论文

Note: *, co-corresponding; #, co-first author.

Full list of publications:
98

FAM3C in circulating tumor-derived extracellular vesicles promotes non-small cell lung cancer growth in secondary sites

Win Lwin Thuya#, Li Ren Kong#, Nicholas L. Syn#, Ling-Wen Ding#, Esther Sok Hwee Cheow, Regina Tong Xin Wong, Tingting Wang, Robby Miguel Wen-Jing Goh, Hongyan Song, Migara K. Jayasinghe, Minh TN Le, Jian Cheng Hu, Wei-Peng Yong, Soo-Chin Lee, Andrea Li-Ann Wong, Gautam Sethi, Huynh The Hung, Paul Chi-Lui Ho, Jean-Paul Thiery, Siu Kwan Sze, Tiannan Guo, Ross A. Soo, Henry Yang, Yaw Chyn Lim, Lingzhi Wang*, Boon-Cher Goh*

Theranostics. 2023; 13(2): 621-638. doi: 10.7150/thno.72297. PMID: 36632230.

97

Cross-regulome profiling of RNA polymerases highlights the regulatory role of polymerase III on mRNA transcription by maintaining local chromatin architecture

Yongpeng Jiang#, Jie Huang#, Kai Tian, Xiao Yi, Haonan Zheng, Yi Zhu, Tiannan Guo and Xiong Ji*

Genome Biology. 2022 Nov 28;23(1):246. doi: 10.1186/s13059-022-02812-w. PMID: 36443871.

96

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 Nov 30;13(1):7242. doi: 10.1038/s41467-022-34824-2. PMID: 36450705.

95

The 2022 Report on the Human Proteome from the HUPO Human Proteome Project

Gilbert S. Omenn*, Lydie Lane, Christopher M. Overall, Charles Pineau, Nicolle H. Packer, Ileana M. Cristea, Cecilia Lindskog, Susan T. Weintraub, Sandra Orchard, Michael H. A. Roehrl, Edouard Nice, Siqi Liu, Nuno Bandeira, Yu-Ju Chen, Tiannan Guo, Ruedi Aebersold, Robert L. Moritz, and Eric W. Deutsch

Journal of Proteome Research. 2023 Apr 7;22(4):1024-1042. doi: 10.1021/acs.jproteome.2c00498. PMID: 36318223.

94

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 Nov 8;8(1):120. doi: 10.1038/s41421-022-00479-y. PMID: 36344509.

93

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 Dec 2;21(12):3007-3015. doi: 10.1021/acs.jproteome.2c00390. PMID: 36315902.

92

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 Oct 19;6(1):e202201576. doi: 10.26508/lsa.202201576. PMID: 36261228.

91

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. 2023 Sep 1;22(9):2847-2859. doi: 10.1021/acs.jproteome.3c00092. PMID: 36203550.

90

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 Oct 20;82(20):3943-3959.e11. doi: 10.1016/j.molcel.2022.08.023. PMID: 36113479.

89

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 Sep 6;8(1):85. doi: 10.1038/s41421-022-00442-x. Erratum in: Cell Discov. 2022 Sep 30;8(1):100. PMID: 36068205.

88

Tissue-characteristic Expression of Mouse Proteome

Tian Lu, Liujia Qian, Yuting Xie, Qiushi Zhang, Wei Liu, Weigang Ge, Yi Zhu *, Lijia Ma *, Cheng Zhang *, Tiannan Guo *.

Molecular & Cellular Proteomics. 2022 Oct;21(10):100408. doi: 10.1016/j.mcpro.2022.100408. PMID: 36058520.

87

Integration of protein context improves protein-based COVID-19 patient stratification

Jinlong Gao#, Jiale He#, Fangfei Zhang#, Qi Xiao, Xue Cai, Xiao Yi, Siqi Zheng, Ying Zhang, Donglian Wang, Guangjun Zhu, Jing Wang, Bo Shen, Markus Ralser, Tiannan Guo*, Yi Zhu*.

Clinical Proteomics. 2022 Aug 11;19(1):31. doi: 10.1186/s12014-022-09370-0. PMID: 35953823.

