Professor | Yang Chen | Asia Growth Partners

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Name	Yang Chen
Contact Information	{'en': 'Phone: 010-69156430\\nEmail: yc{at}ibms.pumc.edu.cn', 'zh': '电话: 010-69156430\\n电子邮件: yc{at}ibms.pumc.edu.cn', 'de': 'Telefon: 010-69156430\\nE-Mail: yc{at}ibms.pumc.edu.cn'}
Language ability	Chinese, English
Province	Beijing

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Name

Yang Chen

Contact Information

{'en': 'Phone: 010-69156430\\nEmail: yc{at}ibms.pumc.edu.cn', 'zh': '电话: 010-69156430\\n电子邮件: yc{at}ibms.pumc.edu.cn', 'de': 'Telefon: 010-69156430\\nE-Mail: yc{at}ibms.pumc.edu.cn'}

Language ability

Chinese, English

Province

Beijing

University/Lab Affiliation and Title	Peking Union Medical College
Faculty	Basic Medical Sciences
Academic Background & Achievements	1999.09-2002.06 Bachelor: Sun Yat-sen University, Pharmacy 2002.09-2005.06 Master: Peking Union Medical College, Immunology 2005.09-2008.06 PhD: Peking Union Medical College, Biochemistry and Molecular Biology Published over 50 papers in journals like Nature Methods, Nature Communications, Genome Biology Received 3 Chinese invention patents and 2 software copyrights Research achievements selected as top ten advances in Chinese bioinformatics in 2018 and 2021
Work Experience	2008.09-2011.07 - Tsinghua University, Department of Automation, Assistant Researcher 2011.08-2020.12 - Tsinghua University, National Research Center for Information, Assistant Researcher, Associate Researcher 2020.12-present - Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, Researcher, Doctoral Supervisor
Awards	2018: Research achievements selected as top ten advances in Chinese bioinformatics 2021: Research achievements selected as top ten advances in Chinese bioinformatics

University/Lab Affiliation and Title

Peking Union Medical College

Faculty

Basic Medical Sciences

Academic Background & Achievements

1999.09-2002.06 Bachelor: Sun Yat-sen University, Pharmacy
2002.09-2005.06 Master: Peking Union Medical College, Immunology
2005.09-2008.06 PhD: Peking Union Medical College, Biochemistry and Molecular Biology
Published over 50 papers in journals like Nature Methods, Nature Communications, Genome Biology
Received 3 Chinese invention patents and 2 software copyrights
Research achievements selected as top ten advances in Chinese bioinformatics in 2018 and 2021

Work Experience

2008.09-2011.07 - Tsinghua University, Department of Automation, Assistant Researcher
2011.08-2020.12 - Tsinghua University, National Research Center for Information, Assistant Researcher, Associate Researcher
2020.12-present - Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, Researcher, Doctoral Supervisor

Awards

2018: Research achievements selected as top ten advances in Chinese bioinformatics
2021: Research achievements selected as top ten advances in Chinese bioinformatics

Areas of Focus	Research on spatiotemporal omics technology and bioinformatics methods Study of genomic spatial structure and function in diseases Research on new strategies for individualized diagnosis and treatment of diseases
Publications	Multi-omics Metabolic and Epigenetics Regulatory Network in Cancer: A Systems Biology Perspective, Xuezhu Wang, Yucheng Dong, Yongchangzheng, Yang Chen, 2021 SEAM is a spatial single nuclear metabolomics method for dissecting tissue microenvironment, Zhiyuan Yuan, Qiming Zhou, Lesi Cai, Lin Pan, Weiliang Sun, Shiwei Qumu, Si Yu, Jiaxin Feng, Hansen Zhao, Yongchang Zheng, Minglei Shi, Shao Li, Yang Chen, Xinrong Zhang, Michael Q. Zhang, 2021 Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index, Minglei Shi, Kaiqiang You, Taoyu Chen, Chao Hou, Zhengyu Liang, Mingwei Liu, Jifeng Wang, Taotao Wei, Jun Qin, Yang Chen, Michael Q Zhang, Tingting Li, 2021 Spatial density of open chromatin: an effective metric for the functional characterization of topologically associated domains, Shuai Jiang, Hao Li, Hao Hong, Guifang Du, Xin Huang, Yu Sun, Junting Wang, Huan Tao, Kang Xu, Cheng Li, Yang Chen, Hebing Chen, Xiaochen Bo, 2020 PhaSepDB: a database of liquid–liquid phase separation related proteins, Kaiqiang You, Qi Huang, Chunyu Yu, Boyan Shen, Cristoffer Sevilla, Minglei Shi, Henning Hermjakob, Yang Chen, Tingting Li, 2020 HiCDB: a sensitive and robust method for detecting contact domain boundaries, Fengling Chen, Guipeng Li, Michael Q Zhang, Yang Chen, 2018 FIND: difFerential chromatin INteractions Detection using a spatial Poisson process, Mohamed Nadhir Djekidel, Yang Chen, Michael Q. Zhang, 2018 Alterations of specific chromatin conformation affect ATRA-induced leukemia cell differentiation, Yanjian Li, Yi He, Zhengyu Liang, Yang Wang, Fengling Chen, Mohamed Nadhir Djekidel, Guipeng Li, Xu Zhang, Shuqin Xiang, Zejun Wang, Juntao Gao, Michael Q. Zhang, Yang Chen, 2018 BL-Hi-C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions, Zhengyu Liang, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Minping Qian, Michael Q. Zhang, Yang Chen, 2017 Engineering EMT using 3D micro-scaffold to promote hepatic functions for drug hepatotoxicity evaluation, Jingyu Wang, Fengling Chen, Longwei Liu, Chunxiao Qi, Bingjie Wang, Xiaojun Yan, Chenyu Huang, Wei Hou, Michael Q. Zhang, Yang Chen, Yanan Du, 2016 3CPET: finding co-factor complexes from ChIA-PET data using a hierarchical Dirichlet process, Mohamed Nadhir Djekidel, Zhengyu Liang, Qi Wang, Zhirui Hu, Guipeng Li, Yang Chen, Michael Q. Zhang, 2015

