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Proteogenomic characterization of pancreatic ductal adenocarcinoma.
Cao, Liwei; Huang, Chen; Cui Zhou, Daniel; Hu, Yingwei; Lih, T Mamie; Savage, Sara R; Krug, Karsten; Clark, David J; Schnaubelt, Michael; Chen, Lijun; da Veiga Leprevost, Felipe; Eguez, Rodrigo Vargas; Yang, Weiming; Pan, Jianbo; Wen, Bo; Dou, Yongchao; Jiang, Wen; Liao, Yuxing; Shi, Zhiao; Terekhanova, Nadezhda V; Cao, Song; Lu, Rita Jui-Hsien; Li, Yize; Liu, Ruiyang; Zhu, Houxiang; Ronning, Peter; Wu, Yige; Wyczalkowski, Matthew A; Easwaran, Hariharan; Danilova, Ludmila; Mer, Arvind Singh; Yoo, Seungyeul; Wang, Joshua M; Liu, Wenke; Haibe-Kains, Benjamin; Thiagarajan, Mathangi; Jewell, Scott D; Hostetter, Galen; Newton, Chelsea J; Li, Qing Kay; Roehrl, Michael H; Fenyö, David; Wang, Pei; Nesvizhskii, Alexey I; Mani, D R; Omenn, Gilbert S; Boja, Emily S; Mesri, Mehdi; Robles, Ana I; Rodriguez, Henry.
Afiliación
  • Cao L; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Huang C; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Cui Zhou D; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Hu Y; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Lih TM; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Savage SR; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Krug K; Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142, USA.
  • Clark DJ; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Schnaubelt M; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Chen L; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • da Veiga Leprevost F; Department of Pathology, University of Michigan, Ann Arbor, MI 48109, USA.
  • Eguez RV; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Yang W; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Pan J; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Wen B; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Dou Y; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Jiang W; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Liao Y; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Shi Z; Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
  • Terekhanova NV; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Cao S; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Lu RJ; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Li Y; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Liu R; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Zhu H; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Ronning P; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Wu Y; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Wyczalkowski MA; Department of Medicine, Washington University in St. Louis, St. Louis, MO 631110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
  • Easwaran H; The Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University, Baltimore, MD 21287, USA.
  • Danilova L; Department of Oncology, Johns Hopkins University, Baltimore, MD 21205, USA.
  • Mer AS; Princess Margaret Cancer Centre, University Health Network, Toronto, ON M5G 1L7, Canada.
  • Yoo S; Sema4, a Mount Sinai venture, Stamford, CT 06902, USA.
  • Wang JM; Institute for Systems Genetics, NYU Grossman School of Medicine, New York, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, NYU Grossman School of Medicine, New York, NY 10016, USA.
  • Liu W; Institute for Systems Genetics, NYU Grossman School of Medicine, New York, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, NYU Grossman School of Medicine, New York, NY 10016, USA.
  • Haibe-Kains B; Princess Margaret Cancer Centre, University Health Network, Toronto, ON M5G 1L7, Canada; Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada.
  • Thiagarajan M; Leidos Biomedical Research Inc., Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA.
  • Jewell SD; Van Andel Research Institute, Grand Rapids, MI 49503, USA.
  • Hostetter G; Van Andel Research Institute, Grand Rapids, MI 49503, USA.
  • Newton CJ; Van Andel Research Institute, Grand Rapids, MI 49503, USA.
  • Li QK; Department of Pathology, Johns Hopkins University, Baltimore, MD 21231, USA.
  • Roehrl MH; Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; Human Oncology and Pathogenesis Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA.
  • Fenyö D; Institute for Systems Genetics, NYU Grossman School of Medicine, New York, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, NYU Grossman School of Medicine, New York, NY 10016, USA.
  • Wang P; Sema4, a Mount Sinai venture, Stamford, CT 06902, USA.
  • Nesvizhskii AI; Department of Pathology, University of Michigan, Ann Arbor, MI 48109, USA.
  • Mani DR; Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142, USA.
  • Omenn GS; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA.
  • Boja ES; Office of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
  • Mesri M; Office of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
  • Robles AI; Office of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
  • Rodriguez H; Office of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
Cell ; 184(19): 5031-5052.e26, 2021 09 16.
Article en En | MEDLINE | ID: mdl-34534465
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.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Neoplasias Pancreáticas / Adenocarcinoma / Carcinoma Ductal Pancreático / Proteogenómica Tipo de estudio: Diagnostic_studies / Etiology_studies / Incidence_studies / Observational_studies / Prognostic_studies / Risk_factors_studies / Screening_studies Límite: Adult / Aged / Aged80 / Female / Humans / Male / Middle aged Idioma: En Revista: Cell Año: 2021 Tipo del documento: Article País de afiliación: Estados Unidos
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Neoplasias Pancreáticas / Adenocarcinoma / Carcinoma Ductal Pancreático / Proteogenómica Tipo de estudio: Diagnostic_studies / Etiology_studies / Incidence_studies / Observational_studies / Prognostic_studies / Risk_factors_studies / Screening_studies Límite: Adult / Aged / Aged80 / Female / Humans / Male / Middle aged Idioma: En Revista: Cell Año: 2021 Tipo del documento: Article País de afiliación: Estados Unidos