86

Quantitative proteomic landscapes of primary and recurrent glioblastoma reveal a protumorigeneic role for FBXO2-dependent glioma-microenvironment interactions

Marcel Buehler#, Xiao Yi#, Weigang Ge, Peter Blattmann, Elisabeth Rushing, Guido Reifenberger, Joerg Felsberg, Charles Yeh, Jacob E. Corn, Luca Regli, Junyi Zhang, Ann Cloos,Vidhya Ravi, Benedikt Wiestler, Dieter Henrik Heiland, Ruedi Aebersold, Michael Weller, Tiannan Guo, Tobias Weiss*.

Neuro-Oncology. 2023 Feb 14;25(2):290-302. doi: 10.1093/neuonc/noac169. PMID: 35802605.

85

An in-library ligation strategy and its application in CRISPR/Cas9 screen of high-order gRNA combinations

Zhike Lu#, Ke Ni#, Yingying Wang#, Yangfan Zhou, Yini Li, Jianfeng Yan, Qingkai Song, Min Liu, Yujun Xu, Zhenxing Yu, Tiannan Guo, Lijia Ma*.

Nucleic Acids Research. 2022 Jun 24;50(11):6575-6586. doi: 10.1093/nar/gkac458. PMID: 35670669.

84

High-throughput proteomic sample preparation using pressure cycling technology

Xue Cai#, Zhangzhi Xue, Chunlong Wu, Rui Sun, Liujia Qian, Liang Yue, Weigang Ge, Xiao Yi, Wei Liu, Chen Chen, Huanhuan Gao, Jing Yu, Luang Xu, Yi Zhu*, Tiannan Guo*.

Nature Protocols. 2022 Oct;17(10):2307-2325. doi: 10.1038/s41596-022-00727-1. PMID: 35931778.

83

Enhanced inflammation and suppressed adaptive immunity in COVID-19 with prolonged RNA shedding

Shaohua Tang# , Rui Sun# , Weigang Ge# , Tingting Mao# , Liujia Qian# , Chongquan Huang# , Zhouyang Kang# , Qi Xiao , Meng Luo , Qiushi Zhang , Sainan Li , Hao Chen , Wei Liu , Bingjie Wang , Shufei Li , Xiaoling Lin , Xueqin Xu , Huanzheng Li , Lianpeng Wu , Jianyi Dai , Huanhuan Gao , Lu Li , Tian Lu , Xiao Liang , Xue Cai , Guan Ruan , Fei Xu , Yan Li , Yi Zhu* , Ziqing Kong*, Jianping Huang *, Tiannan Guo*.

Cell Discovery. 2022 Jul 25;8(1):70. doi: 10.1038/s41421-022-00441-y. PMID: 35879274.

82

Proteotypic Differences of Follicular-Patterned Thyroid Neoplasms

Dongdong Huang#, Huifang Zhang, Lu Li, Weigang Ge, Wei Liu, Zhen Dong, Jinlong Gao, Nan Yao, Wenxin Fu, Lingling Huang, Tiannan Guo, Yaoting Sun* and Xiaodong Teng*.

Frontiers in Endocrinology. 2022 Jul 6;13:854611. doi: 10.3389/fendo.2022.854611. PMID: 35923625.

81

Optimization of Microflow LC Coupled with Scanning SWATH and Its Application in Hepatocellular Carcinoma Tissues

Huanhuan Gao#, Youqi Liu, Vadim Demichev, Stephen Tate, Chen Chen, Jiang Zhu, Cong Lu, Markus Ralser, Tiannan Guo*, and Yi Zhu*.

Journal of Proteome Research. 2022 Jul 1;21(7):1686-1693. doi: 10.1021/acs.jproteome.2c00078. PMID: 35653712.

80

Molecular Subgroups of Intrahepatic Cholangiocarcinoma Discovered by Single-Cell RNA Sequencing-Assisted Multi-Omics Analysis

Xuanwen Bao#, Qiong Li#, Jinzhang Chen#, Diyu Chen#, Chanqi Ye#, Xiaomeng Dai, Yanfang Wang, Xin Li, Xiaoxiang Rong, Fei Cheng, Ming Jiang, Zheng Zhu, Yongfeng Ding, Rui Sun, Chuan Liu, Lingling Huang, Yuzhi Jin, Bin Li, Juan Lu, Wei Wu, Yixuan Guo, Wenguang Fu, Sarah Raye Langley, Vincent Tano, Weijia Fang, Tiannan Guo*, Jianpeng Sheng*, Peng Zhao*, and Jian Ruan*.