Areas of Focus

Research on spatiotemporal omics technology and bioinformatics methods
Study of genomic spatial structure and function in diseases
Research on new strategies for individualized diagnosis and treatment of diseases

Publications

Multi-omics Metabolic and Epigenetics Regulatory Network in Cancer: A Systems Biology Perspective, Xuezhu Wang, Yucheng Dong, Yongchangzheng, Yang Chen, 2021
SEAM is a spatial single nuclear metabolomics method for dissecting tissue microenvironment, Zhiyuan Yuan, Qiming Zhou, Lesi Cai, Lin Pan, Weiliang Sun, Shiwei Qumu, Si Yu, Jiaxin Feng, Hansen Zhao, Yongchang Zheng, Minglei Shi, Shao Li, Yang Chen, Xinrong Zhang, Michael Q. Zhang, 2021
Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index, Minglei Shi, Kaiqiang You, Taoyu Chen, Chao Hou, Zhengyu Liang, Mingwei Liu, Jifeng Wang, Taotao Wei, Jun Qin, Yang Chen, Michael Q Zhang, Tingting Li, 2021
Spatial density of open chromatin: an effective metric for the functional characterization of topologically associated domains, Shuai Jiang, Hao Li, Hao Hong, Guifang Du, Xin Huang, Yu Sun, Junting Wang, Huan Tao, Kang Xu, Cheng Li, Yang Chen, Hebing Chen, Xiaochen Bo, 2020
PhaSepDB: a database of liquid–liquid phase separation related proteins, Kaiqiang You, Qi Huang, Chunyu Yu, Boyan Shen, Cristoffer Sevilla, Minglei Shi, Henning Hermjakob, Yang Chen, Tingting Li, 2020
HiCDB: a sensitive and robust method for detecting contact domain boundaries, Fengling Chen, Guipeng Li, Michael Q Zhang, Yang Chen, 2018
FIND: difFerential chromatin INteractions Detection using a spatial Poisson process, Mohamed Nadhir Djekidel, Yang Chen, Michael Q. Zhang, 2018
Alterations of specific chromatin conformation affect ATRA-induced leukemia cell differentiation, Yanjian Li, Yi He, Zhengyu Liang, Yang Wang, Fengling Chen, Mohamed Nadhir Djekidel, Guipeng Li, Xu Zhang, Shuqin Xiang, Zejun Wang, Juntao Gao, Michael Q. Zhang, Yang Chen, 2018
BL-Hi-C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions, Zhengyu Liang, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Minping Qian, Michael Q. Zhang, Yang Chen, 2017
Engineering EMT using 3D micro-scaffold to promote hepatic functions for drug hepatotoxicity evaluation, Jingyu Wang, Fengling Chen, Longwei Liu, Chunxiao Qi, Bingjie Wang, Xiaojun Yan, Chenyu Huang, Wei Hou, Michael Q. Zhang, Yang Chen, Yanan Du, 2016
3CPET: finding co-factor complexes from ChIA-PET data using a hierarchical Dirichlet process, Mohamed Nadhir Djekidel, Zhengyu Liang, Qi Wang, Zhirui Hu, Guipeng Li, Yang Chen, Michael Q. Zhang, 2015

Spatiotemporal Omics Bioinformatics Genomic Structure Disease Function Individualized Treatment Genomics Bioinformatics Methods Diagnosis Strategies Treatment Strategies Disease Genomics

Yuan Zhou - Peking University

Hua-Jun Wu - Peking University

Chen Li - Zhejiang University

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