基本信息
邵振 男 博导 中国科学院上海营养与健康研究所
电子邮件: shaozhen@picb.ac.cn
通信地址: 上海市岳阳路320号
邮政编码: 200032
电子邮件: shaozhen@picb.ac.cn
通信地址: 上海市岳阳路320号
邮政编码: 200032
研究领域
计算生物学
开发用于高通量组学数据(表观组、蛋白质组、顺式调控组等)定量比较和整合分析的计算和统计模型。
肿瘤基因组学
基于多维组学数据的计算建模和整合分析,在基因组尺度刻画肿瘤中发生的复杂异变和病人间差异,实现更精准的分子分型和调控机制挖掘
表观基因组学
结合组学实验和数据计算分析,发掘新型表观调控元件和调控因子在动物组织分化和病变过程中的重要功能
招生信息
招生专业
0710Z2-计算生物学086000-生物与医药
招生方向
计算生物学肿瘤基因组学表观基因组学
教育背景
学历
2003年9月–2008年12月:中科院理论物理研究所,理论生物物理博士学位。
1999年9月–2003年7月:中国科技大学少年班系,物理学士学位。
工作经历
工作简历
2013-09~现在, 中国科学院上海生命科学研究院马普伙伴计算生物学研究所(现上海营养与健康研究所), 研究员2009-04~2013-09,美国哈佛医学院达纳法伯癌症研究所, 计算生物学博士后
教授课程
计算生物学原理
出版信息
发表论文
[1] Tu, Shiqi, Li, Mushan, Chen, Haojie, Tian, Fengxiang, Xu, Jian, Waxman, David J, Zhang, Yijing, Shao, Zhen. MAnorm2 for quantitatively comparing groups of ChIP-seq samples. GENOME RESEARCH[J]. 2021, 31(1): 131-145, https://www.webofscience.com/wos/woscc/full-record/WOS:000607086200005.[2] Yuan, Chongze, Chen, Haojie, Tu, Shiqi, Huang, HsinYi, Pan, Yunjian, Gui, Xiuqi, Kuang, Muyu, Shen, Xuxia, Zheng, Qiang, Zhang, Yang, Cheng, Chao, Hong, Hui, Tao, Xiaoting, Peng, Yizhou, Yao, Xingxin, Meng, Feilong, Ji, Hongbin, Shao, Zhen, Sun, Yihua. A systematic dissection of the epigenomic heterogeneity of lung adenocarcinoma reveals two different subclasses with distinct prognosis and core regulatory networks. GENOME BIOLOGY[J]. 2021, 22(1): https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8127276/.[3] Wang, Yuting, Dai, Guangyi, Gu, Zhili, Liu, Guopeng, Tang, Ke, Pan, YiHsuan, Chen, Yujie, Lin, Xin, Wu, Nan, Chen, Haoshan, Feng, Su, Qiu, Shou, Sun, Hongduo, Li, Qian, Xu, Chuan, Mao, Yanan, Zhang, Yong Edward, Khaitovich, Philipp, Wang, YanLing, Liu, Qunxiu, Han, JingDong Jackie, Shao, Zhen, Wei, Gang, Xu, Chun, Jing, Naihe, Li, Haipeng. Accelerated evolution of an Lhx2 enhancer shapes mammalian social hierarchies. CELL RESEARCH[J]. 2020, 30(5): 408-420, http://lib.cqvip.com/Qikan/Article/Detail?id=7102094955.[4] Li, Mushan, Tu, Shiqi, Li, Zijia, Tan, Fengxiang, Liu, Jian, Wang, Qian, Zhang, Yuannyu, Xu, Jian, Zhang, Yijing, Zhou, Feng, Shao, Zhen. MAP: model-based analysis of proteomic data to detect proteins with significant abundance changes. CELL DISCOVERY[J]. 2019, 5(1): http://dx.doi.org/10.1038/s41421-019-0107-9.[5] Sun, Hongduo, Wang, Jiawei, Gong, Zhaohui, Yao, Jiaying, Wang, Yuangao, Xu, Jian, Yuan, Guocheng, Zhang, Yijing, Shao, Zhen. Quantitative integration of epigenomic variation and transcription factor binding using MAmotif toolkit identifies an important role of IRF2 as transcription activator at gene promoters. CELL DISCOVERYnull. 2018, 4(1): https://doaj.org/article/7e00e245fbb8483b91136917685529d3.[6] Li, Shuang, Li, Mushan, Liu, Xiaojian, Yang, Yuanyuan, Wei, Yuda, Chen, Yanhao, Qiu, Yan, Zhou, Tingting, Feng, Zhuanghui, Ma, Danjun, Fang, Jing, Ying, Hao, Wang, Hui, Musunuru, Kiran, Shao, Zhen, Zhao, Yongxu, Ding, Qiurong. Genetic and Chemical Screenings Identify HDAC3 as a Key Regulator in Hepatic Differentiation of Human Pluripotent Stem Cells. STEM CELL REPORTS[J]. 2018, 11(1): 22-31, http://dx.doi.org/10.1016/j.stemcr.2018.05.001.