张强锋 博士
副教授
1996-2000 中国科学技术大学少年班 学士
2000-2006 中国科学技术大学计算机学院 博士
2006-2011 哥伦比亚大学生物化学和分子生物物理 博士
2011-2012 哥伦比亚大学计算生物学和生物信息学中心 博士后
2012-2015 斯坦福大学医学院 博士后
2015-2018 清华大学生命科学学院 助理教授
2018-至今 清华大学生命科学学院 副教授
● 研究兴趣、领域：
我们实验室致力于新兴的人工智能和生命科学交叉领域研究。我们通过结合人工智能和大数据分析，进行结构生物学、基因组学、RNA生物学等技术开发和科学问题研究，研究兴趣包括并不限于RNA结构组技术及算法、单细胞基因组测序技术及算法、基于冷冻电镜的蛋白质结构建模等。另外，我们还对一些人工智能算法开发特别感兴趣，特别是，现阶段人工智能方法能解决什么生命科学问题？生物医学数据的人工智能方法有哪些特殊的不同于其他人工智能领域之处？人工智能是否会带来生命科学研究的新的范式？
● 代表性论文：
1. Wenze Huang*, Tuanlin Xiong*, Yuting Zhao*, Jian Heng, Ge Han, Pengfei Wang, Zhihua Zhao, Ming Shi, Juan Li, Jiazhen Wang, Yixia Wu, Feng Liu, Jianzhong Jeff Xi#, Yangming Wang#, Qiangfeng Cliff Zhang# (2024) Computational prediction and experimental validation identify functionally conserved lncRNAs from zebrafish to human, Nature Genetics. (In press).
2. Lei Xiong*, Kang Tian*, Yuzhe Li, Weixi Ning, Xin Gao, Qiangfeng Cliff Zhang#. (2022) Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space. Nature Communications. 13(1):6118.
3. Shaojun Zhang*, Wenze Huang*, Lili Ren*, Xiaohui Ju*, Mingli Gong*, Jian Rao*, Lei Sun, Pan Li, Qiang Ding#, Jianwei Wang#, Qiangfeng Cliff Zhang#. (2021) Comparison of viral RNA-host protein interactomes across pathogenic RNA viruses informs rapid antiviral drug discovery for SARS-CoV-2. Cell Research, 32 (1):9-23.
4. Jing Gong*, Kui Xu*, Ziyuan Ma, Zhi John Lu, Qiangfeng Cliff Zhang#. (2021) A deep learning method for recovering missing signals in transcriptome-wide RNA structure profiles from probing experiments. Nature Machine Intelligence, 3(11):995-1006.
5. Qing-Jun Luo*, Jinsong Zhang*, Pan Li*, Qing Wang, Yue Zhang, Biswajoy Roy-Chaudhuri, Jianpeng Xu, Mark A. Kay#, Qiangfeng Cliff Zhang#. (2021) RNA structure probing reveals the structural basis of Dicer binding and cleavage. Nature Communications, 12 (1):1-12
6. Lei Sun*, Pan Li*, Xiaohui Ju*, Jian Rao*, Wenze Huang*, Lili Ren, Shaojun Zhang, Tuanlin Xiong, Kui Xu, Xiaolin Zhou, Mingli Gong, Eric Miska, Qiang Ding#, Jianwei Wang#, Qiangfeng Cliff Zhang#. (2021) In vivo structural characterization of the SARS-CoV-2 RNA genome identifies host proteins vulnerable to repurposed drugs. Cell. 184(7):1865-1883.e20.
7. Lei Sun*, Kui Xu*, Wenze Huang*, Yucheng T.Yang*, Pan Li, Lei Tang, Tuanlin Xiong, Qiangfeng Cliff Zhang#. (2021) Predicting dynamic cellular protein-RNA interactions by deep learning using in vivo RNA structures. Cell Research. 31(5):495-516.
8. Xiaocheng Weng*, Jing Gong*, Yi Chen*, Tong Wu*, Fang Wang, Shixi Yang, Yushu Yuan, Guanzheng Luo, Kai Chen, Lulu Hu, Honghui Ma, Pingluan Wang, Qiangfeng Cliff Zhang#, Xiang Zhou#, Chuan He#. (2020) Keth-seq for transcriptome-wide RNA structure mapping. Nature Chemical Biology, 16(5):489-492.
9. Lei Xiong, Kui Xu, Kang Tian, Yanqiu Shao, Lei Tang, Ge Gao, Michael Zhang, Tao Jiang, Qiangfeng Cliff Zhang#. (2019) SCALE method for single-cell ATAC-seq analysis via latent feature extraction. Nature Communications, 10(1):4576
10. Lei Sun*, Furqan M Fazal*, Pan Li*, James P Broughton, Byron Lee, Lei Tang, Wenze Huang, Eric T Kool, Howard Y Chang#, Qiangfeng Cliff Zhang#. (2019) RNA structure maps across mammalian cellular compartments. Nature structural & molecular biology. 26(4):322-330.
11. Kui Xu, Zhe Wang, Jianping Shi, Hongsheng Li, Qiangfeng Cliff Zhang#. (2019) A2-Net: Molecular Structure Estimation from Cryo-EM Density Volumes. In the Proceedings of the Thirty-Fourth AAAI Conference on Artificial Intelligence (AAAI 2019):1230-1237. Jan. 27 – Feb.1, Hawaii, USA
12. Pan Li*, Yifan Wei*, Miao Mei*, Lei Tang*, Lei Sun, Wenze Huang, Jianyu Zhou, Chunlin Zou, Shaojun Zhang, Cheng-feng Qin, Tao Jiang, Jianfeng Dai, Xu Tan#, Qiangfeng Cliff Zhang#. (2018) Integrative Analysis of Zika Virus Genome RNA Structure Reveals Critical Determinants of Viral Infectivity. Cell Host & Microbe. 24(6):875-886
● 联系方式：
电子邮件：qczhang@tsinghua.edu.cn
电话：010-6279-6439（办公室），010-6279-5823（实验室）
主页: http://zhanglab.net
