A Heuristic Approach for Target SNP Mining Based on Genome-Wide IBD Profile. - Fan Zhang; Xia Li 004; Ivan Viktorovich Krivosheev; Binsheng Gong; Lei Du 002; Chunquan Li 002 (ICNC (5), 2007)

DOSim: An R package for similarity between diseases based on Disease Ontology. - Jiang Li; Bingsheng Gong; Xi Chen; Tao Liu; Chao Wu; Fan Zhang; Chunquan Li 002; Xiang Li; Shaoqi Rao; Xia Li 004 (BMC Bioinform., 2011)

Topologically inferring risk-active pathways toward precise cancer classification by directed random walk. - Wei Liu 187; Chunquan Li 002; Yanjun Xu; Haixiu Yang; Qianlan Yao; Junwei Han 003; Desi Shang; Chunlong Zhang; Fei Su; Xiaoxi Li; Yun Xiao 001; Fan Zhang; et al. (Bioinform., 2013)

Walking the interactome to identify human miRNA-disease associations through the functional link between miRNA targets and disease genes. - Hongbo Shi; Juan Xu 001; Guangde Zhang; Liangde Xu; Chunquan Li 002; Li Wang 164; Zheng Zhao; Wei Jiang 023; Zheng Guo 002; Xia Li 004 (BMC Syst. Biol., 2013)

The detection of risk pathways, regulated by miRNAs, via the integration of sample-matched miRNA-mRNA profiles and pathway structure. - Jing Li 115; Chunquan Li 002; Junwei Han 003; Chunlong Zhang; Desi Shang; Qianlan Yao; Yunpeng Zhang; Yanjun Xu; Wei Liu 187; Meng Zhou 003; Haixiu Yang; Fei Su; et al. (J. Biomed. Informatics, 2014)

Characterizing and optimizing human anticancer drug targets based on topological properties in the context of biological pathways. - Jian Zhang 084; Yan Wang 023; Desi Shang; Fulong Yu; Wei Liu 187; Yan Zhang; Chenchen Feng; Qiuyu Wang; Yanjun Xu; Yuejuan Liu; Xuefeng Bai 002; Xuecang Li; et al. (J. Biomed. Informatics, 2015)

TRCirc: a resource for transcriptional regulation information of circRNAs. - Zhidong Tang; Xuecang Li; Jianmei Zhao; Fengcui Qian; Chenchen Feng; Yanyu Li; Jian Zhang 084; Yong Jiang 004; Yongsan Yang; Qiuyu Wang; Chunquan Li 002 (Briefings Bioinform., 2019)

SEdb: a comprehensive human super-enhancer database. - Yong Jiang 004; Fengcui Qian; Xuefeng Bai 002; Yuejuan Liu; Qiuyu Wang; Bo Ai 005; Xiaole Han; Shanshan Shi; Jian Zhang 084; Xuecang Li; Zhidong Tang; Qi Pan; et al. (Nucleic Acids Res., 2019)

SEanalysis: a web tool for super-enhancer associated regulatory analysis. - Fengcui Qian; Xuecang Li; Jincheng Guo; Jianmei Zhao; Yanyu Li; Zhidong Tang; Liwei Zhou; Jian Zhang 084; Xuefeng Bai 002; Yong Jiang 004; Qi Pan; Qiuyu Wang; et al. (Nucleic Acids Res., 2019)

HiFreSP: A novel high-frequency sub-pathway mining approach to identify robust prognostic gene signatures. - Meng Li; Jianmei Zhao; Xuecang Li; Yang Chen; Chenchen Feng; Fengcui Qian; Yuejuan Liu; Jian Zhang 084; Jianzhong He; Bo Ai 005; Ziyu Ning; Wei Liu 187; et al. (Briefings Bioinform., 2020)

ENdb: a manually curated database of experimentally supported enhancers for human and mouse. - Xuefeng Bai 002; Shanshan Shi; Bo Ai 005; Yong Jiang 004; Yuejuan Liu; Xiaole Han; Mingcong Xu; Qi Pan; Fan Wang 026; Qiuyu Wang; Jian Zhang 084; Xuecang Li; et al. (Nucleic Acids Res., 2020)

KnockTF: a comprehensive human gene expression profile database with knockdown/knockout of transcription factors. - Chenchen Feng; Chao Song; Yuejuan Liu; Fengcui Qian; Yu Gao; Ziyu Ning; Qiuyu Wang; Yong Jiang 004; Yanyu Li; Meng Li; Jiaxin Chen; Jian Zhang 084; et al. (Nucleic Acids Res., 2020)

ComPAT: A Comprehensive Pathway Analysis Tools. - Xiaojie Su; Chao Song; Chenchen Feng; Yu Gao; Ziyu Ning; Qiuyu Wang; Jiaxin Chen; Yuexin Zhang; Ling Wei; Xinyuan Zhou; Chunquan Li 002 (ICIC (3), 2021)

TRlnc: a comprehensive database for human transcriptional regulatory information of lncRNAs. - Yanyu Li; Xuecang Li; Yongsan Yang; Meng Li; Fengcui Qian; Zhidong Tang; Jianmei Zhao; Jian Zhang 084; Xuefeng Bai 002; Yong Jiang 004; Jianyuan Zhou; Yuexin Zhang; et al. (Briefings Bioinform., 2021)

