Next-Generation Sequencing

Focused evolution of HIV-1 neutralizing antibodies revealed by structures and deep sequencing

Science 2011 333:1593-1602
Wu, X. Zhou, T. Q. Zhu, Jiang Zhang, B. S. Georgiev, I. Wang, C. Chen, X. J. Longo, N. S. Louder, M. McKee, K. O'Dell, S. Perfetto, S. Schmidt, S. D. Shi, W. Wu, L. Yang, Y. P. Yang, Z. Y. Yang, Z. J. Zhang, Z. H. Bonsignori, M. Crump, J. A. Kapiga, S. H. Sam, N. E. Haynes, B. F. Simek, M. Burton, Dennis Koff, W. C. Doria-Rose, N. A. Connors, M. Mullikin, J. C. Nabel, G. J. Roederer, M. Shapiro, L. Kwong, P. D. Mascola, J. R. NISC Comparative Sequencing Program

Somatic populations of PGT135-137 HIV-1-neutralizing antibodies identified by 454 pyrosequencing and bioinformatics

Frontiers in Microbiology 2012 3:315
Zhu, Jiang O'Dell, S. Ofek, G. Pancera, M. Wu, X. Zhang, B. Zhang, Z. NISC Comparative Sequencing Program Mullikin, J. C. Simek, M. Burton, Dennis Koff, W. C. Shapiro, L. Mascola, J. R. Kwong, P. D.

Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus

Nature 2013 496:469-476
Liao, H. X. Lynch, R. Zhou, T. Gao, F. Alam, S. M. Boyd, S. D. Fire, A. Z. Roskin, K. M. Schramm, C. A. Zhang, Z. Zhu, Jiang Shapiro, L. Mullikin, J. C. Gnanakaran, S. Hraber, P. Wiehe, K. Kelsoe, G. Yang, G. Xia, S. M. Montefiori, D. C. Parks, R. Lloyd, K. E. Scearce, R. M. Soderberg, K. A. Cohen, M. Kamanga, G. Louder, M. K. Tran, L. M. Chen, Y. Cai, F. Chen, S. Moquin, S. Du, X. Joyce, M. G. Srivatsan, S. Zhang, B. Zheng, A. Shaw, G. M. Hahn, B. H. Kepler, T. B. Korber, B. T. M. Kwong, P. D. Mascola, J. R. Haynes, B. F. NISC Comparative Sequencing Program

Mining the antibodyome for HIV-1-neutralizing antibodies with next-generation sequencing and phylogenetic pairing of heavy/light chains

Proceedings of the National Academy of Sciences of the United States of America 2013 110:6470-6475
Zhu, Jiang Ofek, G. Yang, Y. P. Zhang, B. S. Louder, M. K. Lu, G. McKee, K. Pancera, M. Skinner, J. Zhang, Z. H. Parks, R. Eudailey, J. Lloyd, K. E. Blinn, J. Alam, S. M. Haynes, B. F. Simek, M. Burton, Dennis Koff, W. C. NISC Comparative Sequencing Program Mullikin, J. C. Mascola, J. R. Shapiro, L. Kwong, P. D.

Multidonor analysis reveals structural elements, genetic determinants, and maturation pathway for HIV-1 neutralization by VRC01-class antibodies

Immunity 2013 39:245-258
Zhou, T. Zhu, Jiang Wu, X. Moquin, S. Zhang, B. Acharya, P. Georgiev, I. S. Altae-Tran, H. R. Chuang, G. Y. Joyce, M. G. Kwon, Y. D. Longo, N. S. Louder, M. K. Luongo, T. McKee, K. Schramm, C. A. Skinner, J. Yang, Y. Yang, Z. Zhang, Z. Zheng, A. Bonsignori, M. Haynes, B. F. Scheid, J. F. Nussenzweig, M. C. Simek, M. Burton, Dennis Koff, W. C. NISC Comparative Sequencing Program Mullikin, J. C. Connors, M. Shapiro, L. Nabel, G. J. Mascola, J. R. Kwong, P. D.

De novo identification of VRC01 class HIV-1-neutralizing antibodies by next-generation sequencing of B-cell transcripts

Proceedings of the National Academy of Sciences of the United States of America 2013 110:E4088-E4097
Zhu, Jiang Wu, X. Zhang, B. McKee, K. O'Dell, S. Soto, C. Zhou, T. Casazza, J. P. NISC Comparative Sequencing Program Mullikin, J. C. Kwong, P. D. Mascola, J. R. Shapiro, L.

