Large-scale public data reuse to model immunotherapy response and resistance

by Jingxin Fu, Karen Li, Wubing Zhang, Changxin Wan, Jing Zhang, Peng Jiang, X. Shirley Liu
Published 2020-02-01

IGSA: Individual Gene Sets Analysis, including Enrichment and Clustering.

by Lingxiang Wu, Xiujie Chen, Denan Zhang, Wubing Zhang, Lei Liu, Hongzhe Ma, Jingbo Yang, Hongbo Xie, Bo Liu, Qing Jin
Published 2016-01-01

Machine Learning Modeling of Protein-intrinsic Features Predicts Tractability of Targeted Protein Degradation

by Wubing Zhang, Shourya S. Roy Burman, Jiaye Chen, Katherine A. Donovan, Yang Cao, Chelsea Shu, Boning Zhang, Zexian Zeng, Shengqing Gu, Yi Zhang, Dian Li, Eric S. Fischer, Collin Tokheim, X. Shirley Liu
Published 2022-10-01

MetaTiME integrates single-cell gene expression to characterize the meta-components of the tumor immune microenvironment

by Yi Zhang, Guanjue Xiang, Alva Yijia Jiang, Allen Lynch, Zexian Zeng, Chenfei Wang, Wubing Zhang, Jingyu Fan, Jiajinlong Kang, Shengqing Stan Gu, Changxin Wan, Boning Zhang, X. Shirley Liu, Myles Brown, Clifford A. Meyer
Published 2023-05-01

Clonal tracing reveals diverse patterns of response to immune checkpoint blockade

by Shengqing Stan Gu, Xiaoqing Wang, Xihao Hu, Peng Jiang, Ziyi Li, Nicole Traugh, Xia Bu, Qin Tang, Chenfei Wang, Zexian Zeng, Jingxin Fu, Cliff Meyer, Yi Zhang, Paloma Cejas, Klothilda Lim, Jin Wang, Wubing Zhang, Collin Tokheim, Avinash Das Sahu, Xiaofang Xing, Benjamin Kroger, Zhangyi Ouyang, Henry Long, Gordon J. Freeman, Myles Brown, X. Shirley Liu
Published 2020-10-01

700 Increasing MHC-I expression to potentiate immune checkpoint blockade therapy

by Peng Jiang, Xia Bu, Michael Manos, Ana Lako, Scott Rodig, Yingtian Xie, Shengqing Gu, Henry Long, Paloma Cejas, Gordon Freeman, Wubing Zhang, Xiaoqing Wang, Nicole Traugh, Ziyi Li, Clifford Meyer, Blair Stewig, Alba Font-Tello, Klothilda Lim, Jake Conway, Alok Tewari, Zexian Zeng, Avinash Das Sahu, Collin Tokheim, Jason Weirather, Jingxin Fu, Benjamin Kroger, Jin Hua Liang, Benjamin Gewurz, F. Stephen Hodi, Myles Brown, X Shirley Liu
Published 2021-11-01

A community challenge to predict clinical outcomes after immune checkpoint blockade in non-small cell lung cancer

by Mike Mason, Óscar Lapuente-Santana, Anni S. Halkola, Wenyu Wang, Raghvendra Mall, Xu Xiao, Jacob Kaufman, Jingxin Fu, Jacob Pfeil, Jineta Banerjee, Verena Chung, Han Chang, Scott D. Chasalow, Hung Ying Lin, Rongrong Chai, Thomas Yu, Francesca Finotello, Tuomas Mirtti, Mikko I. Mäyränpää, Jie Bao, Emmy W. Verschuren, Eiman I. Ahmed, Michele Ceccarelli, Lance D. Miller, Gianni Monaco, Wouter R. L. Hendrickx, Shimaa Sherif, Lin Yang, Ming Tang, Shengqing Stan Gu, Wubing Zhang, Yi Zhang, Zexian Zeng, Avinash Das Sahu, Yang Liu, Wenxian Yang, Davide Bedognetti, Jing Tang, Federica Eduati, Teemu D. Laajala, William J. Geese, Justin Guinney, Joseph D. Szustakowski, Benjamin G. Vincent, David P. Carbone
Published 2024-02-01

Integrative Analysis of Pooled CRISPR Genetic Screens Using MAGeCKFlute

by Wang, Binbin, Wang, Mei, Zhang, Wubing, Xiao, Tengfei, Chen, Chen-Hao, Wu, Alexander, Wu, Feizhen, Traugh, Nicole, Wang, Xiaoqing, Li, Ziyi, Mei, Shenglin, Cui, Yingbo, Shi, Sailing, Lipp, Jesse Jonathan, Hinterndorfer, Matthias, Zuber, Johannes, Brown, Myles, Li, Wei, Liu, Xiaole
Published 2022