@article{7d72d9106d4f4123837154dba90b2a44,
title = "Proteogenomic characterization of pancreatic ductal adenocarcinoma",
abstract = "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.",
keywords = "CPTAC, KRAS, endothelial cell, glycoproteins, immune-cold tumors, kinase inhibitors, neoplastic cellularity, pancreatic ductal adenocarcinoma, proteogenomics, tumor subtyping",
author = "{Clinical Proteomic Tumor Analysis Consortium} and Liwei Cao and Chen Huang and {Cui Zhou}, Daniel and Yingwei Hu and Lih, {T. Mamie} and Savage, {Sara R.} and Karsten Krug and Clark, {David J.} and Michael Schnaubelt and Lijun Chen and {da Veiga Leprevost}, Felipe and Eguez, {Rodrigo Vargas} and Weiming Yang and Jianbo Pan and Bo Wen and Yongchao Dou and Wen Jiang and Yuxing Liao and Zhiao Shi and Terekhanova, {Nadezhda V.} and Song Cao and Lu, {Rita Jui Hsien} and Yize Li and Ruiyang Liu and Houxiang Zhu and Peter Ronning and Yige Wu and Wyczalkowski, {Matthew A.} and Hariharan Easwaran and Ludmila Danilova and Mer, {Arvind Singh} and Seungyeul Yoo and Wang, {Joshua M.} and Wenke Liu and Benjamin Haibe-Kains and Mathangi Thiagarajan and Jewell, {Scott D.} and Galen Hostetter and Newton, {Chelsea J.} and Li, {Qing Kay} and Roehrl, {Michael H.} and David Feny{\"o} and Pei Wang and Nesvizhskii, {Alexey I.} and Mani, {D. R.} and Omenn, {Gilbert S.} and Boja, {Emily S.} and Mehdi Mesri and Robles, {Ana I.} and Henry Rodriguez and Bathe, {Oliver F.} and Chan, {Daniel W.} and Hruban, {Ralph H.} and Li Ding and Bing Zhang and Hui Zhang and Mitual Amin and Eunkyung An and Christina Ayad and Thomas Bauer and Chet Birger and Birrer, {Michael J.} and Boca, {Simina M.} and William Bocik and Melissa Borucki and Shuang Cai and Carr, {Steven A.} and Sandra Cerda and Huan Chen and Steven Chen and David Chesla and Chinnaiyan, {Arul M.} and Antonio Colaprico and Sandra Cottingham and Magdalena Derejska and Dhanasekaran, {Saravana M.} and Domagalski, {Marcin J.} and Druker, {Brian J.} and Elizabeth Duffy and Dyer, {Maureen A.} and Edwards, {Nathan J.} and Ellis, {Matthew J.} and Jennifer Eschbacher and Alicia Francis and Jesse Francis and Stacey Gabriel and Nikolay Gabrovski and Johanna Gardner and Gad Getz and Gillette, {Michael A.} and Goldthwaite, {Charles A.} and Pamela Grady and Shuai Guo and Pushpa Hariharan and Tara Hiltke and Barbara Hindenach and Hoadley, {Katherine A.} and Jasmine Huang and Jones, {Corbin D.} and Ketchum, {Karen A.} and Kinsinger, {Christopher R.} and Koziak, {Jennifer M.} and Katarzyna Kusnierz and Tao Liu and Jiang Long and David Mallery and Sailaja Mareedu and Ronald Matteotti and Nicollette Maunganidze and McGarvey, {Peter B.} and Parham Minoo and Paklina, {Oxana V.} and Paulovich, {Amanda G.} and Payne, {Samuel H.} and Olga Potapova and Barbara Pruetz and Liqun Qi and Nancy Roche and Rodland, {Karin D.} and Rohrer, {Daniel C.} and Schadt, {Eric E.} and Shabunin, {Alexey V.} and Troy Shelton and Yvonne Shutack and Shilpi Singh and Michael Smith and Smith, {Richard D.} and Sokoll, {Lori J.} and James Suh and Thangudu, {Ratna R.} and Tsang, {Shirley X.} and Um, {Ki Sung} and Valley, {Dana R.} and Negin Vatanian and Wenyi Wang and Wilson, {George D.} and Maciej Wiznerowicz and Zhen Zhang and Grace Zhao",
note = "Publisher Copyright: {\textcopyright} 2021 Elsevier Inc.",
year = "2021",
month = sep,
day = "16",
doi = "10.1016/j.cell.2021.08.023",
language = "English",
volume = "184",
pages = "5031--5052.e26",
journal = "Cell",
issn = "0092-8674",
number = "19",
}