Representative publication：
Beisi Xu*, Hong Wang *, Shaela Wright, Judith Hyle, Yang Zhang, Ying Shao, Mingming Niu, Yiping Fan, Wojciech Rosikiewicz, Mohamed Nadhir Djekidel, Junmin Peng, Rui Lu, Chunliang Li#. Systematic optimization of long gradient chromatography mass spectrometry for deep analysis of brain proteome. Genome Biology. 2021.22 (1):1-25 (
Hong Wang *#, Kaushik Kumar Dey*, Ping-Chung Chen, Yuxin Li, Mingming Niu, Ji-Hoon Cho, Xusheng Wang, Bing Bai, Yun Jiao, Surendhar Reddy Chepyala, Vahram Haroutunian, Bin Zhang, Thomas G. Beach and Junmin Peng#. Integrated analysis of ultra-deep proteomes in cortex, cerebrospinal fluid and serum reveals a mitochondrial signature in Alzheimer’s disease. Molecular Neurodegeneration. 2020.15(1):43
Kaushik Kumar Dey*, Hong Wang*, Mingming Niu, Bing Bai, Xusheng Wang, Yuxin Li, Ji-Hoon Cho, Haiyan Tan, Ashutosh Mishra, Anthony A High, Ping-Chung Chen, Zhiping Wu, Thomas G Beach, Junmin Peng#. Deep undepleted human serum proteome profiling toward biomarker discovery for Alzheimer’s disease. Clinical Proteomics. 2019.16:16
Hong Wang*, Alexander K Diaz, Timothy I Shaw, Yuxin Li, Mingming Niu, Ji-Hoon Cho, Barbara S Paugh, Yang Zhang, Jeffrey Sifford, Bing Bai, Zhiping Wu, Haiyan Tan, Suiping Zhou, Laura D Hover, Heather S Tillman, Abbas Shirinifard, Suresh Thiagarajan, Andras Sablauer, Vishwajeeth Pagala, Anthony A High, Xusheng Wang, Chunliang Li, Suzanne J Baker#, Junmin Peng#. Deep multi-omics profiling of brain tumors identifies signaling networks downstream of cancer driver genes. Nature Communications. 2019. 10(1):3718
Elizabeth Stewart*, Justina McEvoy*, Hong Wang*, Xiang Chen*, Victoria Honnell, Monica Ocarz, Brittney Gordon, Jason Dapper, Kaley Blankenship, Yanling Yang, Yuxin Li, Timothy I Shaw, Ji-Hoon Cho, Xusheng Wang, Beisi Xu, Pankaj Gupta, Yiping Fan, Yu Liu, Michael Rusch, Lyra Griffiths, Jongrye Jeon, Burgess B Freeman III, Michael R Clay, Alberto Pappo, John Easton, Sheila Shurtleff, Anang Shelat, Xin Zhou, Kristy Boggs, Heather Mulder, Donald Yergeau, Armita Bahrami, Elaine R Mardis, Richard K Wilson, Jinghui Zhang, Junmin Peng, James R Downing, Michael A Dyer#, St. Jude Children's Research Hospital–Washington University Pediatric Cancer Genome Project. Identification of Therapeutic Targets in Rhabdomyosarcoma Through Integrated Genomic, Epigenomic, and Proteomic Analyses. Cancer Cell. 2018. 34(3):411-426.e19
Hong Wang*, Yanling Yang, Yuxin Li, Bing Bai, Xusheng Wang, Haiyan Tan, Tao Liu, Thomas G Beach, Junmin Peng#, Zhiping Wu#. Systematic optimization of long gradient chromatography mass spectrometry for deep analysis of brain proteome. Journal of Proteome Research. 2015 14(2):829-38
Collaborative publications：
Lingyun Long, Jun Wei, Seon Ah Lim, Jana L. Raynor, Hao Shi, Jon P Connelly, Hong Wang, Cliff Guy, Boer Xie, Nicole M Chapman, Guotong Fu, Yanyan Wang, Hongling Huang, Wei Su, Jordy Saravia, Isabel Risch, Yong-Dong Wang, Yuxin Li, Mingming Niu, Yogesh Dhungana, Anil Kc, Peipei Zhou, Peter Vogel, Jiyang Yu, Shondra M Pruett-Miller, Junmin Peng, Hongbo Chi. CRISPR screens unveil signal hubs for nutrient licensing of T cell immunity. Nature. 2021. doi: 10.1038/s41586-021-04109-7IF: 69.504 Q1
Bing Bai, David Vanderwall, Yuxin Li, Xusheng Wang, Suresh Poudel, Hong Wang, Kaushik Kumar Dey, Ping-Chung Chen, Ka Yang, Junmin Peng. Proteomic landscape of Alzheimer’s Disease: novel insights into pathogenesis and biomarker discovery. Molecular Neurodegeneration. 2021.16(1):1-16
