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张学工 (Xuegong Zhang)

Tsinghua University

54H-index
368Paper Count
1.9WCitation Count
Published Papers 107
Publication Date
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hECA v2.0: an AI-ready ensemble cell atlas of single-cell RNA and ATAC sequencing data
err2025-12-15
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errOAAI
errXi Xi; Yixin Chen; Xinze Wu; Minsheng Hao; Jiaqi Li; Haiyang Bian; Qiuchen Meng; Fanhong Li; Chen Li; Chuxi Xiao; Xiaomin Dong; Renke You; Yifan Xiong; Peng Yang; Zijing Gao; Xuejian Cui; Yan Pan; Zhen Li; Wenrui Li; Zhuofeng Li; Xiaoyang Chen; Yanfei Cui; Hairong Lv; Rui Jiang; Lei Wei; Xuegong Zhang
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ERNIE-RNA: an RNA language model with structure-enhanced representations
err2025-11-18
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errOAAI
errWeijie Yin; Zhaoyu Zhang; Shuo Zhang; Liang He; Ruiyang Zhang; Rui Jiang; Gan Liu; Jingyi Wang; Xuegong Zhang; Tao Qin; Zhen Xie
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A unified single-cell atlas of human lung provides insights into pulmonary diseases
err2025-11-13
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errOAAI
errFanjie Wu; Wenhao Cai; Hai Tang; Shikang Zheng; Haiyue Zhang; Yixin Chen; Yutong Han; Dingli Zhou; Ruihan Wang; Mingli Ye; Renke You; Amin Chen; Jiaqi Li; Xuegong Zhang; Weizhong Li
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Multitemporal single-cell profiling uncovers alveolar IL1βhi neutrophils: A significant indicator of CARDS progression
err2025-09-25
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errOAAI
errYingying Yang; Haochen Li; Peng Liu; Jinmeng Jia; Lei Wei; Xiangyu Chen; Ziqi Tan; Hantian Li; Qianlin Wang; Siyi Yuan; Liangyu Mi; Yuechuan Xue; Yi Chi; Shuaishuai Yang; Yanjie Zhao; Huaiwu He; Xuegong Zhang; Longxiang Su; Yun Long
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Elevated Dickkopf 3 Promotes Abdominal Aortic Aneurysm Formation via Modulated Phenotype Switch of Vascular Smooth Muscle Cells
errResearch
IF10.7
err2025-09-11
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errXuejie Cao; Jinmeng Jia; Qiuyue Gao; Jiaping Tao; Ming Wei; Yanting Song; Hong Wu; Shiyu Jiao; Xinxin Zhu; Xuegong Zhang; Yi Fu; Yuan Wang; Jie Du; Qingbo Xu; Aijuan Qu; Baoqi Yu
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Label Informed Contrastive Pretraining for Node Importance Estimation on Knowledge Graphs
err2025-03-01
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errOAAI
errZhang, Tianyu; Hou, Chengbin; Jiang, Rui; Zhang, Xuegong; Zhou, Chenghu; Tang, Ke; Lv, Hairong
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A phenotype-based AI pipeline outperforms human experts in differentially diagnosing rare diseases using EHRs
err2025-01-28
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errMao, Xiaohao; Huang, Yu; Jin, Ye; Wang, Lun; Chen, Xuanzhong; Liu, Honghong; Yang, Xinglin; Xu, Haopeng; Luan, Xiaodong; Xiao, Ying; Feng, Siqin; Zhu, Jiahao; Zhang, Xuegong; Jiang, Rui; Chen, Ting
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Weakly Supervised Causal Discovery Based on Fuzzy Knowledge and Complex Data Complementarity
err2024-12-01
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PREAI
errLi, Wenrui; Zhang, Wei; Zhang, Qinghao; Zhang, Xuegong; Wang, Xiaowo
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Dynamic regulation of innate lymphoid cell development during ontogeny
err2024-12-01
err1
errOAAI
