Probing the chemical–biological relationship space with the Drug Target Explorer by Robert J. Allaway, Salvatore La Rosa, Justin Guinney, Sara J. C. Gosline

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Modeling cancer progression via pathway dependencies. by Elena J Edelman, Justin Guinney, Jen-Tsan Chi, Phillip G Febbo, Sayan Mukherjee

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158 Interrogating real world tumor-infiltrating T-cell repertoires to identify antigen enriched TCRs in a large pan-cancer clinical cohort by Justin Guinney, Paul Fields, Michelle M Stein, Catherine Igartua, Fu Luo, Taylor Harding

Association of genetic ancestry with molecular tumor profiles in colorectal cancer by Brooke Rhead, David M. Hein, Yannick Pouliot, Justin Guinney, Francisco M. De La Vega, Nina N. Sanford

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A Multifaceted benchmarking of synthetic electronic health record generation models by Chao Yan, Yao Yan, Zhiyu Wan, Ziqi Zhang, Larsson Omberg, Justin Guinney, Sean D. Mooney, Bradley A. Malin

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181 Associations between multimodal immune biomarkers and clinical outcomes in a real-world non-small cell lung cancer cohort by Justin Guinney, Rotem Ben-Shachar, Michelle M Stein, Mario Rosasco, Denise Lau, Yinjie Gao, Halla Nimeiri, Nisha Mohindra

34 Association of a novel circulating tumor fraction DNA biomarker of treatment response monitoring and clinical outcomes in a real-world, diverse pan-cancer cohort treated with im... by Jyoti Patel, Wei Zhu, Justin Guinney, Christine Lo, Ryan Gentzler, Rotem Ben-Shachar, Michelle M Stein, Halla Nimeiri, John Guittar, Akash Mitra, Terri Driessen

CRI iAtlas: an interactive portal for immuno-oncology research [version 1; peer review: 2 approved] by James A. Eddy, Vésteinn Thorsson, Andrew E. Lamb, David L. Gibbs, Carolina Heimann, Jia Xin Yu, Verena Chung, Yooree Chae, Kristen Dang, Benjamin G. Vincent, Ilya Shmulevich, Justin Guinney

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163 A multi-modal, pan-cancer atlas of tumor-immune states across primary and metastatic disease using a large, real-world database by Mary L Disis, Justin Guinney, Kate Sasser, Rohan Joshi, Paul Fields, Ariane Lozac’hmeur, Prerna Jain, Luca Lonini, Martin Stumpe, Michelle M Stein, Halla Nimeiri, Bolesław Osinski, Catherine Igartua

Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges by Kyle Ellrott, Alex Buchanan, Allison Creason, Michael Mason, Thomas Schaffter, Bruce Hoff, James Eddy, John M. Chilton, Thomas Yu, Joshua M. Stuart, Julio Saez-Rodriguez, Gustavo Stolovitzky, Paul C. Boutros, Justin Guinney

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The evolution and multi-molecular properties of NF1 cutaneous neurofibromas originating from C-fiber sensory endings and terminal Schwann cells at normal sites of sensory terminati... by Frank L Rice, George Houk, James P Wymer, Sara J C Gosline, Justin Guinney, Jianqiang Wu, Nancy Ratner, Michael P Jankowski, Salvo La Rosa, Marilyn Dockum, James R Storey, Steven L Carroll, Phillip J Albrecht, Vincent M Riccardi

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CTCF Haploinsufficiency Destabilizes DNA Methylation and Predisposes to Cancer by Christopher J. Kemp, James M. Moore, Russell Moser, Brady Bernard, Matt Teater, Leslie E. Smith, Natalia A. Rabaia, Kay E. Gurley, Justin Guinney, Stephanie E. Busch, Rita Shaknovich, Victor V. Lobanenkov, Denny Liggitt, Ilya Shmulevich, Ari Melnick, Galina N. Filippova

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Society for Immunotherapy of Cancer clinical and biomarkers data sharing resource document: Volume II—practical challenges by Ena Wang, Alessandra Cesano, Beatrix Kotlan, Mohan Karkada, Nicholas Tschernia, Aung Naing, Bruno Gomes, Anne Monette, Vésteinn Thórsson, Sergio Rutella, Sacha Gnjatic, Vaios Karanikas, John M Kirkwood, Michael A Cannarile, Justin Guinney, Giuseppe V Masucci, Els Meeusen, Daniel K Wells, Timothy L Wyant