Timothy I Shaw, Jessica Wagner, Elizabeth Wickman, Liqing Tian, Dong Li, Suresh Poudel, Elizabeth Stewart, Yuxin Li, Hong Wang, Mingming Niu, Robin Paul, Colleen Reilly, Xin Zhou, Michael Dyer, Suzanne Baker, Junmin Peng, Jiyang Yu, Paulina Velasquez, Chris DeRenzo, Giedre Krenciute, Jinghui Zhang, Stephen Gottschalk. Mining cancer-specific isoforms as CAR T-cell therapy targets for pediatric solid and brain tumors. Cancer Research. 2021.81(13): 1543-1543 supplement
Kaiwen Yu, Mingming Niu, Hong Wang, Yuxin Li, Zhiping Wu, Bin Zhang, Vahram Haroutunian, Junmin Peng. Global Profiling of Lysine Accessibility to Evaluate Protein Structure Changes in Alzheimer’s Disease. Journal of The American Society for Mass Spectrometry.2021 32(4):936-945
Yoshihiro Gocho, Jingjing Liu, Jianzhong Hu, Yana Pikman, Wentao Yang, Jingliao Zhang, Guoqing Du, August John, Ting-Nien Lin, Jeremy Hunt, Lauren Rowland, Dylan Maxwell, Brandon Smart, Kristine Crews, Wenjian Yang, Kohei Hagiwara, Yingchi Zhang, Kathryn Roberts, Hong Wang, Elias Jabbour, Wendy Stock, Bartholomew Eisfelder, Elisabeth Paietta, Scott Newman, Giovanni Roti, Neekesh Dharia, Jinghui Zhang, Junmin Peng, Mary Relling, Hiroto Inaba, Xiaofan Zhu, Steven Kornblau, Ching-Hon Pui, Marina Konopleva, David Teachey, Charles Mullighan, Kimberly Stegmaier, William Evans, Jiyang Yu, and Jun J Yang. Network-based systems pharmacology reveals heterogeneity in LCK and BCL2 signaling and therapeutic sensitivity of T-cell acute lymphoblastic leukemia. Nature Cancer. 2021 2, 284-299
Peng Xu, Daniel C Scott, Beisi Xu, Yu Yao, Ruopeng Feng, Li Cheng, Kalin Mayberry, Wenjian Bi, Lance E Palmer, Moeko T King, Hong Wang, Yuxin Li, Yiping Fan, Arno F Alpi, Chunliang Li, Junmin Peng, James Papizan, Shondra M Pruett-Miller, Ria Spallek, Florian Bassermann, Yong Cheng, Brenda A Schulman, Mitchell J Weiss. FBXO11-Mediated Proteolysis of BAHD1 Relieves PRC2-dependent Transcriptional Repression in Erythropoiesis. Blood. 2021. 137(2):155-167
Danting Liu, Shu Yang, Kanisha Kavdia, Jeffrey M Sifford, Zhiping Wu, Boer Xie, Zhen Wang, Vishwajeeth R Pagala, Hong Wang, Kaiwen Yu, Kaushik Kumar Dey, Anthony A High, Geidy E Serrano, Thomas G Beach, Junmin Peng. Deep Profiling of Microgram-Scale Proteome by Tandem Mass Tag Mass Spectrometry. Journal of Proteome Research. 2021 20(1):337-345
Nikhil Hebbar, Chunxu Qu, Hong Wang, Ying Shao, Phuong Nguyen, Abdullah Freiwan, Rebecca Epperly, Yuxin Li, Ji-Hoon Cho, Timothy Shaw, Junmin Peng, John Easton, Stephen Gottschalk, Charles G Mullighan, Mireya Paulina Velasquez. Multi-Omic Based Antigen Discovery for the Immunotherapy of Pediatric Acute T Cell Lymphoblastic Leukemia. Blood. 2020 (Supplement 1): 17–18
Domenick E Kennedy, Michael K Okoreeh, Mark Maienschein-Cline, Junting Ai, Margaret Veselits, Kaitlin C McLean, Yogesh Dhungana, Hong Wang, Junmin Peng, Hongbo Chi, Malay Mandal, Marcus R Clark. Novel specialized cell state and spatial compartments within the germinal center. Nature Immunology. 2020 21, 660-670
Bing Bai, Xusheng Wang, Yuxin Li, Ping-Chung Chen, Kaiwen Yu, Kaushik Kumar Dey, Jay M Yarbro, Xian Han, Brianna M Lutz, Shuquan Rao, Yun Jiao, Jeffrey M Sifford, Jonghee Han, Minghu Wang, Haiyan Tan, Timothy I Shaw, Ji-Hoon Cho, Suiping Zhou, Hong Wang, Mingming Niu, Ariana Mancieri, Kaitlynn A Messler, Xiaojun Sun, Zhiping Wu, Vishwajeeth Pagala, Anthony A High, Wenjian Bi, Hui Zhang, Hongbo Chi, Vahram Haroutunian, Bin Zhang, Thomas G Beach, Gang Yu, Junmin Peng. Deep multilayer brain proteomics identifies molecular networks in Alzheimer’s disease progression. Neuron. 2020. 105(6):975-991.e7.
