Scalable multiple global network alignment for biological data. - Yu-Keng Shih; Srinivasan Parthasarathy 001 (BCB, 2011)

A single source k-shortest paths algorithm to infer regulatory pathways in a gene network. - Yu-Keng Shih; Srinivasan Parthasarathy 001 (Bioinform., 2012)

Identifying functional modules in interaction networks through overlapping Markov clustering. - Yu-Keng Shih; Srinivasan Parthasarathy 001 (Bioinform., 2012)

Scalable global alignment for multiple biological networks. - Yu-Keng Shih; Srinivasan Parthasarathy 001 (BMC Bioinform., 2012)

Identifying protein complexes in AP-MS data with negative evidence via soft Markov clustering. - Yu-Keng Shih; Srinivasan Parthasarathy 001 (BCB, 2013)

Component Detection in Directed Networks. - Yu-Keng Shih; Sungmin Kim; Yiye Ruan; Jinxing Cheng; Rohit Kumar 006; Tao Shi; Srinivasan Parthasarathy 001 (CIKM, 2014)

Leveraging a Graph-Powered, Real-Time Recommendation Engine to Create Rapid Business Value. - Adam Anthony; Yu-Keng Shih; Ruoming Jin; Yang Xiang (RecSys, 2016)