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Interaction-based transcriptome analysis via differential network inference 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2022, 页码: 11
作者:  Leng, Jiacheng;  Wu, Ling-Yun
收藏  |  浏览/下载：46/0  |  提交时间：2023/02/07
differential network inference  differential expression analysis  interaction-based transcriptome analysis  
hDirect-MAP: projection-free single-cell modeling of response to checkpoint immunotherapy 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2022, 卷号: 23, 期号: 2, 页码: 16
作者:  Lu, Yong;  Xue, Gang;  Zheng, Ningbo;  Han, Kun;  Yang, Wenzhong;  Wang, Rui-Sheng;  Wu, Lingyun;  Miller, Lance D.;  Pardee, Timothy;  Triozzi, Pierre L.;  Lo, Hui-Wen;  Watabe, Kounosuke;  Wong, Stephen T. C.;  Pasche, Boris C.;  Zhang, Wei;  Jin, Guangxu
收藏  |  浏览/下载：119/0  |  提交时间：2023/02/07
single-cell RNA sequencing (scRNA-seq)  single-cell mass cytometry (CyTOF)  Pareto optimization  projection-free single-cell modeling  response to immune checkpoint blockade  
Importance-Penalized Joint Graphical Lasso (IPJGL): differential network inference via GGMs 期刊论文
BIOINFORMATICS, 2022, 卷号: 38, 期号: 3, 页码: 770-777
作者:  Leng, Jiacheng;  Wu, Ling-Yun
收藏  |  浏览/下载：141/0  |  提交时间：2022/04/02
Discovering cooperative biomarkers for heterogeneous complex disease diagnoses 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2019, 卷号: 20, 期号: 1, 页码: 89-101
作者:  Sun, Duanchen;  Ren, Xianwen;  Ari, Eszter;  Korcsmaros, Tamas;  Csermely, Peter;  Wu, Ling-Yun
收藏  |  浏览/下载：285/0  |  提交时间：2019/03/05
heterogeneous diseases  cancer biomarker  network-based  cooperative biomarker  gene expression  
NetGen: a novel network-based probabilistic generative model for gene set functional enrichment analysis 期刊论文
BMC SYSTEMS BIOLOGY, 2017, 卷号: 11, 页码: 14
作者:  Sun, Duanchen;  Liu, Yinliang;  Zhang, Xiang-Sun;  Wu, Ling-Yun
收藏  |  浏览/下载：131/0  |  提交时间：2018/07/30
Gene ontology  Enrichment analysis  Network-based probabilistic generative model  Integer programming  Complex diseases  
Structure alignment-based classification of RNA-binding pockets reveals regional RNA recognition motifs on protein surfaces 期刊论文
BMC BIOINFORMATICS, 2017, 卷号: 18, 页码: 13
作者:  Liu, Zhi-Ping;  Liu, Shutang;  Chen, Ruitang;  Huang, Xiaopeng;  Wu, Ling-Yun
收藏  |  浏览/下载：142/0  |  提交时间：2018/07/30
RNA-binding pocket  Local structure classification  Structural alignment  Network clustering  Structure motif  
Phogly-PseAAC: Prediction of lysine phosphoglycerylation in proteins incorporating with position-specific propensity 期刊论文
JOURNAL OF THEORETICAL BIOLOGY, 2015, 卷号: 379, 页码: 10-15
作者:  Xu, Yan;  Ding, Ya-Xin;  Ding, Jun;  Wu, Ling-Yun;  Deng, Nai-Yang
收藏  |  浏览/下载：132/0  |  提交时间：2018/07/30
Amino acid propensity  F-score  Phosphoglycerylation  
Corbi: a new R package for biological network alignment and querying 期刊论文
BMC Systems Biology, 2013, 卷号: 7, 期号: Suppl 2
作者:  Huang,Qiang;  Wu,Ling-Yun;  Zhang,Xiang-Sun
收藏  |  浏览/下载：146/0  |  提交时间：2018/07/30
An efficient network querying method based on conditional random fields 期刊论文
BIOINFORMATICS, 2011, 卷号: 27, 期号: 22, 页码: 3173-3178
作者:  Huang, Qiang;  Wu, Ling-Yun;  Zhang, Xiang-Sun
收藏  |  浏览/下载：126/0  |  提交时间：2018/07/30
Semi-supervised drug-protein interaction prediction from heterogeneous biological spaces 期刊论文
BMC SYSTEMS BIOLOGY, 2010, 卷号: 4, 页码: 12
作者:  Xia, Zheng;  Wu, Ling-Yun;  Zhou, Xiaobo;  Wong, Stephen T. C.
收藏  |  浏览/下载：129/0  |  提交时间：2018/07/30