errWu, Tao; Chen, Sijie; Zhu, Xinyi; Ma, Jie; Luo, Maocai; Wang, Yuanhao; Tian, Yujie; Sun, Qingqing; Guo, Xiaohuan; Zhang, Jianhong; Zhang, Xuegong; Zhu, Yunping; Wu, Li
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scStateDynamics: deciphering the drug-responsive tumor cell state dynamics by modeling single-cell level expression changes
err2024-11-21
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errGuo, Wenbo; Li, Xinqi; Wang, Dongfang; Yan, Nan; Hu, Qifan; Yang, Fan; Zhang, Xuegong; Yao, Jianhua; Gu, Jin
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scTML: a pan-cancer single-cell landscape of multiple mutation types
err2024-10-18
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errLi, Haochen; Ma, Tianxing; Zhao, Zetong; Chen, Yixin; Xi, Xi; Zhao, Xiaofei; Zhou, Xiaoxiang; Gao, Yibo; Wei, Lei; Zhang, Xuegong
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General-purpose pre-trained large cellular models for single-cell transcriptomics
err2024-09-25
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errBian, Haiyang; Chen, Yixin; Luo, Erpai; Wu, Xinze; Hao, Minsheng; Wei, Lei; Zhang, Xuegong
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Building a learnable universal coordinate system for single-cell atlas with a joint-VAE model
err2024-08-12
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errOAAI
errGao, Haoxiang; Hua, Kui; Wu, Xinze; Wei, Lei; Chen, Sijie; Yin, Qijin; Jiang, Rui; Zhang, Xuegong
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A brain cell atlas integrating single-cell transcriptomes across human brain regions
err2024-08-02
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errOAAI
errChen, Xinyue; Huang, Yin; Huang, Liangfeng; Huang, Ziliang; Hao, Zhao-Zhe; Xu, Lahong; Xu, Nana; Li, Zhi; Mou, Yonggao; Ye, Mingli; You, Renke; Zhang, Xuegong; Liu, Sheng; Miao, Zhichao
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A transformer-based weakly supervised computational pathology method for clinical-grade diagnosis and molecular marker discovery of gliomas
err2024-07-18
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PREAI
errJiang, Rui; Yin, Xiaoxu; Yang, Pengshuai; Cheng, Lingchao; Hu, Juan; Yang, Jiao; Wang, Ying; Fu, Xiaodan; Shang, Li; Li, Liling; Lin, Wei; Zhou, Huan; Chen, Fufeng; Zhang, Xuegong; Hu, Zhongliang; Lv, Hairong
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Reciprocal regulation of T follicular helper cells and dendritic cells drives colitis development
err2024-06-28
err1
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errBai, Xue; Chen, Sijie; Chi, Xinxin; Xie, Bowen; Guo, Xinyi; Feng, Han; Wei, Peng; Zhang, Di; Xie, Shan; Xie, Tian; Chen, Yongzhen; Gou, Mengting; Qiao, Qin; Liu, Xinwei; Jin, Wei; Xu, Wei; Zhao, Zixuan; Xing, Qi; Wang, Xiaohu; Zhang, Xuegong; Dong, Chen
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Large-scale foundation model on single-cell transcriptomics
err2024-06-06
err27
PREAI
errHao, Minsheng; Gong, Jing; Zeng, Xin; Liu, Chiming; Guo, Yucheng; Cheng, Xingyi; Wang, Taifeng; Ma, Jianzhu; Zhang, Xuegong; Song, Le
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Single-cell profiling highlight pathogenic myeloid features in house dust mite-induced murine model of airway inflammation
err2024-05-13
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PREAI
errLiu, Jiachen; Lv, Jiaoyan; Chen, Sijie; Ma, Jie; Yao, Jiaying; Yuan, Zan; Yang, Chunyuan; Li, Xiao; Zhang, Xuegong; Zhu, Yunping; Zhang, Jianhong; Wu, Li
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Research Directions

生命基础模型与数基生命系统机器学习与生物医学大数据分析单细胞生物信息学、人体细胞图谱与数字孪生