Cancer Immunology Research. 2022 Jul 1;10(7):811-828. doi: 10.1158/2326-6066.CIR-21-1101. PMID: 35604302.

79

Proteomic characterization of Omicron SARS-CoV-2 host response

Jianfeng Bao#, Rui Sun#, Jingwen Ai#, Liujia Qian#, Fang Liu#, Hongyu Wang#, Lingling Tan, Xue Cai, Yingqiu Shi, Xiao Liang, Weigang Ge, Jing Wu, Chen Chen, Wenhong Zhang*, Jinsong Huang* & Tiannan Guo*.

Cell Discovery. 2022 May 18;8(1):46. doi: 10.1038/s41421-022-00418-x. PMID: 35581179.

78

An open invitation to the Understudied Proteins Initiative

Georg Kustatscher*, Tom Collins, Anne-Claude Gingras, Tiannan Guo, Henning Hermjakob, Trey Ideker, Kathryn S. Lilley, Emma Lundberg, Edward M. Marcotte, Markus Ralser & Juri Rappsilber*.

Nature Biotechnology. 2022 Jun;40(6):815-817. doi: 10.1038/s41587-022-01316-z. PMID: 35534555.

77

Understudied proteins: opportunities and challenges for functional proteomics

Georg Kustatscher*, Tom Collins, Anne-Claude Gingras, Tiannan Guo, Henning Hermjakob, Trey Ideker, Kathryn S. Lilley, Emma Lundberg, Edward M. Marcotte, Markus Ralser & Juri Rappsilber*.

Nature Methods. 2022 Jul;19(7):774-779. doi: 10.1038/s41592-022-01454-x. PMID: 35534633.

76

RAB2A promotes cervical cancer progression as revealed by comprehensive analysis of HPV integration and proteome in longitudinal cervical samples

Yifan Meng*#; Shitong Lin#; Yi Zhou#; Xiao Yi#; Ping Wu; Qing Zhang; Weigang Ge; Canhui Cao; Peipei Gao; Wenhua Zhi; Ting Peng; Juncheng Wei; Wencheng Ding; Ding Ma; Guoliang Li; Qin Yang*; Tiannan Guo*; Xi Zeng*; Peng Wu*.

Clinical and Translational Medicine. 2022 Mar;12(3):e767. doi: 10.1002/ctm2.767. PMID: 35343109

75

Multi-omics in COVID-19: Seeing the unseen but overlooked in the clinic

Tian Lu#, Yingrui Wang, Tiannan Guo*.

Cell Reports Medicine. 2022 Mar 15;3(3):100580. doi: 10.1016/j.xcrm.2022.100580. PMID: 35474745.

74

Stratification of follicular thyroid tumours using data-independent acquisition proteomics and a comprehensive thyroid tissue spectral library

Yaoting Sun*, Lu Li, Yan Zhou, Weigang Ge, He Wang, Runxin Wu, Wei Liu, Hao Chen, Qi Xiao, Xue Cai, Zhen Dong, Fangfei Zhang, Junhong Xiao, Guangzhi Wang, Yi He, Jinlong Gao, Oi Lian Kon, Narayanan Gopalakrishna Iyer, Haixia Guan, Xiaodong Teng, Yi Zhu*, Yongfu Zhao*, Tiannan Guo*.

Molecular Oncology. 2022 Apr;16(8):1611-1624. doi: 10.1002/1878-0261.13198. PMID: 35194950.

73

Circulating proteome and progression of type 2 diabetes

Wanglong Gou#, Liang Yue#, Xinyi Tang#, Yanyan Wu#, Xue Cai#, Menglei Shuai, Zelei Miao, Yuanqing Fu, Hao Chen, Zengliang Jiang, Jiali Wang, Yunyi Tian, Congmei Xiao, Nan Xiang, Zhen Wu, Yuming Chen*, Tiannan Guo*, JuSheng Zheng*.

