© 2017 by Li Lab.

*: Co-first author

§: Co-senior author

Xihao Hu*, Jian Zhang*, Jin Wang, Jingxin Fu, Taiwen Li, Xiaoqi Zheng, Binbin Wang, Shengqing Gu, Peng Jiang, Jingyu Fan, Xiaomin Ying, Jing Zhang,Michael C. Carroll, Kai Wucherpfennig, Nir Hacohen, Fan Zhang, Peng Zhang, Jun S. Liu§Bo Li§, & X. Shirley Liu§. Landscape of B cell immunity and related immune evasion in human cancers. Nat Genetics, 2019

Xihao Hu*, Jian Zhang*, Jun S. Liu§Bo Li§, & X. Shirley Liu§, Evaluation of immune repertoire inference methods from RNA-seq data. Nat Biotech, 2018, 36(11):1034-1034

Peng Jiang, Shengqing Gu, Deng Pan, Jingxin Fu, Avinash Sahu, Xihao Hu, Ziyi Li, Nicole Traugh, Xia Bu, Bo Li, Jun Liu, Gordon J Freeman, Myles A Brown, Kai W Wucherpfennig, X Shirley Liu. Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response. Nat Medicine, 2018, 24:1550-1558

Taiwen Li, Jingyu Fan, Binbin Wang, Qianming Chen, Jun S Liu, Bo Li§ and X. Shirley Liu§. TIMER: A web-interface for comprehensive analysis of tumor-infiltrating lymphocytes. (accepted to Cancer Research) (2017).

 

Bo Li, Jun S Liu and X. Shirley Liu. Revisit linear regression-based deconvolution methods for tumor gene expression data. Genome Biology, 18:127 (2017).

 

Bo Li§, Taiwen Li, Binbin Wang, Ruoxu Dou, Jun S Liu and X. Shirley Liu§.  Ultrasensitive detection of TCR hypervariable region in solid-tissue RNA-seq data. Nature Genetics, 49(4):482-483 (2017).

 

Bo Li*, Taiwen Li*, Jean-Christophe Pignon, Binbin Wang, Jinzeng Wang, Sachet Shukla, Ruoxu Dou, Qianming Chen, F. Stephen Hodi, Toni K. Choueiri, Catherine Wu, Nir Hacohen, Sabina Signoretti, Jun S. Liu and X. Shirley Liu. Landscape of tumor-infiltrating T cell repertoire of human cancers. Nature Genetics, 48:725–732 (2016).

 

Bo Li, Eric Severson, Jean-Christophe Pignon, Taiwen Li, Haoquan Zhao, Jesse Novak, Peng Jiang, Hui Shen, Jon C. Aster, Scott Rodig, Sabina Signoretti, Jun S. Liu and X. Shirley Liu, Comprehensive analyses of tumor immunity: implications for cancer immunotherapy. Genome Biology, 17:174 (2016).

 

Bo Li, J. Z. Li, A general framework for analyzing tumor heterogeneity using DNA sequencing and SNP array data, Genome Biology, 15(9):473 (2014).

 

Bo Li, Yasin Senbabaoglu, Weiping Peng, Min-Lee Yang, Jishu Xu, and Jun Z. Li, Genomic Estimates of Aneuploid Content in Glioblastoma Multiforme and Improved Classification, Clinical Cancer Research, 18:5595 (2012).

 

Bo Li*, Bin Shao*, Chenlu Yu*, Qi Ouyang and Hongli Wang, A mathematical model for cell size control in fission yeast, Journal of Theoretical Biology, 264(3): 771-781 (2010).

Chongzhi Zang*, Tao Wang*, Ke Deng, Bo Li, Sheng’en Hu, Qian Qin, Tengfei Xiao, Shihua Zhang, Clifford A. Meyer, Housheng Hansen He, Myles Brown, Jun S. Liu, Yang Xie, X. Shirley Liu. High-dimensional genomic data bias correction and data integration using MANCIE. Nature Communications 7:11305 (2016).

 

Peng Jiang, Hongfang Wang, Wei Li, Chongzhi Zang, Bo Li, Yinling J Wong, Cliff Meyer, Jun S Liu, Jon C Aster, X Shirley Liu. Network analysis of gene essentiality in functional genomics experiments. Genome Biology 16:239 (2015).

 

Casey M. Theriot, Mark J. Koenigsknecht, Paul E. Carlson Jr, Gabrielle E. Hatton, Adam M. Nelson, Bo Li, Gary B. Huffnagle, Jun Z. Li & Vincent B. Young, Antibiotic-induced shifts in the mouse gut microbiome and metabolome increase susceptibility to Clostridium difficile infection, Nature Communications, 5: 3114 (2014).

 

Mark Kiel, T. Velusamy, D. Rolland, A. Sahasrabuddhe, F. Chung, N. Bailey, A. Schrader, B. Li, J. Li, A. Ozel, D. Bahler, B. Betz, D. Huebner-Chan, R. Miranda, L. Medeiros, M. Herling, M. Lim and K. Elenitoba-Johnson, Integrated genomic sequencing reveals mutational landscape of T-cell prolymphocytic leukemia, Blood, 124(9): 1460–1472 (2013).