TY - JOUR
T1 - Proteogenomic characterization of pancreatic ductal adenocarcinoma
AU - Clinical Proteomic Tumor Analysis Consortium
AU - Cao, Liwei
AU - Huang, Chen
AU - Cui Zhou, Daniel
AU - Hu, Yingwei
AU - Lih, T. Mamie
AU - Savage, Sara R.
AU - Krug, Karsten
AU - Clark, David
AU - Schnaubelt, Michael
AU - Chen, Lijun
AU - da Veiga Leprevost, Felipe
AU - Eguez, Rodrigo Vargas
AU - Yang, Weiming
AU - Pan, Jianbo
AU - Wen, Bo
AU - Dou, Yongchao
AU - Jiang, Wen
AU - Liao, Yuxing
AU - Shi, Zhiao
AU - Terekhanova, Nadezhda V.
AU - Cao, Song
AU - Lu, Rita Jui Hsien
AU - Li, Yize
AU - Liu, Ruiyang
AU - Zhu, Houxiang
AU - Ronning, Peter
AU - Wu, Yige
AU - Wyczalkowski, Matthew A.
AU - Easwaran, Hariharan
AU - Danilova, Ludmila
AU - Mer, Arvind Singh
AU - Yoo, Seungyeul
AU - Wang, Joshua M.
AU - Liu, Wenke
AU - Haibe-Kains, Benjamin
AU - Thiagarajan, Mathangi
AU - Jewell, Scott D.
AU - Hostetter, Galen
AU - Newton, Chelsea J.
AU - Li, Qing Kay
AU - Roehrl, Michael H.
AU - Fenyö, David
AU - Wang, Pei
AU - Nesvizhskii, Alexey I.
AU - Mani, D. R.
AU - Chan, Daniel W.
AU - Hruban, Ralph H.
AU - Zhang, Hui
AU - Sokoll, Lori J.
AU - Zhang, Zhen
N1 - Publisher Copyright:
© 2021 Elsevier Inc.
PY - 2021/9/16
Y1 - 2021/9/16
N2 - Pancreatic ductal adenocarcinoma (PDAC) is a highly aggressive cancer with poor patient survival. Toward understanding the underlying molecular alterations that drive PDAC oncogenesis, we conducted comprehensive proteogenomic analysis of 140 pancreatic cancers, 67 normal adjacent tissues, and 9 normal pancreatic ductal tissues. Proteomic, phosphoproteomic, and glycoproteomic analyses were used to characterize proteins and their modifications. In addition, whole-genome sequencing, whole-exome sequencing, methylation, RNA sequencing (RNA-seq), and microRNA sequencing (miRNA-seq) were performed on the same tissues to facilitate an integrated proteogenomic analysis and determine the impact of genomic alterations on protein expression, signaling pathways, and post-translational modifications. To ensure robust downstream analyses, tumor neoplastic cellularity was assessed via multiple orthogonal strategies using molecular features and verified via pathological estimation of tumor cellularity based on histological review. This integrated proteogenomic characterization of PDAC will serve as a valuable resource for the community, paving the way for early detection and identification of novel therapeutic targets.
AB - Pancreatic ductal adenocarcinoma (PDAC) is a highly aggressive cancer with poor patient survival. Toward understanding the underlying molecular alterations that drive PDAC oncogenesis, we conducted comprehensive proteogenomic analysis of 140 pancreatic cancers, 67 normal adjacent tissues, and 9 normal pancreatic ductal tissues. Proteomic, phosphoproteomic, and glycoproteomic analyses were used to characterize proteins and their modifications. In addition, whole-genome sequencing, whole-exome sequencing, methylation, RNA sequencing (RNA-seq), and microRNA sequencing (miRNA-seq) were performed on the same tissues to facilitate an integrated proteogenomic analysis and determine the impact of genomic alterations on protein expression, signaling pathways, and post-translational modifications. To ensure robust downstream analyses, tumor neoplastic cellularity was assessed via multiple orthogonal strategies using molecular features and verified via pathological estimation of tumor cellularity based on histological review. This integrated proteogenomic characterization of PDAC will serve as a valuable resource for the community, paving the way for early detection and identification of novel therapeutic targets.
KW - CPTAC
KW - KRAS
KW - endothelial cell
KW - glycoproteins
KW - immune-cold tumors
KW - kinase inhibitors
KW - neoplastic cellularity
KW - pancreatic ductal adenocarcinoma
KW - proteogenomics
KW - tumor subtyping
UR - http://www.scopus.com/inward/record.url?scp=85116201977&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85116201977&partnerID=8YFLogxK
U2 - 10.1016/j.cell.2021.08.023
DO - 10.1016/j.cell.2021.08.023
M3 - Article
C2 - 34534465
AN - SCOPUS:85116201977
SN - 0092-8674
VL - 184
SP - 5031-5052.e26
JO - Cell
JF - Cell
IS - 19
ER -