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An integrated TCGA pan-cancer clinical data resource to drive high-quality survival outcome analytics

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Title: An integrated TCGA pan-cancer clinical data resource to drive high-quality survival outcome analytics
Authors: Liu, J
Lichtenberg, T
Hoadley, KA
Poisson, LM
Lazar, AJ
Cherniack, AD
Kovatich, AJ
Benz, CC
Levine, DA
Lee, AV
Omberg, L
Wolf, DM
Shriver, CD
Thorsson, V
Hu, H
Item Type: Journal Article
Abstract: For a decade, The Cancer Genome Atlas (TCGA) program collected clinicopathologic annotation data along with multi-platform molecular profiles of more than 11,000 human tumors across 33 different cancer types. TCGA clinical data contain key features representing the democratized nature of the data collection process. To ensure proper use of this large clinical dataset associated with genomic features, we developed a standardized dataset named the TCGA Pan-Cancer Clinical Data Resource (TCGA-CDR), which includes four major clinical outcome endpoints. In addition to detailing major challenges and statistical limitations encountered during the effort of integrating the acquired clinical data, we present a summary that includes endpoint usage recommendations for each cancer type. These TCGA-CDR findings appear to be consistent with cancer genomics studies independent of the TCGA effort and provide opportunities for investigating cancer biology using clinical correlates at an unprecedented scale.
Issue Date: 5-Apr-2018
Date of Acceptance: 20-Feb-2018
URI: http://hdl.handle.net/10044/1/71224
DOI: https://doi.org/10.1016/j.cell.2018.02.052
ISSN: 0092-8674
Publisher: Elsevier
Start Page: 400
End Page: 416.e11
Journal / Book Title: Cell
Volume: 173
Issue: 2
Copyright Statement: © 2018 Elsevier Inc. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
Sponsor/Funder: SAIC-F-Frederick, Inc
Leidos Biomedical Research, Inc.
Funder's Grant Number: TCGA Pilot Program
15Y011ST
Keywords: Science & Technology
Life Sciences & Biomedicine
Biochemistry & Molecular Biology
Cell Biology
COMPREHENSIVE GENOMIC CHARACTERIZATION
PROGRESSION-FREE SURVIVAL
SUFFICIENT FOLLOW-UP
BREAST-CANCER
END-POINTS
MOLECULAR PORTRAITS
TIME
CLASSIFICATION
DEFINITIONS
RECURRENCE
Cox proportional hazards regression model
TCGA
The Cancer Genome Atlas
clinical data resource
disease-free interval
disease-specific survival
follow-up time
overall survival
progression-free interval
translational research
Databases, Genetic
Genomics
Humans
Kaplan-Meier Estimate
Neoplasms
Proportional Hazards Models
Cancer Genome Atlas Research Network
Humans
Neoplasms
Proportional Hazards Models
Genomics
Databases, Genetic
Kaplan-Meier Estimate
Science & Technology
Life Sciences & Biomedicine
Biochemistry & Molecular Biology
Cell Biology
COMPREHENSIVE GENOMIC CHARACTERIZATION
PROGRESSION-FREE SURVIVAL
SUFFICIENT FOLLOW-UP
BREAST-CANCER
END-POINTS
MOLECULAR PORTRAITS
TIME
CLASSIFICATION
DEFINITIONS
RECURRENCE
06 Biological Sciences
11 Medical and Health Sciences
Developmental Biology
Publication Status: Published
Online Publication Date: 2018-04-05
Appears in Collections:Department of Surgery and Cancer