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Anytime exploration for multi-armed bandits using confidence information. Jun K-S, Nowak R. Proceedings of the 33rd International Conference on Machine Learning (ICML), 2016.

A multi-task graph-clustering approach for chromosome conformation capture data sets identifies conserved modules of chromosomal interactions. Siahpirani A, Ay F, Roy S. Genome Biology 17:114, 2016.

A MAD-Bayes algorithm for state-space inference and clustering with application to querying large collections of ChIP-seq data sets. Zuo C, Chen K, Keles S. Proceedings of the 20th Annual International Conference on Research in Computational Molecular Biology (RECOMB), 2016.

Distance shrinkage and Euclidean embedding via regularized kernel estimation. Zhang L, Wahba G, Yuan M. Journal of the Royal Statistical Society B, doi:DOI: 10.1111/rssb.12138, 2016.

OEFinder: a user interface to identify and visualize ordering effects in single-cell RNA-seq data. Leng N, Choi J, Chu LF, Thomson JA, Kendziorski C, Stewart R. Bioinformatics 32(9):1408-10, 2016.

Comparing mammography abnormality features to genetic variants in the prediction of breast cancer in women recommended for breast biopsy. Burnside ES, Liu J, Wu Y, Onitilo AA, McCarty CA, Page CD, Peissig PL, Trentham-Dietz A, Kitchner T, Fan J, Yuan M. Academic Radiology 23(1):62–69, 2016.

On statistical analysis of neuroimages with imperfect registration. Kim WH, Ravi SN, Okonkwo OC Johnson SC, Singh V. Proceedings of International Conference on Computer Vision, 2015.

A projection free method for generalized eigenvalue problems with a nonsmooth regularizer. Hwang SJ, Collins MD, Ravi SN, Ithapu VK, Adluru N, Johnson SC, Singh V. Proceedings of International Conference on Computer Vision, 2015.

A predictive modeling approach for cell line-specific long-range regulatory interactions. Roy S, Siahpirani AF, Chasman D, Knaack S, Ay F, Stewart R, Wilson M, Sridharan R. Nucleic Acids Research 43(18):8694-8712, 2015.

atSNP: transcription factor binding affinity testing for regulatory SNP detection. Zuo C, Shin S, Keles S. Bioinformatics 31(20):3353-5, 2015.

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