Academic papers – Page 3 – WeCIP – Westlake Center for Intelligent Proteomics

Academic papers

50

Comparison of fecal and blood metabolome reveals inconsistent associations of the gut microbiota with cardiometabolic diseases

Kui Deng, Jin-jian Xu, Luqi Shen, Hui Zhao, Wanglong Gou, Fengzhe Xu, Yuanqing Fu, Zengliang Jiang, Menglei Shuai, Bang-yan Li, Wei Hu, Ju-Sheng Zheng & Yu-ming Chen Nat Commun. 2023 Feb 2;14(1):571. doi: 10.1038/s41467-023-36256-y.

49

DPHL v2: An updated and comprehensive DIA pan-human assay library for quantifying more than 14,000 proteins

Zhangzhi Xue#, Tiansheng Zhu#, Fangfei Zhang, Cheng Zhang, Nan Xiang, Liujia Qian, Xiao Yi, Yaoting Sun, Wei Liu, Xue Cai, Linyan Wang, Xizhe Dai, Liang Yue, Lu Li, Thang V. Pham, Sander R.Piersma, Qi Xiao, Meng Luo, Cong Lu, Jiang Zhu, Yongfu Zhao, Guangzhi Wang, Junhong Xiao, Tong Liu, Zhiyu Liu, Yi He, Qijun Wu,Tingting Gong, Jianqin Zhu, Zhiguo Zheng, Juan Ye, Yan Li , Connie R.Jimenez*, Jun A*, Tiannan Guo* Patterns. 5 July 2023. doi.org/10.1016/j.patter.2023.100792.

48

Spatially resolved proteomics via tissue expansion

Lu Li#, Cuiji Sun#, Yaoting Sun#, Zhen Dong#, Runxin Wu, Xiaoting Sun, Hanbin Zhang, Wenhao Jiang, Yan Zhou, Xufeng Cen, Shang Cai, Hongguang Xia, Yi Zhu, Tiannan Guo* & Kiryl D. Piatkevich* Nature Communications. 2022.13: 7242.

47

Gut microbiome, cognitive function and brain structure: a multi-omics integration analysis

Xinxiu Liang, Yuanqing Fu, Wen-ting Cao, Zhihong Wang, Ke Zhang, Zengliang Jiang, Xiaofang Jia, Chun-ying Liu, Hong-rou Lin, Haili Zhong, Zelei Miao, Wanglong Gou, Menglei Shuai, Yujing Huang, Shengdi Chen, Bing Zhang, Yu-ming Chen & Ju-Sheng Zheng Transl Neurodegener. 2022 Nov 14;11(1):49. doi: 10.1186/s40035-022-00323-z.

46

Integrated proteogenomic characterization of medullary thyroid carcinoma

Xiao Shi#, Yaoting Sun#, Cenkai Shen#, Yan Zhang#, Rongliang Shi#, Fan Zhang#, Tian Liao#, Guojun Lv, Zhengcai Zhu, Lianghe Jiao, Peng Li, Tiansheng Xu, Ning Qu, Naisi Huang, Jiaqian Hu, Tingting Zhang, Yanzi Gu, Guangqi Qin, Haixia Guan, Weilin Pu, Yuan Li, Xiang Geng, Yan Zhang, Tongzhen Chen, Shenglin Huang, Zhikang Zhang, Shuting Ge, Wu Wang, Weibo Xu, Pengcheng Yu, Zhongwu Lu, Yulong Wang, Liang Guo, Yu Wang*, Tiannan Guo*, Qinghai Ji* & Wenjun Wei* Cell Discovery. 2022.8(1): 120.

45

Comparative Evaluation of Proteome Discoverer and FragPipe for the TMT-Based Proteome Quantification

Tianen He#, Youqi Liu#, Yan Zhou, Lu Li, He Wang, Shanjun Chen, Jinlong Gao, Wenhao Jiang, Yi Yu, Weigang Ge, Hui-Yin Chang, Ziquan Fan, Alexey I. Nesvizhskii*, Tiannan Guo*, and Yaoting Sun* Journal of Proteome Research. 2022.21(12): 3007-3015.