The Journal of Clinical Endocrinology & Metabolism. 2022 May 17;107(6):1616-1625. doi: 10.1210/clinem/dgac098. PMID: 35184183.

72

sRAGE alleviates SARS-CoV-2-induced pneumonia in hamster

Xiuqin Zhang, Dan Li, Rui Sun, Xinli Hu, Zhiqi Song, Xiaotian Ni, Hua Zhu, Tiannan Guo*, Chuan Qin*, Ruiping Xiao*.

Signal Transduction and Targeted Therapy. 2022 Feb 2;7(1):36. doi: 10.1038/s41392-022-00883-6. PMID: 35110523.

71

PROTREC: A probability-based approach for recovering missing proteins based on biological networks

Weijia Kong, Bertrand Jern, Han Wong, Huanhuan Gao, Tiannan Guo, Xianming Liu, Xiaoxian Du, Limsoon Wong*, Wilson Wen Bin Goh*.

Journal of Proteomics. 2022 Jan 6;250:104392. doi: 10.1016/j.jprot.2021.104392. PMID: 34626823.

70

DIA-based Proteomics Identifies IDH2 as a Targetable Regulator of Acquired Drug Resistance in Chronic Myeloid Leukemia

Wei Liu#, Yaoting Sun, Weigang Ge, Fangfei Zhang, Lin Gan, Yi Zhu, Tiannan Guo*, Kexin Liu*.

Molecular & Cellular Proteomics. 2022 Feb;21(2):100187. doi: 10.1016/j.mcpro.2021.100187. PMID: 34922009.

69

Proteomic datasets of HeLa and SiHa cell lines acquired by DDA-PASEF and diaPASEF

Zelu Huang, Weijia Kong, Bertrand Jernhan Wong, Huanhuan Gao, Tiannan Guo, Xianming Liu, Xiaoxian Du, Limsoon Wong*, Wilson Wen Bin Goh*.

Journal of Proteomics. 2022 Feb 4;41:107919. doi: 10.1016/j.dib.2022.107919. PMID: 35198691.

68

Proteomic and metabolomic profiling of urine uncovers immune responses in patients with COVID-19

Xiaojie Bi#, Wei Liu#, Xuan Ding#, Shuang Liang#, Yufen Zheng#, Xiaoli Zhu#, Sheng Quan#, Xiao Yi, Nan Xiang, Juping Du, Haiyan Lyu, Die Yu, Chao Zhang Luang Xu, Weigang Ge, Jiale He, Guangjun Zhu, Donglian Wang, Hongguo Zhu, Shiyong Chen, Jun Li, Haihong Zhao, Yi Zhu*, Huafen Liu*, Jiaqin Xu*, Bo Shen*, Tiannan Guo*.

Cell Reports. 2022 Jan 18;38(3):110271. doi: 10.1016/j.celrep.2021.110271. PMID: 35026155.

67

Proteomics profiling of colorectal cancer progression identifies PLOD2 as a potential therapeutic target

Yingkuan Shao#, Kailun Xu#, Xi Zheng, Biting Zhou, Xiuli Zhang, Lin Wang, Yaoting Sun, Dan Li, Ting Chen, Jian Wang, Shaojun Yu, Lifeng Sun, Xiaoming Xu, Shaozhi Dai, Huanhuan Gao, Guan Ruan, Wei Liu, Xue Cai, Tiansheng Zhu, Lina Qi, Jiani Chen, Wangxiong Hu, Xingyue Weng, Yi Zhu, Xueping Xiang, Zhiyuan Hu, Jinfan Li, Lirong Chen, Jimin Shao*, Shu Zheng*, Tiannan Guo*.

Cancer Communications. 2022 Feb;42(2):164-169. doi: 10.1002/cac2.12240. PMID: 34862750.

66

A prostate cancer tissue specific spectral library for targeted proteomic analysis

Rui Sun, Mengge Lyu, Shuang Liang, Weigang Ge, Yingrui Wang, Xuan Ding, Cheng Zhang, Yan Zhou, Shanjun Chen, Lirong Chen, Tiannan Guo*.