LncSEA: a platform for long non-coding RNA related sets and enrichment analysis. - Jiaxin Chen; Jian Zhang 084; Yu Gao; Yanyu Li; Chenchen Feng; Chao Song; Ziyu Ning; Xinyuan Zhou; Jianmei Zhao; Minghong Feng; Yuexin Zhang; Ling Wei; et al. (Nucleic Acids Res., 2021)

VARAdb: a comprehensive variation annotation database for human. - Qi Pan; Yuejuan Liu; Xuefeng Bai 002; Xiaole Han; Yong Jiang 004; Bo Ai 005; Shanshan Shi; Fan Wang 026; Mingcong Xu; Yuezhu Wang; Jun Zhao; Jiaxin Chen; et al. (Nucleic Acids Res., 2021)

ATACdb: a comprehensive human chromatin accessibility database. - Fan Wang 026; Xuefeng Bai 002; Yuezhu Wang; Yong Jiang 004; Bo Ai 005; Yong Zhang; Yuejuan Liu; Mingcong Xu; Qiuyu Wang; Xiaole Han; Qi Pan; Yanyu Li; et al. (Nucleic Acids Res., 2021)

GREAP: a comprehensive enrichment analysis software for human genomic regions. - Yongsan Yang; Fengcui Qian; Xuecang Li; Yanyu Li; Liwei Zhou; Qiuyu Wang; Xinyuan Zhou; Jian Zhang 084; Chao Song; Zhengmin Yu; Ting Cui; Chenchen Feng; et al. (Briefings Bioinform., 2022)

TcoFBase: a comprehensive database for decoding the regulatory transcription co-factors in human and mouse. - Yuexin Zhang; Chao Song; Yimeng Zhang; Yuezhu Wang; Chenchen Feng; Jiaxin Chen; Ling Wei; Qi Pan; Desi Shang; Yanbing Zhu; Jiang Zhu; Shuangsang Fang; et al. (Nucleic Acids Res., 2022)

MGCT: Mutual-Guided Cross-Modality Transformer for Survival Outcome Prediction using Integrative Histopathology-Genomic Features. - Mingxin Liu; Yunzan Liu; Hui Cui 002; Chunquan Li 002; Jiquan Ma (BIBM, 2023)

SENIES: DNA Shape Enhanced Two-Layer Deep Learning Predictor for the Identification of Enhancers and Their Strength. - Ye Li; Fanhui Kong; Hui Cui 002; Fan Wang 026; Chunquan Li 002; Jiquan Ma (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

CanMethdb: a database for genome-wide DNA methylation annotation in cancers. - Jianmei Zhao; Fengcui Qian; Xuecang Li; Zhengmin Yu; Jiang Zhu; Rui Yu; Yue Zhao; Ke Ding; Yanyu Li; Yongsan Yang; Qi Pan; Jiaxin Chen; et al. (Bioinform., 2023)

SEdb 2.0: a comprehensive super-enhancer database of human and mouse. - Yuezhu Wang; Chao Song; Jun Zhao; Yuexin Zhang; Xilong Zhao; Chenchen Feng; Guorui Zhang; Jiang Zhu; Fan Wang 026; Fengcui Qian; Liwei Zhou; Jian Zhang 084; et al. (Nucleic Acids Res., 2023)

CRdb: a comprehensive resource for deciphering chromatin regulators in human. - Yimeng Zhang; Yuexin Zhang; Chao Song; Xilong Zhao; Bo Ai 001; Yuezhu Wang; Liwei Zhou; Jiang Zhu; Chenchen Feng; Liyan Xu; Qiuyu Wang; Hong Sun; et al. (Nucleic Acids Res., 2023)

SEanalysis 2.0: a comprehensive super-enhancer regulatory network analysis tool for human and mouse. - Fengcui Qian; Li-Wei Zhou; Yanyu Li; Zhengmin Yu; Li-Dong Li; Yuezhu Wang; Mingcong Xu; Qiuyu Wang; Chunquan Li 002 (Nucleic Acids Res., 2023)

PEGCN: A Single-Cell Type Annotation model based on GCN with Pseudo Labels and Ensemble Learning. - Chi Zhu; Fengcui Qian; Yongbin Liu; Ying Yu; Chunquan Li 002; Chunping Ouyang (BIBM, 2024)

ChiMamba: Predicting Chromatin Interactions Based on Mamba. - Jianing Zhang; Chao Song; Ting Cui; Chunquan Li 002; Jiquan Ma (ICIC (LNBI 2), 2024)

FunlncModel: integrating multi-omic features from upstream and downstream regulatory networks into a machine learning framework to identify functional lncRNAs. - Yan-Yu Li; Fengcui Qian; Guo-Rui Zhang; Xue-Cang Li; Li-Wei Zhou; Zheng-Min Yu; Wei Liu 187; Qiu-Yu Wang; Chunquan Li 002 (Briefings Bioinform., 2024)

Uncertainty-driven and Adversarial Calibration Learning for Epicardial Adipose Tissue Segmentation. - Kai Zhao; Zhiming Liu; Jiaqi Liu; Jingbiao Zhou; Bihong Liao; Huifang Tang; Qiuyu Wang; Chunquan Li 002 (CoRR, 2024)