Journal Articles:

J. Duitama and J. Kennedy and S. Dinakar and Y. Hernandez and Y. Wu and I.I. Mandoiu, Linkage Disequilibrium Based Genotype Calling from Low-Coverage Shotgun Sequencing Reads, BMC Bioinformatics 12(Suppl 1):S53, 2011, pdf preprint, publisher url, bibtex

Ph.D. Theses:

J. Kennedy, Efficient Algorithms for SNP Genotype Data Analysis using Hidden Markov Models of Haplotype Diversity, University of Connecticut, Storrs, CT, Dec., 2009, pdf preprint, ppt, bibtex