Ie-Ming Shih

According to our database, Ie-Ming Shih authored at least 22 papers between 2007 and 2016.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2016

Biologically inspired survival analysis based on integrating gene expression as mediator with genomic variants.

Ibrahim Youssef, Robert Clarke, Ie-Ming Shih, Yue Joseph Wang, Guoqiang Yu

Comput. Biol. Medicine, 2016

2015

UNDO: a Bioconductor R package for unsupervised deconvolution of mixed gene expressions in tumor samples.

Niya Wang, Ting Gong, Robert Clarke, Lulu Chen, Ie-Ming Shih, Zhen Zhang, Douglas A. Levine, Jianhua Xuan, Yue Joseph Wang

Bioinform., 2015

KDDN: an open-source Cytoscape app for constructing differential dependency networks with significant rewiring.

Ye Tian, Bai Zhang, Eric P. Hoffman, Robert Clarke, Zhen Zhang, Ie-Ming Shih, Jianhua Xuan, David M. Herrington, Yue Joseph Wang

Bioinform., 2015

2014

Integration of Network Biology and Imaging to Study Cancer Phenotypes and Responses.

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

IEEE ACM Trans. Comput. Biol. Bioinform., 2014

Knowledge-fused differential dependency network models for detecting significant rewiring in biological networks.

Ye Tian, Bai Zhang, Eric P. Hoffman, Robert Clarke, Zhen Zhang, Ie-Ming Shih, Jianhua Xuan, David M. Herrington, Yue Joseph Wang

BMC Syst. Biol., 2014

AISAIC: a software suite for accurate identification of significant aberrations in cancers.

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

Bioinform., 2014

2012

Regulatory component analysis: A semi-blind extraction approach to infer gene regulatory networks with imperfect biological knowledge.

Chen Wang, Jianhua Xuan, Ie-Ming Shih, Robert Clarke, Yue Joseph Wang

Signal Process., 2012

Integrative Network Analysis to Identify Aberrant Pathway Networks in Ovarian Cancer.

Li Chen, Jianhua Xuan, Jinghua Gu, Yue Wang, Zhen Zhang, Tian-Li Wang, Ie-Ming Shih

Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012

Accurate identification of significant aberrations in contaminated cancer genome.

Xuchu Hou, Guoqiang Yu, Xiguo Yuan, Bai Zhang, Ie-Ming Shih, Zhen Zhang, Robert Clarke, Subha Madhavan

Proceedings of the Proceedings 2012 IEEE International Workshop on Genomic Signal Processing and Statistics, 2012

Detecting aberrant signal transduction pathways from high-throughput data using GIST algorithm.

Jinghua Gu, Jianhua Xuan, Chen Wang, Li Chen, Tian-Li Wang, Ie-Ming Shih

Proceedings of the 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2012

2011

DDN: a caBIG^® analytical tool for differential network analysis.

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

Bioinform., 2011

BACOM: <i>in silico</i> detection of genomic deletion types and correction of normal cell contamination in copy number data.

Guoqiang Yu, Bai Zhang, G. Steven Bova, Jianfeng Xu, Ie-Ming Shih, Yue Joseph Wang

Bioinform., 2011

PUGSVM: a caBIG^TM analytical tool for multiclass gene selection and predictive classification.

Guoqiang Yu, Huai Li, Sook S. Ha, Ie-Ming Shih, Robert Clarke, Eric P. Hoffman, Subha Madhavan, Jianhua Xuan, Yue Joseph Wang

Bioinform., 2011

GIST: A Gibbs sampler to identify intracellular signal transduction pathways.

Jinghua Gu, Chen Wang, Ie-Ming Shih, Tian-Li Wang, Yue Wang, Robert Clarke, Jianhua Xuan

Proceedings of the 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2011

Knowledge-guided differential dependency network learning for detecting structural changes in biological networks.

Ye Tian, Bai Zhang, Ie-Ming Shih, Yue Joseph Wang

Proceedings of the ACM International Conference on Bioinformatics, 2011

2010

Matched Gene Selection and Committee Classifier for Molecular Classification of Heterogeneous Diseases.

Guoqiang Yu, Yuanjian Feng, David J. Miller, Jianhua Xuan, Eric P. Hoffman, Robert Clarke, Ben Davidson, Ie-Ming Shih, Yue Joseph Wang

J. Mach. Learn. Res., 2010

Analysing DNA copy number changes using Fused Margin Regression.

Yuanjian Feng, Guoqiang Yu, Tian-Li Wang, Ie-Ming Shih, Yue Joseph Wang

Int. J. Funct. Informatics Pers. Medicine, 2010

2009

Biomarker identification by knowledge-driven multilevel ICA and motif analysis.

Li Chen, Jianhua Xuan, Chen Wang, Yue Joseph Wang, Ie-Ming Shih, Tian-Li Wang, Zhen Zhang, Robert Clarke, Eric P. Hoffman

Int. J. Data Min. Bioinform., 2009

Accurate Estimation of Genomic Deletions and Normal Cell Contamination by Bayesian Analysis of Mixtures.

Guoqiang Yu, Bai Zhang, Jianfeng Xu, Ie-Ming Shih, Yue Joseph Wang

Proceedings of the 2009 IEEE International Conference on Bioinformatics and Biomedicine, 2009

Analyzing DNA Copy Number Changes Using Fused Margin Regression.

Yuanjian Feng, Guoqiang Yu, Tian-Li Wang, Ie-Ming Shih, Yue Joseph Wang

Proceedings of the 2009 IEEE International Conference on Bioinformatics and Biomedicine, 2009

2008

Knowledge-guided multi-scale independent component analysis for biomarker identification.

Li Chen, Jianhua Xuan, Chen Wang, Ie-Ming Shih, Yue Joseph Wang, Zhen Zhang, Eric P. Hoffman, Robert Clarke

BMC Bioinform., 2008

2007

Biomarker Identification by Knowledge-Driven Multi-Level ICA and Motif Analysis.

Li Chen, Chen Wang, Ie-Ming Shih, Tian-Li Wang, Zhen Zhang, Yue Joseph Wang, Robert Clarke, Eric P. Hoffman, Jianhua Xuan

Proceedings of the Sixth International Conference on Machine Learning and Applications, 2007