中国科学院计算技术研究所机构知识库

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	A deep learning model for structure-based bioactivity optimization and its application in the bioactivity optimization of a SARS-CoV-2 main protease inhibitor 期刊论文 EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY, 2025, 卷号: 291, 页码: 16 作者:  Yang, Zhenyu;  Wang, Kai;  Zhang, Guo;  Jiang, Yuanyuan;  Zeng, Rui;  Qiao, Jingxin;  Li, Yueyue;  Deng, Xinyue;  Xia, Ziyi;  Yao, Rui;  Zeng, Xiaoxi;  Zhang, Liyun;  Zhao, Yi;  Lei, Jian;  Chen, Runsheng 收藏  |  浏览/下载：7/0  |  提交时间：2025/06/25 Structure-based bioactivity optimization  Deep-learning model  SARS-CoV-2 main protease  Molecular scaffold  Pocket-StrMod
	CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer 期刊论文 GENOMICS PROTEOMICS & BIOINFORMATICS, 2025, 卷号: 23, 期号: 1, 页码: 8 作者:  He, Jinhua;  Luo, Haitao;  Wang, Wei;  Bu, Dechao;  Zou, Zhengkai;  Wang, Haolin;  Tang, Hongzhen;  Han, Zeping;  Luo, Wenfeng;  Shen, Jian;  Xie, Fangmei;  Zhao, Yi;  Xiang, Zhiming 收藏  |  浏览/下载：3/0  |  提交时间：2025/06/25 Cancer single-cell data  Cross-tissue analysis  Immune cell  Enrichment analysis  Expression map
	DeepFusion: A deep bimodal information fusion network for unraveling protein-RNA interactions using in vivo RNA structures 期刊论文 COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 2024, 卷号: 23, 页码: 617-625 作者:  Qiao, Yixuan;  Yang, Rui;  Liu, Yang;  Chen, Jiaxin;  Zhao, Lianhe;  Huo, Peipei;  Wang, Zhihao;  Bu, Dechao;  Wu, Yang;  Zhao, Yi 收藏  |  浏览/下载：37/0  |  提交时间：2024/05/20 Information fusion  Deep learning  RNA -binding proteins  In vivo RNA structures  Motifs
	Enzyme Repertoires and Genomic Insights into Lycium barbarum Pectin Polysaccharide Biosynthesis 期刊论文 GENOMICS PROTEOMICS & BIOINFORMATICS, 2024, 卷号: 22, 期号: 6, 页码: 15 作者:  Yue, Haiyan;  Tang, Yiheng;  Li, Aixuan;  Zhang, Lili;  Niu, Yiwei;  Zhang, Yiming;  Wang, Hao;  Luo, Jianjun;  Zhao, Yi;  He, Shunmin;  Chen, Chang;  Chen, Runsheng 收藏  |  浏览/下载：5/0  |  提交时间：2025/06/25 Lycium barbarum  Lycium barbarum pectin polysaccharide  Phylogenetic expansion  lncRNA  Rhamnogalacturonan I rhamnosyltransferase
	HERB 2.0: an updated database integrating clinical and experimental evidence for traditional Chinese medicine 期刊论文 NUCLEIC ACIDS RESEARCH, 2024, 页码: 11 作者:  Gao, Kai;  Liu, Liu;  Lei, Shuangshuang;  Li, Zhinong;  Huo, Peipei;  Wang, Zhihao;  Dong, Lei;  Deng, Wenxin;  Bu, Dechao;  Zeng, Xiaoxi;  Li, Chun;  Zhao, Yi;  Zhang, Wei;  Wang, Wei;  Wu, Yang 收藏  |  浏览/下载：5/0  |  提交时间：2025/06/25
	Predicting transcriptional responses to novel chemical perturbations using deep generative model for drug discovery 期刊论文 NATURE COMMUNICATIONS, 2024, 卷号: 15, 期号: 1, 页码: 19 作者:  Qi, Xiaoning;  Zhao, Lianhe;  Tian, Chenyu;  Li, Yueyue;  Chen, Zhen-Lin;  Huo, Peipei;  Chen, Runsheng;  Liu, Xiaodong;  Wan, Baoping;  Yang, Shengyong;  Zhao, Yi 收藏  |  浏览/下载：20/0  |  提交时间：2024/12/06
	GeneCompass: deciphering universal gene regulatory mechanisms with a knowledge-informed cross-species foundation model 期刊论文 CELL RESEARCH, 2024, 页码: 16 作者:  Yang, Xiaodong;  Liu, Guole;  Feng, Guihai;  Bu, Dechao;  Wang, Pengfei;  Jiang, Jie;  Chen, Shubai;  Yang, Qinmeng;  Miao, Hefan;  Zhang, Yiyang;  Man, Zhenpeng;  Liang, Zhongming;  Wang, Zichen;  Li, Yaning;  Li, Zheng;  Liu, Yana;  Tian, Yao;  Liu, Wenhao;  Li, Cong;  Li, Ao;  Dong, Jingxi;  Hu, Zhilong;  Fang, Chen;  Cui, Lina;  Deng, Zixu;  Jiang, Haiping;  Cui, Wentao;  Zhang, Jiahao;  Yang, Zhaohui;  Li, Handong;  He, Xingjian;  Zhong, Liqun;  Zhou, Jiaheng;  Wang, Zijian;  Long, Qingqing;  Xu, Ping;  Wang, Hongmei;  Meng, Zhen;  Wang, Xuezhi;  Wang, Yangang;  Wang, Yong;  Zhang, Shihua;  Guo, Jingtao;  Zhao, Yi;  Zhou, Yuanchun;  Li, Fei;  Liu, Jing;  Chen, Yiqiang;  Yang, Ge;  Li, Xin 收藏  |  浏览/下载：20/0  |  提交时间：2024/12/06
	dbDEMC 3.0: Functional Exploration of Differentially Expressed miRNAs in Cancers of Human and Model Organisms (vol 20, pg 446, 2022) 期刊论文 GENOMICS PROTEOMICS & BIOINFORMATICS, 2024, 卷号: 22, 期号: 1, 页码: 1 作者:  Xu, Feng;  Wang, Yifan;  Ling, Yunchao;  Zhou, Chenfen;  Wang, Haizhou;  Teschendorff, Andrew E.;  Zhao, Yi;  Zhao, Haitao;  He, Yungang;  Zhang, Guoqing;  Yang, Zhen 收藏  |  浏览/下载：49/0  |  提交时间：2024/12/06
	Benchmarking spatial clustering methods with spatially resolved transcriptomics data 期刊论文 NATURE METHODS, 2024, 页码: 25 作者:  Yuan, Zhiyuan;  Zhao, Fangyuan;  Lin, Senlin;  Zhao, Yu;  Yao, Jianhua;  Cui, Yan;  Zhang, Xiao-Yong;  Zhao, Yi 收藏  |  浏览/下载：34/0  |  提交时间：2024/05/20
	Towards interpretable imaging genomics analysis: Methodological developments and applications 期刊论文 INFORMATION FUSION, 2024, 卷号: 102, 页码: 18 作者:  Cen, Xiaoping;  Dong, Wei;  Lv, Wei;  Zhao, Yi;  Dubee, Fred;  Mentis, Alexios-Fotios A.;  Jovic, Dragomirka;  Yang, Huanming;  Li, Yixue 收藏  |  浏览/下载：37/0  |  提交时间：2023/12/04 Interpretability  Imaging genomics  Genotype -phenotype association  Precision medicine