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Pan-cancer proteogenomics connects oncogenic drivers to functional states
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Li, Yize (Washington University in St. Louis) ;
Porta-Pardo, Eduard (Institut Germans Trias i Pujol. Institut de Recerca contra la Leucèmia Josep Carreras) ;
Tokheim, Collin (Harvard T.H. Chan School of Public Health) ;
Bailey, Matthew H. (Brigham Young University) ;
Yaron, Tomer (Weill Cornell Medicine) ;
Stathias, Vasileios (University of Miami Miller School of Medicine) ;
Geffen, Yifat (Massachusetts General Hospital (Boston)) ;
Imbach, Kathleen (Institut Germans Trias i Pujol. Institut de Recerca contra la Leucèmia Josep Carreras) ;
Cao, Song (McDonnell Genome Institute) ;
Anand, Shankara (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Akiyama, Yo (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Liu, Wenke (NYU Grossman School of Medicine) ;
Wyczalkowski, Matthew A. (McDonnell Genome Institute) ;
Song, Yizhe (McDonnell Genome Institute) ;
Storrs, Erik P. (McDonnell Genome Institute) ;
Wendl, Michael C. (Washington University in St. Louis) ;
Zhang, Wubing (Dana-Farber Cancer Institute (Boston, Estats Units)) ;
Sibai, Mustafa (Institut Germans Trias i Pujol. Institut de Recerca contra la Leucèmia Josep Carreras) ;
Ruiz-Serra, Victoria (Institut Germans Trias i Pujol. Institut de Recerca contra la Leucèmia Josep Carreras) ;
Liang, Wen-Wei (McDonnell Genome Institute) ;
Terekhanova, Nadezhda V. (McDonnell Genome Institute) ;
Martins Rodrigues, Fernanda (McDonnell Genome Institute) ;
Clauser, Karl R. (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Heiman, David I. (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Zhang, Qing (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Aguet, Francois (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Calinawan, Anna Pamela (Icahn School of Medicine at Mount Sinai) ;
Dhanasekaran, Saravana Mohan (University of Michigan) ;
Birger, Chet (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Satpathy, Shankha (Broad Institute of Massachusetts Institute of Technology and Harvard) ;
Zhou, Daniel Cui (McDonnell Genome Institute) ;
Wang, Liang-Bo (McDonnell Genome Institute) ;
Baral, Jessika (McDonnell Genome Institute) ;
Johnson, Jared L. (Weill Cornell Medicine) ;
Huntsman, Emily M. (Weill Cornell Medicine) ;
Pugliese, Pietro (University of Sannio (Benevento, Itàlia)) ;
Colaprico, Antonio (University of Miami Miller School of Medicine) ;
Iavarone, Antonio (University of Miami Miller School of Medicine) ;
Chheda, Milan G. (Washington University in St. Louis) ;
Ricketts, Christopher J. (National Institutes of Health (Bethesda, Estats Units d'Amèrica)) ;
Fenyö, David (NYU Grossman School of Medicine) ;
Payne, Samuel H. (Brigham Young University) ;
Rodriguez, Henry (Office of Cancer Clinical Proteomics Research) ;
Robles, Ana I. (Office of Cancer Clinical Proteomics Research) ;
Gillette, Michael A. (Harvard Medical School) ;
Kumar-Sinha, Chandan (University of Michigan) ;
Lazar, Alexander (The University of Texas MD Anderson Cancer Center) ;
Cantley, Lewis (Weill Cornell Medicine) ;
Getz, Gad A. (Harvard Medical School) ;
Ding, Li (Siteman Cancer Center) ;
An, Eunkyung ;
Anurag, Meenakshi ;
Bavarva, Jasmin ;
Birrer, Michael J. ;
Ceccarelli, Michele ;
Chan, Daniel W. ;
Chinnaiyan, Arul M. ;
Cho, Hanbyul ;
Chowdhury, Shrabanti ;
Cieslik, Marcin P. ;
da Veiga Leprevost, Felipe ;
Day, Corbin ;
Domagalski, Marcin J. ;
Dou, Yongchao ;
Druker, Brian J. ;
Edwards, Nathan ;
Ellis, Matthew J. ;
Selvan, Myvizhi Esai ;
Foltz, Steven M. ;
Francis, Alicia ;
Gonzalez Robles, Tania J. ;
Gosline, Sara J. C. ;
Gümüş, Zeynep H. ;
Hiltke, Tara ;
Hong, Runyu ;
Hostetter, Galen ;
Hu, Yingwei ;
Huang, Chen ;
Huntsman, Emily ;
Jaehnig, Eric J. ;
Jewel, Scott D. ;
Ji, Jiayi ;
Jiang, Wen ;
Katsnelson, Lizabeth ;
Ketchum, Karen A. ;
Kolodziejczak, Iga ;
Lei, Jonathan T. ;
Liao, Yuxing ;
Lindgren, Caleb M. ;
Liu, Tao ;
Ma, Weiping ;
McKerrow, Wilson ;
Nesvizhskii, Alexey I. ;
Newton, Chelsea ;
Oldroyd, Robert ;
Omenn, Gilbert S. ;
Paulovich, Amanda G. ;
Petralia, Francesca ;
Reva, Boris ;
Rodland, Karin D. ;
Ruggles, Kelly V. ;
Rykunov, Dmitry ;
Savage, Sara R. ;
Schadt, Eric E. ;
Schnaubelt, Michael ;
Schraink, Tobias ;
Shi, Zhiao ;
Smith, Richard D. ;
Song, Xiaoyu ;
Tan, Jimin ;
Thangudu, Ratna R. ;
Tignor, Nicole ;
Wang, Joshua M. ;
Wang, Pei ;
Wang, Ying Cindy ;
Wen, Bo ;
Wiznerowicz, Maciej ;
Yi, Xinpei ;
Zhang, Bing ;
Zhang, Hui ;
Zhang, Xu ;
Zhang, Zhen ;
Universitat Autònoma de Barcelona
Cancer driver events refer to key genetic aberrations that drive oncogenesis; however, their exact molecular mechanisms remain insufficiently understood. Here, our multi-omics pan-cancer analysis uncovers insights into the impacts of cancer drivers by identifying their significant cis-effects and distal trans-effects quantified at the RNA, protein, and phosphoprotein levels. [...]