Hao Shi, Nicole M Chapman, Jing Wen, Cliff Guy, Lingyun Long, Yogesh Dhungana, Sherri Rankin, Stephane Pelletier, Peter Vogel, Hong Wang, Junmin Peng, Kun-Liang Guan, Hongbo Chi. Amino acids license kinase mTORC1 activity and Treg cell function via small G proteins Rag and Rheb. Immunity. 2019 51(6):1012-1027.e7
Ying Cheng, Zhi-Meng Wang, Weiqi Tan, Xiaona Wang, Yujing Li, Bing Bai, Yuxin Li, Shuang-Feng Zhang, Hai-Liang Yan, Zuo-Lun Chen, Chang-Mei Liu, Ting-Wei Mi, Shuting Xia, Zikai Zhou, An Liu, Gang-Bin Tang, Cong Liu, Zhi-Jie Dai, Ying-Ying Wang, Hong Wang, Xusheng Wang, Yunhee Kang, Li Lin, Zhenping Chen, Nina Xie, Qinmiao Sun, Wei Xie, Junmin Peng, Dahua Chen, Zhao-Qian Teng, Peng Jin. Partial loss of psychiatric risk gene miR-137 in mice causes repetitive behavior and impairs sociability and learning via increased Pde10a. Nature Neuroscience. 2018 21(12):1689-1703
Ti-Cheng Chang, Robert A Carter, Yongjin Li, Yuxin Li, Hong Wang, Michael N Edmonson, Xiang Chen, Paula Arnold, Terrence L Geiger, Gang Wu, Junmin Peng, Michael Dyer, James R Downing, Douglas R Green, Paul G Thomas, Jinghui Zhang. The Neoepitope Landscape in Pediatric Cancers. Genome Biology. Genome Medicine. 2017 9(1):78.
Haiyan Tan, Kai Yang, Yuxin Li, Timothy I Shaw, Yanyan Wang, Daniel Bastardo Blanco, Xusheng Wang, Ji-Hoon Cho, Hong Wang, Sherri Rankin, Cliff Guy, Junmin Peng, Hongbo Ch. Integrative proteomics and phosphoproteomics profiling reveals dynamic signaling networks and bioenergetics pathways underlying T cell activation. Immunity. 2017 46(3):488-503
Mingming Niu, Ji-Hoon Cho, Kiran Kodali, Vishwajeeth Pagala, Anthony A High, Hong Wang, Zhiping Wu, Yuxin Li, Wenjian Bi, Hui Zhang, Xusheng Wang, Wei Zou, Junmin Peng. Extensive Peptide Fractionation and y1 Ion-Based Interference Detection Method for Enabling Accurate Quantification by Isobaric Labeling and Mass Spectrometry. Anal. Chem. 2017 89(5):2956-2963
Jeffrey M Sifford, Haiyan Tan, Hong Wang, Junmin Peng. Book Chapter: Analysis of Brain Phosphoproteome Using Titanium Dioxide Enrichment and High-Resolution LC-MS/MS. Neuromethods. Volume 127
Yuxin Li, Xusheng Wang, Ji-Hoon Cho, Timothy I Shaw, Zhiping Wu, Bing Bai, Hong Wang, Suiping Zhou, Thomas G Beach, Gang Wu, Jinghui Zhang, Junmin Peng. JUMPg: an Integrative Proteogenomics Pipeline Identifying Unannotated Proteins in Human Brain and Cancer Cells. J. Proteome Res. 2016 15(7):2309-20
Haiyan Tan, Zhiping Wu, Hong Wang, Bing Bai, Yuxin Li, Xusheng Wang, Bo Zhai, Thomas G Beach, Junmin Peng. Refined phosphopeptide enrichment by phosphate additive and the analysis of human brain phosphoproteome. Proteomics. 2015 15(2-3):500-7
Xusheng Wang, Yuxin Li, Zhiping Wu, Hong Wang, Haiyan Tan, Junmin Peng. JUMP: a tag-based database search tool for peptide identification with high sensitivity and accuracy. Mol. Cell. Proteomics. 2014 13(12):3663-73
