Ie-Ming Shih

Publication Activity (10 Years)

Years Active: 2007-2016
Publications (10 Years): 1

Top Topics

Component Analysis

Biological Networks

Gene Expression

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Comput. Biol. Medicine

Publications

Ibrahim Youssef, Robert Clarke, Ie-Ming Shih, Yue Joseph Wang, Guoqiang Yu
Biologically inspired survival analysis based on integrating gene expression as mediator with genomic variants. Comput. Biol. Medicine 77 (2016)
Niya Wang, Ting Gong, Robert Clarke, Lulu Chen, Ie-Ming Shih, Zhen Zhang, Douglas A. Levine, Jianhua Xuan, Yue Joseph Wang
UNDO: a Bioconductor R package for unsupervised deconvolution of mixed gene expressions in tumor samples. Bioinform. 31 (1) (2015)
Ye Tian, Bai Zhang, Eric P. Hoffman, Robert Clarke, Zhen Zhang, Ie-Ming Shih, Jianhua Xuan, David M. Herrington, Yue Joseph Wang
KDDN: an open-source Cytoscape app for constructing differential dependency networks with significant rewiring. Bioinform. 31 (2) (2015)
Bai Zhang, Xuchu Hou, Xiguo Yuan, Ie-Ming Shih, Zhen Zhang, Robert Clarke, Roger R. Wang, Yi Fu, Subha Madhavan, Yue Joseph Wang, Guoqiang Yu
AISAIC: a software suite for accurate identification of significant aberrations in cancers. Bioinform. 30 (3) (2014)
Ye Tian, Sean S. Wang, Zhen Zhang, Olga C. Rodriguez, Emanuel Petricoin III, Ie-Ming Shih, Daniel Chan, Maria Avantaggiati, Guoqiang Yu, Shaozhen Ye, Robert Clarke, Chao Wang, Bai Zhang, Yue Joseph Wang, Chris Albanese
Integration of Network Biology and Imaging to Study Cancer Phenotypes and Responses. IEEE ACM Trans. Comput. Biol. Bioinform. 11 (6) (2014)
Ye Tian, Bai Zhang, Eric P. Hoffman, Robert Clarke, Zhen Zhang, Ie-Ming Shih, Jianhua Xuan, David M. Herrington, Yue Joseph Wang
Knowledge-fused differential dependency network models for detecting significant rewiring in biological networks. BMC Syst. Biol. 8 (2014)
Jinghua Gu, Jianhua Xuan, Chen Wang, Li Chen, Tian-Li Wang, Ie-Ming Shih
Detecting aberrant signal transduction pathways from high-throughput data using GIST algorithm. CIBCB (2012)
Li Chen, Jianhua Xuan, Jinghua Gu, Yue Wang, Zhen Zhang, Tian-Li Wang, Ie-Ming Shih
Integrative Network Analysis to Identify Aberrant Pathway Networks in Ovarian Cancer. Pacific Symposium on Biocomputing (2012)
Chen Wang, Jianhua Xuan, Ie-Ming Shih, Robert Clarke, Yue Joseph Wang
Regulatory component analysis: A semi-blind extraction approach to infer gene regulatory networks with imperfect biological knowledge. Signal Process. 92 (8) (2012)
Xuchu Hou, Guoqiang Yu, Xiguo Yuan, Bai Zhang, Ie-Ming Shih, Zhen Zhang, Robert Clarke, Subha Madhavan
Accurate identification of significant aberrations in contaminated cancer genome. GENSiPS (2012)
Jinghua Gu, Chen Wang, Ie-Ming Shih, Tian-Li Wang, Yue Wang, Robert Clarke, Jianhua Xuan
GIST: A Gibbs sampler to identify intracellular signal transduction pathways. EMBC (2011)
Guoqiang Yu, Bai Zhang, G. Steven Bova, Jianfeng Xu, Ie-Ming Shih, Yue Joseph Wang
detection of genomic deletion types and correction of normal cell contamination in copy number data. Bioinform. 27 (11) (2011)
Bai Zhang, Ye Tian, Lu Jin, Huai Li, Ie-Ming Shih, Subha Madhavan, Robert Clarke, Eric P. Hoffman, Jianhua Xuan, Leena Hilakivi-Clarke, Yue Joseph Wang
analytical tool for differential network analysis. Bioinform. 27 (7) (2011)
Guoqiang Yu, Huai Li, Sook S. Ha, Ie-Ming Shih, Robert Clarke, Eric P. Hoffman, Subha Madhavan, Jianhua Xuan, Yue Joseph Wang
analytical tool for multiclass gene selection and predictive classification. Bioinform. 27 (5) (2011)
Ye Tian, Bai Zhang, Ie-Ming Shih, Yue Joseph Wang
Knowledge-guided differential dependency network learning for detecting structural changes in biological networks. BCB (2011)
Yuanjian Feng, Guoqiang Yu, Tian-Li Wang, Ie-Ming Shih, Yue Joseph Wang
Analysing DNA copy number changes using Fused Margin Regression. Int. J. Funct. Informatics Pers. Medicine 3 (1) (2010)
Guoqiang Yu, Yuanjian Feng, David J. Miller, Jianhua Xuan, Eric P. Hoffman, Robert Clarke, Ben Davidson, Ie-Ming Shih, Yue Joseph Wang
Matched Gene Selection and Committee Classifier for Molecular Classification of Heterogeneous Diseases. J. Mach. Learn. Res. 11 (2010)
Li Chen, Jianhua Xuan, Chen Wang, Yue Joseph Wang, Ie-Ming Shih, Tian-Li Wang, Zhen Zhang, Robert Clarke, Eric P. Hoffman
Biomarker identification by knowledge-driven multilevel ICA and motif analysis. Int. J. Data Min. Bioinform. 3 (4) (2009)
Yuanjian Feng, Guoqiang Yu, Tian-Li Wang, Ie-Ming Shih, Yue Joseph Wang
Analyzing DNA Copy Number Changes Using Fused Margin Regression. BIBM (2009)
Guoqiang Yu, Bai Zhang, Jianfeng Xu, Ie-Ming Shih, Yue Joseph Wang
Accurate Estimation of Genomic Deletions and Normal Cell Contamination by Bayesian Analysis of Mixtures. BIBM (2009)
Li Chen, Jianhua Xuan, Chen Wang, Ie-Ming Shih, Yue Joseph Wang, Zhen Zhang, Eric P. Hoffman, Robert Clarke
Knowledge-guided multi-scale independent component analysis for biomarker identification. BMC Bioinform. 9 (2008)
Li Chen, Chen Wang, Ie-Ming Shih, Tian-Li Wang, Zhen Zhang, Yue Joseph Wang, Robert Clarke, Eric P. Hoffman, Jianhua Xuan
Biomarker Identification by Knowledge-Driven Multi-Level ICA and Motif Analysis. ICMLA (2007)