44

A prediction model for COVID-19 liver dysfunction in patients with normal hepatic biochemical parameters

Jianfeng Bao#, Shourong Liu#, Xiao Liang#, Congcong Wang, Lili Cao, Zhaoyi Li, Furong Wei, Ai Fu, Yingqiu Shi, Bo Shen, Xiaoli Zhu, Yuge Zhao, Hong Liu, Liangbin Miao, Yi Wang, Shuang Liang, Linyan Wu, Jinsong Huang*, Tiannan Guo*, Fang Liu* Life Science Alliance. 2022.19;6(1): e202201576.

43

COVIDpro: Database for mining protein dysregulation in patients with COVID-19

Fangfei Zhang, Augustin Luna, Tingting Tan, Yingdan Chen, Chris Sander, Tiannan Guo*. Journal of Proteome Research. August 9, 2023. doi.org/10.1021/acs.jproteome.3c00092

42

Targeted protein degradation reveals RNA Pol II heterogeneity and functional diversity

Yuanjun Li#, Jie Huang#, Junyi Zhu, Lijun Bao, Hui Wang, Yongpeng Jiang, Kai Tian, Rui Wang, Haonan Zheng, Wenjia Duan, Weifeng Lai, Xiao Yi, Yi Zhu, Tiannan Guo, Xiong Ji*. Molecular Cell. 2022.82(20): 3943-3959.e11.

41

Associations of dietary diversity with the gut microbiome, fecal metabolites, and host metabolism: results from 2 prospective Chinese cohorts

Congmei Xiao, Jia-Ting Wang, Chang Su, Zelei Miao, Jun Tang, Yifei Ouyang, Yan Yan, Zengliang Jiang, Yuanqing Fu, Menglei Shuai, Wanglong Gou, Fengzhe Xu, Evan Y-W Yu, Yuhui Liang, Xinxiu Liang, Yunyi Tian, Jiali Wang, Feifei Huang, Bing Zhang, Huijun Wang, Yu-Ming Chen , Ju-Sheng Zheng Am J Clin Nutr. 2022 Oct 6;116(4):1049-1058. doi: 10.1093/ajcn/nqac178.

40

Artificial intelligence defines protein-based classification of thyroid nodules

Yaoting Sun#, Sathiyamoorthy Selvarajan#, Zelin Zang#, Wei Liu#, Yi Zhu#, Hao Zhang#, Wanyuan Chen, Hao Chen, Lu Li, Xue Cai, Huanhuan Gao, Zhicheng Wu, Yongfu Zhao, Lirong Chen, Xiaodong Teng, Sangeeta Mantoo, Tony Kiat-Hon Lim, Bhuvaneswari Hariraman, Serene Yeow, Syed Muhammad Fahmy bin Syed Abdillah, Sze Sing Lee, Guan Ruan, Qiushi Zhang, Tiansheng Zhu, Yifan Hu, Zhen Dong, Weigang Ge, Qi Xiao, Weibin Wang, Guangzhi Wang, Junhong Xiao, Yi He, Zhihong Wang, Wei Sun, Yuan Qin, Jiang Zhu, Xu Zheng, Linyan Wang, Xi Zheng, Kailun Xu, Yingkuan Shao, Shu Zheng, Kexin Liu, Ruedi Aebersold, Haixia Guan, Xiaohong Wu, Dingcun Luo, Wen Tian, Stan Z. Li*, Oi Lian Kon*, N. Gopalakrishna Iyer*, Tiannan Guo*. Cell Discovery. 2022.8(1): 85.

39

Interaction of n-3 polyunsaturated fatty acids with host CD36 genetic variant for gut microbiome and blood lipids in human cohorts

Zelei Miao, Geng-Dong Chen, Shaofeng Huo, Yuanqing Fu, Min-Yu Wu, Fengzhe Xu, Zengliang Jiang, Jun Tang, Wanglong Gou, Congmei Xiao, Yu-Ping Liu, Yan-Yan Wu, Ting-Yu Sun, Liang Sun, Li-Rong Shen, Xu Lin, Yu-Ming Chen, Ju-Sheng Zheng Clin Nutr. 2022 Aug;41(8):1724-1734. doi: 10.1016/j.clnu.2022.05.021.