Proteomics. 2021 Nov 20:e2100147. doi: 10.1002/pmic.202100147. PMID: 34799972.

65

Potential Use of Serum Proteomics for Monitoring COVID-19 Progression to Complement RT-PCR Detection

Ying Zhang#, Xue Cai#, Weigang Ge#, Donglian Wang#, Guangjun Zhu#, Liujia Qian#, Nan Xiang, Liang Yue, Shuang Liang, Fangfei Zhang, Jing Wang, Kai Zhou, Yufen Zheng, Minjie Lin,Tong Sun, Ruyue Lu, Chao Zhang, Luang Xu, Yaoting Sun, Xiaoxu Zhou, Jing Yu, Lyv Mengge , Zhu Bo Shen, Xu Hongguo*, Jiaqin Xu*, Yi Zhu*, Tiannan Guo*.

Journal of Proteome Research. 2022 Jan 7;21(1):90-100. doi: 10.1021/acs.jproteome.1c00525. PMID: 34783559.

64

Novel deep learning radiomics model for preoperative evaluation of hepatocellular carcinoma differentiation based on computed tomography data

Yong Ding#, Shijian Ruan#, Yubizhuo Wang#, Jiayuan Shao#, Rui Sun, Wuwei Tian, Nan Xiang, Weigang Ge, Xiuming Zhang, Kunkai Su, Jingwen Xia, Qiang Huang, Weihai Liu, Qinxue Sun, Haibo Dong*, Mylène C.Q. Farias, Tiannan Guo*, Andrey S. Krylov, Wenjie Liang*, Wenbo Xiao, Xueli Bai, Tingbo Liang*.

Clinical Translation Medicine. 2021 Nov 6.11(11): e570. doi: 10.1002/ctm2.570. PMID: 34841694.

63

Computational Optimization of Spectral Library Size Improves DIA-MS Proteome Coverage and Applications to 15 Tumors

Weigang Ge#, Xiao Liang #, Fangfei Zhang#, Yifan Hu#, Luang Xu, Nan Xiang, Rui Sun, Wei Liu, Zhangzhi Xue, Xiao Yi, Yaoting Sun, Bo Wang, Jiang Zhu, Cong Lu, Xiaolu Zhan, Lirong Chen, Yan Wu, Zhiguo Zheng, Wangang Gong, Qijun Wu, Jiekai Yu, Zhaoming Ye, Xiaodong Teng, Shiang Huang, Shu Zheng, Tong Liu*, Chunhui Yuan*, Tiannan Guo*.

Journal of Proteome Research. 2021 Dec 3;20(12):5392-5401. doi: 10.1021/acs.jproteome.1c00640. PMID: 34748352.

62

SnapShot: Clinical proteomics

Yi Zhu, Ruedi Aebersold, Matthias Mann, Tiannan Guo.

Cell. 2021 Sep 2;184(18):4840-4840.e1. doi: 10.1016/j.cell.2021.08.015. PMID: 34478659.

61 COVID-19 Research

Gut microbiota, inflammation, and molecular signatures of host response to infection

Wanglong Gou#, Yuanqing Fu#, Liang Yue#, Geng-dong Chen#, Xue Cai#, Menglei Shuai#, Fengzhe Xu#, Xiao Yi, Hao Chen, Yi Zhu, Mian-li Xiao, Zengliang Jiang, Zelei Miao, Congmei Xiao, Bo Shen, Xiaomai Wu, Haihong Zhao, Wenhua Ling, Jun Wang*, Yu-ming Chen*, Tiannan Guo*, Ju-Sheng Zheng*.

Journal of Genetics and Genomics. 2021 Sep 20;48(9):792-802. doi: 10.1016/j.jgg.2021.04.002. PMID: 34257044.

60

Phenotypic characterization of two novel cell line models of castration resistant prostate cancer

Michael C. Haffner*, Akshay Bhamidipati, Harrison K. Tsai, David M. Esopi*, Ajay M. Vaghasia, Jin-Yih Low, Radhika A. Patel, Tam Pham, Nicole Castagna, Jessica Hicks, Nicolas Wyhs, Rudolf Aebersold, Angelo M. De Marzo, William G. Nelson, Tiannan Guo and Srinivasan Yegnasubramanian*.