2023 -  10.1016/j.cell.2023.07.014
Cell, Vol. 186 Núm. 18 (31 2023) , p. 3921-3944.e25
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12 p, 915.6 KB |
PAM50 breast cancer subtyping by RT-qPCR and concordance with standard clinical molecular markers
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Bastien, Roy R. L. (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Rodríguez-Lescure, Álvaro (Hospital General Universitario de Elche) ;
Ebbert, Mark T. W. (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Prat, Aleix (Universitat Autònoma de Barcelona. Departament de Medicina) ;
Munárriz, Blanca (Hospital Universitari i Politècnic La Fe (València)) ;
Rowe, Leslie (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Miller, Patricia (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Ruiz Borrego, Manuel (Hospital Universitario Virgen del Rocío (Sevilla, Andalusia)) ;
Anderson, Daniel (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Lyons, Bradley (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Álvarez López, Isabel (Hospital Universitario de Donostia (Sant Sebastià, País Basc)) ;
Dowell, Tracy (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Wall, David (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Seguí, Miguel Ángel (Parc Taulí Hospital Universitari. Institut d'Investigació i Innovació Parc Taulí (I3PT)) ;
Barley, Lee (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Boucher, Kenneth M. (Huntsman Cancer Institute (Salt Lake City, Estats Units d'Amèrica)) ;
Alba, Emilio (Hospital Universitario Virgen de la Victoria (Màlaga, Andalusia)) ;
Pappas, Lisa (Huntsman Cancer Institute (Salt Lake City, Estats Units d'Amèrica)) ;
Davis, Carole A. (Huntsman Cancer Institute (Salt Lake City, Estats Units d'Amèrica)) ;
Aranda, Ignacio (Hospital General Universitario de Alicante (Alacant, País Valencià)) ;
Fauron, Christiane (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Stijleman, Inge J. (Huntsman Cancer Institute (Salt Lake City, Estats Units d'Amèrica)) ;
Palacios, José (Hospital Universitario Virgen del Rocío (Sevilla, Andalusia)) ;
Antón, Antonio (Hospital Universitario Miguel Servet (Saragossa)) ;
Carrasco, Eva (GEICAM. Spanish Breast Cancer Research Group (Madrid)) ;
Caballero, Rosalía (GEICAM. Spanish Breast Cancer Research Group (Madrid)) ;
Ellis, Matthew J. (Washington University. Department of Oncology (St. Louis, Estats Units d'Amèrica)) ;
Nielsen, Torsten O. (University of British Columbia. Department of Anatomical Pathology (Vancouver, Canadà)) ;
Perou, Charles M. (University of North Carolina at Chapel Hill. Lineberger Comprehensive Cancer Center (Chapel Hill, Estats Units d'Amèrica)) ;
Astill, Mark (The ARUP Institute for Clinical and Experimental Pathology (Salt Lake City, Estats Units d'Amèrica)) ;
Bernard, Philip S. (Huntsman Cancer Institute (Salt Lake City, Estats Units d'Amèrica)) ;
Martín Jiménez, Miguel (Hospital General Universitario Gregorio Marañón)
Background: Many methodologies have been used in research to identify the "intrinsic" subtypes of breast cancer commonly known as Luminal A, Luminal B, HER2-Enriched (HER2-E) and Basal-like. The PAM50 gene set is often used for gene expression-based subtyping; however, surrogate subtyping using panels of immunohistochemical (IHC) markers are still widely used clinically. [...]
2012 - 10.1186/1755-8794-5-44
BMC medical genomics, Vol. 15, N. 44 (October 2012) , p. 1-9
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