COPS: a sensitive and accurate tool for detecting somatic Copy Number Alterations using short-read sequence data from paired samples. by Neeraja M Krishnan, Prakhar Gaur, Rakshit Chaudhary, Arjun A Rao, Binay Panda

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ProTECT—Prediction of T-Cell Epitopes for Cancer Therapy by Arjun A. Rao, Arjun A. Rao, Arjun A. Rao, Ada A. Madejska, Ada A. Madejska, Jacob Pfeil, Jacob Pfeil, Jacob Pfeil, Benedict Paten, Benedict Paten, Benedict Paten, Sofie R. Salama, Sofie R. Salama, Sofie R. Salama, David Haussler, David Haussler, David Haussler, David Haussler

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Genetic and immunologic features of recurrent stage I lung adenocarcinoma by Johannes R. Kratz, Jack Z. Li, Jessica Tsui, Jen C. Lee, Vivianne W. Ding, Arjun A. Rao, Michael J. Mann, Vincent Chan, Alexis J. Combes, Matthew F. Krummel, David M. Jablons

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A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations by Jugmohit S. Toor, Arjun A. Rao, Andrew C. McShan, Mark Yarmarkovich, Santrupti Nerli, Santrupti Nerli, Karissa Yamaguchi, Ada A. Madejska, Son Nguyen, Sarvind Tripathi, John M. Maris, Sofie R. Salama, Sofie R. Salama, David Haussler, David Haussler, Nikolaos G. Sgourakis

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Dysregulation of CD4+ and CD8+ resident memory T, myeloid, and stromal cells in steroid-experienced, checkpoint inhibitor colitis by Li Zhang, Lawrence Fong, Brittany Davidson, David Y Oh, Frances Fan, Alexander Cheung, Hai Yang, Jun Yan He, Yang-Joon Kim, Elvira Mennillo, Iulia Rusu, Jared Bain, Arjun A Rao, Christopher Andersen, Karen Law, Jessica Tsui, Alan Shen, Divyashree Kushnoor, Yimin Shi, Alexis J Combes, Angela O Pisco, Michael G Kattah

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Single-cell transcriptome analysis defines heterogeneity of the murine pancreatic ductal tree by Audrey M Hendley, Arjun A Rao, Laura Leonhardt, Sudipta Ashe, Jennifer A Smith, Simone Giacometti, Xianlu L Peng, Honglin Jiang, David I Berrios, Mathias Pawlak, Lucia Y Li, Jonghyun Lee, Eric A Collisson, Mark S Anderson, Gabriela K Fragiadakis, Jen Jen Yeh, Chun Jimmie Ye, Grace E Kim, Valerie M Weaver, Matthias Hebrok

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Cyclone: an accessible pipeline to analyze, evaluate, and optimize multiparametric cytometry data by Ravi K. Patel, Rebecca G. Jaszczak, Kwok Im, Kwok Im, Kwok Im, Nicholas D. Carey, Nicholas D. Carey, Nicholas D. Carey, Tristan Courau, Tristan Courau, Tristan Courau, Tristan Courau, Daniel G. Bunis, Bushra Samad, Lia Avanesyan, Lia Avanesyan, Lia Avanesyan, Lia Avanesyan, Nayvin W. Chew, Nayvin W. Chew, Nayvin W. Chew, Sarah Stenske, Sarah Stenske, Jillian M. Jespersen, Jillian M. Jespersen, Jean Publicover, Jean Publicover, Austin W. Edwards, Mohammad Naser, Arjun A. Rao, Leonard Lupin-Jimenez, Matthew F. Krummel, Matthew F. Krummel, Matthew F. Krummel, Stewart Cooper, Stewart Cooper, Stewart Cooper, Jody L. Baron, Jody L. Baron, Jody L. Baron, Alexis J. Combes, Alexis J. Combes, Alexis J. Combes, Alexis J. Combes, Alexis J. Combes, Gabriela K. Fragiadakis, Gabriela K. Fragiadakis

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