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Society for Immunotherapy of Cancer clinical and biomarkers data sharing resource document: Volume I—conceptual challenges by Ena Wang, Alessandra Cesano, Beatrix Kotlan, Mohan Karkada, Nicholas Tschernia, Aung Naing, Bruno Gomes, Anne Monette, Vésteinn Thórsson, Sergio Rutella, Sacha Gnjatic, Vaios Karanikas, John M Kirkwood, Michael A Cannarile, Justin Guinney, Giuseppe V Masucci, Els Meeusen, Daniel K Wells, Timothy L Wyant

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Bayesian multi-source regression and monocyte-associated gene expression predict BCL-2 inhibitor resistance in acute myeloid leukemia by Brian S. White, Suleiman A. Khan, Mike J. Mason, Muhammad Ammad-ud-din, Swapnil Potdar, Disha Malani, Heikki Kuusanmäki, Brian J. Druker, Caroline Heckman, Olli Kallioniemi, Stephen E. Kurtz, Kimmo Porkka, Cristina E. Tognon, Jeffrey W. Tyner, Tero Aittokallio, Krister Wennerberg, Justin Guinney

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Advancing Evidence Generation for Circulating Tumor DNA: Lessons Learned from A Multi-Assay Study of Baseline Circulating Tumor DNA Levels across Cancer Types and Stages by Brittany A. McKelvey, Hillary S. Andrews, Frederick L. Baehner, James Chen, Carin R. Espenschied, David Fabrizio, Vanessa Gorton, Claire Gould, Justin Guinney, Greg Jones, Xiangyang Lv, Michael S. Nahorski, Melanie R. Palomares, Gary A. Pestano, Mark Sausen, Alain Silk, Nicole Zhang, Zhihong Zhang, Mark D. Stewart, Jeff D. Allen

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Crowdsourced identification of multi-target kinase inhibitors for RET- and TAU- based disease: The Multi-Targeting Drug DREAM Challenge. by Zhaoping Xiong, Minji Jeon, Robert J Allaway, Jaewoo Kang, Donghyeon Park, Jinhyuk Lee, Hwisang Jeon, Miyoung Ko, Hualiang Jiang, Mingyue Zheng, Aik Choon Tan, Xindi Guo, Multi-Targeting Drug DREAM Challenge Community, Kristen K Dang, Alex Tropsha, Chana Hecht, Tirtha K Das, Heather A Carlson, Ruben Abagyan, Justin Guinney, Avner Schlessinger, Ross Cagan

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Molecular response in newly diagnosed chronic-phase chronic myeloid leukemia: prediction modeling and pathway analysis by Jerald P. Radich, Matthew Wall, Susan Branford, Catarina D. Campbell, Shalini Chaturvedi, Daniel J. DeAngelo, Michael Deininger, Justin Guinney, Andreas Hochhaus, Timothy P Hughes, Hagop M. Kantarjian, Richard A. Larson, Sai Li, Rodrigo Maegawa, Kaushal Mishra, Vanessa Obourn, Javier Pinilla-Ibarz, Das Purkayastha, Islam Sadek, Giuseppe Saglio, Alok Shrestha, Brian S. White, Brian J. Druker

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Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells by Theodoros I. Roumeliotis, Steven P. Williams, Emanuel Gonçalves, Clara Alsinet, Martin Del Castillo Velasco-Herrera, Nanne Aben, Fatemeh Zamanzad Ghavidel, Magali Michaut, Michael Schubert, Stacey Price, James C. Wright, Lu Yu, Mi Yang, Rodrigo Dienstmann, Justin Guinney, Pedro Beltrao, Alvis Brazma, Mercedes Pardo, Oliver Stegle, David J. Adams, Lodewyk Wessels, Julio Saez-Rodriguez, Ultan McDermott, Jyoti S. Choudhary

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Improving breast cancer survival analysis through competition-based multidimensional modeling. by Erhan Bilal, Janusz Dutkowski, Justin Guinney, In Sock Jang, Benjamin A Logsdon, Gaurav Pandey, Benjamin A Sauerwine, Yishai Shimoni, Hans Kristian Moen Vollan, Brigham H Mecham, Oscar M Rueda, Jorg Tost, Christina Curtis, Mariano J Alvarez, Vessela N Kristensen, Samuel Aparicio, Anne-Lise Børresen-Dale, Carlos Caldas, Andrea Califano, Stephen H Friend, Trey Ideker, Eric E Schadt, Gustavo A Stolovitzky, Adam A Margolin

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