张强锋 博士

副教授
国家杰出青年基金项目获得者

主要科研领域与方向

我们实验室是一个结构生物学、基因组学、机器学习和大数据分析等多学科交叉实验室。我们主要的研究兴趣是发展计算和高通量实验相结合的方法，并应用于新兴的结构系统生物学研究，包括使用高通量深度测序的手段来探测RNA二级结构和计算建模，RNA功能模体（motif）等有效预测或发现方法，蛋白-蛋白、RNA-RNA、以及蛋白-RNA相互作用网络，以及结合结构和网络发展进一步疾病诊断、预后以及发展可能的治疗手段。

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, 56(1): 124-135.

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^# (2022). 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.     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.

5.     Lei Sun*, Kui Xu*, Wenze Huang*, Yucheng Yang*, Lei Tang, Tuanlin Xiong, Qiangfeng Cliff Zhang^#. (2021). Predicting dynamic cellular protein-RNA interactions using deep learning and in vivo RNA structure, Cell Research, 31 (5), 495-516.

6.     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.

7.     Xiaochen 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.

8.     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. Nat Commun., 10: 4576.

9.     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. Nat Struct Mol Biol., 26(4):322-330.

10. 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.