The Prostate. 2021 Nov 1. 81(15):1159-1171. doi: 10.1002/pros.24210. PMID: 34402095.

59

METTL9 mediated N1-histidine methylation of zinc transporters is required for tumor growth

Mengyue Lv#, Dan Cao#*, Liwen Zhang, Chi Hu, Shukai Li, Panrui Zhang, Lianbang Zhu, Xiao Yi, Chaoliang Li, Alin Yang, Zhentao Yang, Yi Zhu, Kaiguang Zhang & Wen Pan*.

Protein & Cell. 2021 Dec;12(12):965-970. doi: 10.1007/s13238-021-00857-4. Epub 2021 Jul 4. PMID: 34218407.

58

On the feasibility of deep learning applications using raw mass spectrometry data

Joris Cadow*, Matteo Manica, Roland Mathis, Tiannan Guo, Ruedi Aebersold and María Rodríguez Martínez*.

Bioinformatics. 2021 Jul 12;37(Suppl_1):i245-i253. doi: 10.1093/bioinformatics/btab311. PMID: 34252933.

57

High-Throughput Proteomics and AI for Cancer Biomarker Discovery

Qi Xiao#, Fangfei Zhang, Luang Xu, Liang Yue, Oi Lian Kon, Yi Zhu*, Tiannan Guo*.

Advanced Drug Delivery Reviews. 2021 Sep. 176: 113844. doi: 10.1016/j.addr.2021.113844. PMID: 34182017.

56 COVID-19 Research

Eleven routine clinical features predict COVID-19 severity uncovered by machine learning of longitudinal measurements

Kai Zhou#, Yaoting Sun#, Lu Li#, Zelin Zang#, Jing Wang#, Jun Li#, Junbo Liang#, Fangfei Zhang, Qiushi Zhang, Weigang Ge, Hao Chen, Xindong Sun, Liang Yue, Xiaomai Wu, Bo Shen, Jiaqin Xu, Hongguo Zhu, Shiyong Chen, Hai Yang, Shigao Huang, Minfei Peng, Dongqing Lv, Chao Zhang, Haihong Zhao, Luxiao Hong, Zhehan Zhou, Haixiao Chen, Xuejun Dong, Chunyu Tu, Minghui Li, Yi Zhu*, Baofu Chen*, Stan Z. Li*, Tiannan Guo*.

Computational and Structural Biotechnology Journal. 2021;19:3640-3649. doi: 10.1016/j.csbj.2021.06.022. PMID: 34188785.

55

The Hippo-TAZ axis mediate vascular endothelial growth factor C in glioblastoma-derived exosomes to promote angiogenesis

Zhengmin Wang#, Yifan Yuan#, Xiong Ji#, Xing Xia#, Zhujun Li, Xiao Yi, Yi Zhu, Tiannan Guo, Yin Wang, Liang Chen*, Ying Liu*.

Cancer Letters. 2021 Aug 10;513:1-13. doi: 10.1016/j.canlet.2021.05.002. PMID: 34010715.

54

Immunometabolism the CyTOF way

Liujia Qian, Tiannan Guo*.

Immunity. 2021 Apr 13;54(4):610-613. doi: 10.1016/j.immuni.2021.03.019. PMID: 33852827.

53

Multi-organ Proteomic Landscape of COVID-19 Autopsies

Xiu Nie#, Liujia Qian#, Rui Sun#, Bo Huang#, Xiaochuan Dong#, Qi Xiao#, Qiushi Zhang#, Tian Lu, Liang Yue, Shuo Chen, Xiang Li, Yaoting Sun, Li Lu, Luang Xu, Li Yan, Ming Yang, Zhangzhi Xue, Shuang Liang, Xuan Ding, Chunhui Yuan, Li Peng, Wei Liu, Xiao Yi, Mengge Lyu, Guixiang Xiao, Xia Xu, Weigang Ge, Jiale He, Jun Fan, Junhua Wu, Meng Luo, Xiaona Chang, Huaxiong Pan, Xue Cai, Junjie Zhou, Jing Yu, Huanhuan Gao, Mingxing Xie, Sihua Wang, Guan Ruan, Hao Chen, Hua Su, Heng Mei, Danju Luo, Dashi Zhao, Fei Xu, Yan Li, Yi Zhu*, Jiahong Xia*, Yu Hu*, Tiannan Guo*.