Rhesus macaque B-cell responses to an HIV-1 trimer vaccine revealed by unbiased longitudinal repertoire analysis

mBio 2015 6:e01375-15
Kaifan Dai, Linling He, Salar N. Khan, Sijy O'Dell, Krisha McKee, Karen Tran, Yuxing Li, Christopher Sundlilng, Charles D. Morris, John R. Macola, Gunilla B. Karlsson Hdestam, Richard T. Wyatt, Jiang Zhu

HIV-1 vaccine-elicited antibodies reverted to their inferred naive germline reveal associations between binding affinity and in vivo activation

Scientific Reports  2016 6
Kaifan Dai, Salar N Khan, Yimeng Wang, Linling He, Javier Guenaga, Jidnyasa Ingale, Christopher Sundling, Sijy O'Dell, Krisha McKee, Ganesh Phad, Martin Corcoran, Richard Wilson, John R Mascola, Jiang Zhu, Yuxing Li, Gunilla B Karlsson Hedestam & Richard T Wyatt

Key gp120 glycans pose roadblocks to the rapid development of VRC01-class antibodies in an HIV-1-infected Chinese donor

Immunity  2016 44:939-950
Leopold Kong, Bin Ju, Yajing Chen, Linling He, Li Ren, Jiandong Liu, Kunxue Hong, Bin Su, Zheng Wang, Gabriel Ozorowski, Xiaolin Ji, Yuanzi Hua, Yanli Chen, Marc C. Deller, Yanling Hao, Yi Feng, Fernando Garces, Richard Wilson, Kaifan Dai, Siji O'Dell, Krishna McKee, John R. Mascola, Andrew B. Ward, Richard T. Wyatt, Yuxing Li, Ian A. Wilson, Jiang Zhu Yiming Shao

High-resolution longitudinal study of HIV-1 Env vaccine-elicited B cell responses to the virus primary receptor binding site reveals affinity maturation and clonal persistence

Journal of Immunology  2016 196:3729-3743
Yimeng Wang, Christopher Sundling, Richard Wilson, Sijy O-Dell, Yajing Chen, Kaifan Dai, Ganesh E. Phad, Jiang Zhu, Yongli Xiao, John R. Mascola, Ginilla B. Karlsson Hedestam, Richard T. Wyatt and Yuxing Li

Prevention of cell death by antibodies selected from intracellular combinatorial libraries

Chemistry and Biology
Jia Xie, Kyungmoo Yea, Hongkai Zhang, Brian Moldt, Linling He, Jiang Zhu, Richard A. Lerner

A prominent site of antibody vulnerability on HIV envelope incorporates a motif associated with CCR5 binding and its camouflaging glycans

Immunity  2016 45:31-45
Devin Sok, Matthias Pauthner, Bryan Briney, Jeong Hyun Lee, Karen L. Saye-Francisco, Jessica Hsueh, Alejjandra Ramos, Khoa M. Le, Meaghan Jones, Joseph G. Jardine, Raiza Bastidas, Anita Sarkar, Chi-Hui Liang, Sachin S. Shivatare, Chung-yi Wu, William R. Schief, Chi-Huey Wong, Ian A. Wilson, Andrew B. Ward, Jiang Zhu, Pascal Poignard, Dennis R. Burton

Regulation of B-cell development and tolerance by different members of the miR-17∼92 family microRNAs

Nature Communications  2016 7
Maoyi Lai, Alicia Gonzalez-Martin, Anthony B. Cooper, Hiroyo Oda, Huyn Yong Jin, Jovan Shepherd, Linling He, Jiang Zhu, David Nemazee & Changchun Xiao

Active evolution of memory B-cells specific to viral gH/gL/pUL128/130/131 pentameric complex in healthy subjects with silent human cytomegalovirus infection

Oncotarget  2017 8:73654-73669
Lin Xia, Aimin Tang, Weixu Meng, Daniel C. Freed. Linling He, Dai Wang, Fengsheng Li, Xun Gui, Robbie D. Schultz, Haotai Chen, Xi He, Ryan Swoyer, Sha Ha, Yaping Liu, Charles D. Morris, Ming Wang, Qinjian Zhao, Wenxin Luo, Ningshao Xia, Amy S. Espeseth, Daria J. Hazuda, Richard E. Barrett, Ningyan Zhang, Jiang Zhu, Tong-Ming Fu and Zhiquiang An

Development of a Potent and Protective Germline-Like Antibody Lineage Against Zika Virus in a Convalescent Human

Front. Immunol., 24 October 2019 | https://doi.org/10.3389/fimmu.2019.02424
Fei Gao, Xiaohe Lin, Linling He, Ruoke Wang, Han Wang, Xuanling Shi, Fuchun Zhang, Chibiao Yin, Linqi Zhang, Jiang Zhu and Lei Yu