基因差异共表达及差异调控分析 DCGL v2.0: An R Package for Unveiling Differential Regulation from Differential Co-expression. PLoS ONE. 2013 Link-based Quantitative Methods to Identify Differentially Coexpressed Genes and Gene Pairs. BMC Bioinformatics. 2011 DCGL: an R package for identifying differentially coexpressed genes and links from gene expression microarray data. Bioinformatics 2010 Differential regulation analysis reveals dysfunctional regulatory mechanism involving transcription factors and microRNAs in gastric carcinogenesis. Artificial Intelligence in Medicine. 2017 A novel integrated gene coexpression analysis approach reveals a prognostic three-transcription-factor signature for glioma molecular subtypes. BMC Systems Biology. 2016 Differential network analysis reveals dysfunctional regulatory networks in gastric carcinogenesis.Am J Cancer Res. 2015 Dynamic protein interaction modules in human hepatocellular carcinoma progression.BMC Systems Biology. 2013 基因调控网络模拟分析 cGRNB: a web server for building combinatorial gene regulatory networks through integrated engineering of seed-matching sequence information and gene expression datasets. BMC Systems Biology 2013 Combinatorial Network of Transcriptional Regulation and microRNA Regulation in Human Cancer. BMC Systems Biology. 2012 Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms. Nucleic Acids Research. 2009 基于异常调控机制的疾病组学 DNetDB: The human disease network database based on dysfunctional regulation mechanism. BMC Systems Biology 2016 DSviaDRM: an R package for estimating disease similarity via dysfunctional regulation mechanism. Bioinformatics. 2015 The human disease network in terms of dysfunctional regulatory mechanisms. Biology Direct. 2015 头对头基因组织结构的进化、功能、转录调控研究 Transcriptional regulation and spatial interactions of head-to-head genes. BMC Genomics 2014 Sorting Out Inherent Features of Head-to-Head Gene Pairs by Evolutionary Conservation. BMC Bioinformatics. 2010 DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels. Database. 2009 Systematic analysis of head-to-head gene organization: evolutionary conservation and potential biological relevance.PLoS Computational Biology. 2006 定量蛋白质相互作用界面残基偏好索引 Wentao Dai#, Aiping Wu#, Liangxiao Ma, Yi-Xue Li, Taijiao Jiang*, Yuan-Yuan Li*. A novel index of protein-protein interface propensity improves interface residue recognition. BMC Systems Biology. 2016. 10(Suppl 4) :112.doi: 10.1186/s12918-016-0351-7
基因调控网络模拟分析 cGRNB: a web server for building combinatorial gene regulatory networks through integrated engineering of seed-matching sequence information and gene expression datasets. BMC Systems Biology 2013 Combinatorial Network of Transcriptional Regulation and microRNA Regulation in Human Cancer. BMC Systems Biology. 2012 Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms. Nucleic Acids Research. 2009
基于异常调控机制的疾病组学 DNetDB: The human disease network database based on dysfunctional regulation mechanism. BMC Systems Biology 2016 DSviaDRM: an R package for estimating disease similarity via dysfunctional regulation mechanism. Bioinformatics. 2015 The human disease network in terms of dysfunctional regulatory mechanisms. Biology Direct. 2015
头对头基因组织结构的进化、功能、转录调控研究 Transcriptional regulation and spatial interactions of head-to-head genes. BMC Genomics 2014 Sorting Out Inherent Features of Head-to-Head Gene Pairs by Evolutionary Conservation. BMC Bioinformatics. 2010 DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels. Database. 2009 Systematic analysis of head-to-head gene organization: evolutionary conservation and potential biological relevance.PLoS Computational Biology. 2006
定量蛋白质相互作用界面残基偏好索引 Wentao Dai#, Aiping Wu#, Liangxiao Ma, Yi-Xue Li, Taijiao Jiang*, Yuan-Yuan Li*. A novel index of protein-protein interface propensity improves interface residue recognition. BMC Systems Biology. 2016. 10(Suppl 4) :112.doi: 10.1186/s12918-016-0351-7