Cell. 2021 Feb.184(3): 775-791.e14. doi: 10.1016/j.cell.2021.01.004. PMID: 33503446.

52 COVID-19 Research

Proteomic and metabolomic investigation of serum lactate dehydrogenase elevation in COVID-19 patients

Haixi Yan#, Xiao Liang#, Juping Du#, Zebao He#, Yu Wang, Mengge Lyu ,Liang Yue, Fangfei Zhang, Zhangzhi Xue, Luang Xu, Guan Ruan, Jun Li, Hongguo Zhu, Jiaqin Xu, Shiyong Chen, Chao Zhang, Dongqing Lv ,Zongmei Lin, Bo Shen, Yi Zhu*, Biyun Qian*, Haixiao Chen*, Tiannan Guo*.

Proteomics. 2021 Aug;21(15):e2100002. doi: 10.1002/pmic.202100002. PMID: 33987944.

51

ProteomeExpert: A Docker image based web-server for exploring, modeling, vis-ualizing, and mining quantitative proteomic data sets

Tiansheng Zhu#, Hao Chen, Xishan Yan, Zhicheng Wu, Xiaoxu Zhou, Qi Xiao, Weigang Ge, Qiushi Zhang, Chao Xu, Luang Xu, Guan Ruan, Zhangzhi Xue, Chunhui Yuan*, Guo-Bo Chen* and Tiannan Guo*.

Bioinformatics. 2021 Jan.37(2):273-275. doi: 10.1093/bioinformatics/btaa1088. PMID: 33416829.

50

BatchServer: a web server for batch effect evaluation, visualization and correction

Tiansheng Zhu, Rui Sun, Fangfei Zhang, Guo-Bo Chen, Xiao Yi, Guan Ruan, Chunhui Yuan, Shuigeng Zhou*, Tiannan Guo*.

Journal of Proteome Research. 2020 Dec. 20(1):1079-1086. doi: 10.1021/acs.jproteome.0c00488. PMID: 33338382.

49

Convergent network effects along the axis of gene expression during prostate cancer progression

Konstantina Charmpi#, Tiannan Guo*#, Qing Zhong#, Ulrich Wagner#, Rui Sun, Nora C Toussaint, Christine Fritz, Chunhui Yuan, Hao Chen, Niels J Rupp, Ailsa Christiansen, Dorothea Rutishauser, Jan H Ruschoff, Christian Fankhauser, Karim Saba, Cedric Poyet, Thomas Hermanns, Kathrin Oehl, Ariane Leoni Moore, Christian Beisel, Laurence Calzone, Loredana Martignetti, Qiushi Zhang, View ORCID Profile Yi Judy Zhu, Maria Rodriguez Martinez, Matteo Manica, Michael C Haffner, Ruedi Aebersold*, Peter J Wild*, Andreas Beyer*.

Genome Biology. 2020 Dec.21(1): 302. doi: 10.1186/s13059-020-02188-9. PMID: 33317623.

48

Phenotype Classification using Proteome Data in a Data-Independent Acquisition Tensor Format

Fangfei Zhang#, Shaoyang Yu#, Lirong Wu#, Zelin Zang, Xiao Yi, Jiang Zhu, Cong Lu, Ping Sun, Yaoting Sun, Sathiyamoorthy Selvarajan, Lirong Chen, Xiaodong Teng, Yongfu Zhao, Guangzhi Wang, Junhong Xiao, Shiang Huang, Oi Lian Kon, Gopalakrishna N. Iyer, Stan Z. Li*, Zhongzhi Luan*, Tiannan Guo*.

Journal of American Society of Mass Spectrometry. 2020 Oct.31(11):2296-2304. doi: 10.1021/jasms.0c00254. PMID: 33104352.