发表论文
(1) Deciphering spatial domains from spatially resolved transcriptomics with an adaptive graph attention auto-encoder, Nature Communications, 2022, (2) 3D Genome of macaque fetal brain reveals evolutionary innovations during primate corticogenesis, CELL, 2021, 通讯作者(3) Bayesian Joint Matrix Decomposition for Data Integration with Heterogeneous Noise, IEEE Trans Pattern Anal Mach Intell, 2021, 通讯作者(4) Towards Understanding of Residual and Mixed-Scale Dense Neural Networks via Convolutional Sparse Coding., National Science Review, 2020, 第 1 作者(5) Circular Trajectory Reconstruction Uncovers Cell‐Cycle Progression and Regulatory Dynamics from Single‐Cell Hi‐C Maps, ADVANCED SCIENCE, 2019, 通讯作者(6) Group-sparse SVD models and their applications in biological data., IEEE Transactions on Knowledge and Data Engineering (TKDE), 2019, 通讯作者(7) Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization, NUCLEIC ACIDS RESEARCH, 2019, 通讯作者(8) MSTD: an efficient method for detecting multi-scale topological domains from symmetric and asymmetric 3D genomic maps, NUCLEIC ACIDS RESEARCH, 2019, 通讯作者(9) A general joint matrix factorization framework for data integration and its systematic algorithmic exploration., IEEE Transactions on Fuzzy Systems (TFS), 2019, 通讯作者(10) Large-scale determination and characterization of cell type-specific regulatory elements in the human genome, JOURNAL OF MOLECULAR CELL BIOLOGY, 2017, 通讯作者(11) Comparative pan-cancer DNA methylation analysis reveals cancer common and specific patterns, BRIEFINGS IN BIOINFORMATICS, 2017, 通讯作者(12) Discovery of cancer common and specific gene sets., Nucleic Acids Research, 2017, 通讯作者(13) Joint modeling of multiple RNA-seq samples for accurate isoform quantification., Annals of Applied Statistics, 2017, 通讯作者(14) Integrative analysis for identifying joint modular patterns of gene-expression and drug-response data, BIOINFORMATICS, 2016, 通讯作者(15) Systematic DNA methylation analysis of multiple cell lines reveals common and specific patterns within and across tissues of origin, HUMAN MOLECULAR GENETICS, 2015, 第 4 作者(16) Profiling the transcription factor regulatory networks of human cell types, NUCLEIC ACIDS RESEARCH, 2014, 第 1 作者(17) Discovery of cell-type specific regulatory elements in the human genome by differential chromatin modification analysis., Nucleic Acids Research, 2013, 通讯作者(18) Efficient methods for identifying mutated driver pathways in cancer, BIOINFORMATICS, 2012, 通讯作者(19) Common community structure in time-varying networks, PHYSICAL REVIEW E, 2012, 通讯作者(20) Discovery of multi-dimensional modules by integrative analysis of cancer genomic data, NUCLEIC ACIDS RESEARCH, 2012, 第 1 作者(21) A novel computational framework for simultaneous integration of multiple functional genomic data to identify microRNA-gene regulatory modules., Bioinformatics, 2011, 第 1 作者(22) Determining modular organization of protein interaction networks by maximizing modularity density, BMC SYSTEMS BIOLOGY, 2010, (23) A fast mathematical programming procedure for simultaneous fitting of assembly components into cryoEM density maps, BIOINFORMATICS, 2010, 第 1 作者