[7] 邵振. An introduction to computational tools for differential binding analysis with ChIP-seq data. Quantitative Biology. 2017, [8] Liu, Xin, Zhang, Yuannyu, Ni, Min, Cao, Hui, Signer, Robert A J, Li, Dan, Li, Mushan, Gu, Zhimin, Hu, Zeping, Dickerson, Kathryn E, Weinberg, Samuel E, Chandel, Navdeep S, DeBerardinis, Ralph J, Zhou, Feng, Shao, Zhen, Xu, Jian. Regulation of mitochondrial biogenesis in erythropoiesis by mTORC1-mediated protein translation. NATURE CELL BIOLOGY[J]. 2017, 19(6): 626-+, https://www.webofscience.com/wos/woscc/full-record/WOS:000402525200011.[9] Tu, Shiqi, Yuan, GuoCheng, Shao, Zhen. The PRC2-binding long non-coding RNAs in human and mouse genomes are associated with predictive sequence features. SCIENTIFIC REPORTS[J]. 2017, 7: [10] Huang, Jialiang, Liu, Xin, Li, Dan, Shao, Zhen, Cao, Hui, Zhang, Yuannyu, Trompouki, Eirini, Bowman, Teresa V, Zon, Leonard I, Yuan, GuoCheng, Orkin, Stuart H, Xu, Jian. Dynamic Control of Enhancer Repertoires Drives Lineage and Stage-Specific Transcription during Hematopoiesis. DEVELOPMENTAL CELL[J]. 2016, 36(1): 9-23, http://dx.doi.org/10.1016/j.devcel.2015.12.014.[11] Xu, Jian, Shao, Zhen, Li, Dan, Xie, Huafeng, Kim, Woojin, Huang, Jialiang, Taylor, Jordan E, Pinello, Luca, Glass, Kimberly, Jaffe, Jacob D, Yuan, GuoCheng, Orkin, Stuart H. Developmental Control of Polycomb Subunit Composition by GATA Factors Mediates a Switch to Non-Canonical Functions. MOLECULAR CELL[J]. 2015, 57(2): 304-316, http://dx.doi.org/10.1016/j.molcel.2014.12.009.[12] Das, Partha Pratim, Shao, Zhen, Beyaz, Semir, Apostolou, Eftychia, Pinello, Luca, De Los Angeles, Alejandro, OBrien, Kassandra, Atsma, Jennifer Marino, Fujiwara, Yuko, Minh Nguyen, Ljuboja, Damir, Guo, Guoji, Woo, Andrew, Yuan, GuoCheng, Onder, Tamer, Daley, George, Hochedlinger, Konrad, Kim, Jonghwan, Orkin, Stuart H. Distinct and Combinatorial Functions of Jmjd2b/Kdm4b and Jmjd2c/Kdm4c in Mouse Embryonic Stem Cell Identity. MOLECULAR CELL[J]. 2014, 53(1): 32-48, http://dx.doi.org/10.1016/j.molcel.2013.11.011.[13] Xu, Jian, Shao, Zhen, Glass, Kimberly, Bauer, Daniel E, Pinello, Luca, Van Handel, Ben, Hou, Serena, Stamatoyannopoulos, John A, Mikkola, Hanna K A, Yuan, GuoCheng, Orkin, Stuart H. Combinatorial Assembly of Developmental Stage-Specific Enhancers Controls Gene Expression Programs during Human Erythropoiesis. DEVELOPMENTAL CELL[J]. 2012, 23(4): 796-811, http://dx.doi.org/10.1016/j.devcel.2012.09.003.[14] Shao, Zhen, Zhang, Yijing, Yuan, GuoCheng, Orkin, Stuart H, Waxman, David J. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. GENOME BIOLOGY[J]. 2012, 13(3): R16-R16, https://www.webofscience.com/wos/woscc/full-record/WOS:000308544200001.
科研活动
科研项目
( 1 ) 多能干细胞命运决定异质性的转录调控网络解析, 主持, 国家级, 2018-07--2022-12( 2 ) 细胞谱系转变与造血组织形成的编程机制, 参与, 国家级, 2019-09--2024-08( 3 ) 组蛋白修饰H3K4me3在增强子元件上的选择性标记和功能研究, 主持, 国家级, 2019-01--2022-12
指导学生
已指导学生
涂世奇 博士研究生 0710Z2-计算生物学
姚佳英 博士研究生 0710Z2-计算生物学
现指导学生
孙洪铎 博士研究生 0710Z2-计算生物学
谭凤翔 博士研究生 0710Z2-计算生物学
陈韦言 博士研究生 0710Z2-计算生物学
陈浩杰 博士研究生 0710Z2-计算生物学
李雅娜 博士研究生 0710Z2-计算生物学
田丰 硕士研究生 0710Z2-计算生物学
黄静 硕士研究生 0710Z2-计算生物学
桂秀琪 博士研究生 0710Z2-计算生物学
郭智杰 博士研究生 0710Z2-计算生物学
郭烜 硕士研究生 0710Z2-计算生物学
万佳芳 硕士研究生 071009-细胞生物学