nih.gov/aa/wga.cgi?page=DUC&view_pdf&stacc=phs001107.v1.p1
Identifier:
phs001107.v1.p1_policy
name:
Data Use Certificate
Identifier:
2
name:
Disease-Specific (Kidney Cancer, IRB)
alternateIdentifiers:
yes
selectionCriteria:

The National Cancer Institute has a frozen tumor bank of ccRCC tumors that have been removed from VHL patients. We selected six patients, three males and three females, with at least five tumors from a single surgery from one kidney. They spanned a wide range of ages, BMIs, and smoking exposures. For three of the patients, adjacent normal kidney tissue was also available. A total of 42 tumors, 6 normal blood samples, and 3 adjacent normal kidney tissue samples were sequenced using Illumina's Human Whole Genome Sequencing service.

types:
Tumor vs. Matched-Normal
dateReleased:
04-11-2016
version:
phs001107.v1.p1
dateModified:
05-17-2016
abbreviation:
NCI
name:
NCI
ID:
0
name:
dbGaP

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