2020 Publications
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Genomic Characterization of HIV-Associated Plasmablastic Lymphoma Identifies Pervasive Mutations in the JAK–STAT Pathway.
Zhaoqi Liu, Ioan Filip, Karen Gomez, Dewaldt Engelbrecht, Shabnum Meer, Pooja N. Lalloo, Pareen Patel, Yvonne Perner, Junfei Zhao, Jiguang Wang, Laura Pasqualucci, Raul Rabadan and Pascale Willem.

Understanding Coronavirus (Understanding Life)
Raul Rabadan.

Pan-cancer analysis identifies mutations in SUGP1 that recapitulate mutant SF3B1 splicing dysregulation.
Liu Z, Zhang J, Sun Y, Perea-Chamblee TE, Manley JL, Rabadan R.

Mutations in the RNA splicing factor SF3B1 promote tumorigenesis through MYC stabilization.
Liu Z, Yoshimi A, Wang J, Cho H, Chun-Wei Lee S, Ki M, Bitner L, Chu T, Shah H, Liu B, Mato AR, Ruvolo P, Fabbri G, Pasqualucci L, Abdel-Wahab O, Rabadan R.

MGMT genomic rearrangements contribute to chemotherapy resistance in gliomas.
Barbara Oldrini, Nuria Vaquero-Siguero, Quanhua Mu, Paula Kroon, Ying Zhang, Marcos Galán-Ganga, Zhaoshi Bao, Zheng Wang, Hanjie Liu, Jason K Sa, Junfei Zhao, Hoon Kim, Sandra Rodriguez-Perales, Do-Hyun Nam, Roel GW Verhaak, Raul Rabadan, Tao Jiang, Jiguang Wang, Massimo Squatrito.

HLA Typing from RNA Sequencing and Applications to Cancer.
Rose Orenbuch, Ioan Filip, Raul Rabadan.

Linking Transcriptomic and Imaging Data Defines Features of a Favorable Tumor Immune Microenvironment and Identifies a Combination Biomarker for Primary Melanoma.
Gartrell-Corrado RD, Chen AX, Rizk EM, Marks DK, Bogardus MH, Hart TD, Silverman AM, Bayan CY, Finkel GG, Barker LW, Komatsubara KM, Carvajal RD, Horst BA, Chang R, Monod A, Rabadan R, Saenger YM.

MREC: a fast and versatile framework for aligning and matching point clouds with applications to single cell molecular data.
Andrew J. Blumberg, Mathieu Carriere, Michael A. Mandell, Raul Rabadan, Soledad Villar.

Abstract P3-03-01: Double PIK3CA mutations in cis drive oncogene addiction and enhance sensitivity to PI3K alpha inhibitors in breast cancer.
Neil Vasan, Pedram Razavi, Jared L Johnson, Hong Shao, Timothy Wilson, Frauke Schimmoller, Hardik Shah, Alesia Antoine, Erik Ladewig, Alexander Gorelick, Ting-Yu Lin, Eneda Toska, Guotai Xu, Abiha Kazmi, Matthew T Chang, Barry S. Taylor, Maura N. Dickler, Komal Jhaveri, Sarat Chandarlapaty, Raul Rabadan, Ed Reznik, Melissa L Smith, Robert Sebra, Lori Friedman, Lewis C Cantley, Maurizio Scaltriti and José Baselga.

Recombination and lineage-specific mutations led to the emergence of SARS-CoV-2.
Juan Ángel Patiño-Galindo, Ioan Filip, Mohammed AlQuraishi, Raul Rabadan.

Identification of Relevant Genetic Alterations in Cancer using Topological Data Analysis.
Raúl Rabadán, Yamina Mohamedi, Udi Rubin, Tim Chu, Oliver Elliott, Luis Arnés, Santiago Cal, Álvaro J. Obaya, Arnold J. Levine, Pablo G. Cámara.