Publications
2014. BlindCall: ultra-fast base-calling of high-throughput sequencing data by blind deconvolution.. Bioinformatics. 30(9):1214-9.
2011. A computational statistics approach for estimating the spatial range of morphogen gradients. Development. 138(22):4867-4874.
2014. Conservation in first introns is positively associated with the number of exons within genes and the presence of regulatory epigenetic signals. BMC Genomics. 15(1):526.
2014. Developmental expression of chicken FOXN1 and putative target genes during feather development.. Int J Dev Biol. 58(1):57-64.
2014. Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition.. Genome Biol. 15(6):R76.
2012. Differential positioning of adherens junctions is associated with initiation of epithelial folding. Nature. 484(7394):390-393.
2011. Direct targeting of Sec23a by miR-200s influences cancer cell secretome and promotes metastatic colonization. Nature Medicine. 17(9):1101-1108.
2013. Distinct Rap1 Activity States Control the Extent of Epithelial Invagination via α-Catenin. Developmental Cell. 25(3):299-309.
2017. Draft Genome Sequences from a Novel Clade of Bacillus cereus sensu lato Strains Isolated from the International Space Station. Genome Announcements. 1:1.
2012. Drosophila Src regulates anisotropic apical surface growth to control epithelial tube size. Nature Cell Biology. 14(5):518-525.
2015. The effects of telomere shortening on cancer cells: a network model of proteomic and microRNA analysis.. Genomics. 105(1):5-16.
2015. Epiviz: a view inside the design of an integrated visual analysis software for genomics. BMC Bioinformatics. 16(Suppl 11):S4.
2014. Epiviz: interactive visual analytics for functional genomics data.. Nat Methods. 11(9):938-40.
2015. Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm.. BMC Bioinformatics. 16:218.
2014. An evaluation of Monte-Carlo logic and logicFS motivated by a study of the regulation of gene expression in heart failure. Journal of Applied Statistics. 41(9):1956-1975.
2015. Evolutionary Conservation of Bacterial Essential Metabolic Genes across All Bacterial Culture Media. PLOS ONE. 10(4):e0123785.
2015. Fumarate induces redox-dependent senescence by modifying glutathione metabolism.. Nat Commun. 6:6001.
2015. Gene Expression Signatures Based on Variability can Robustly Predict Tumor Progression and Prognosis.. Cancer Inform. 14:71-81.
2015. The generation of macrophages with anti-inflammatory activity in the absence of STAT6 signaling.. J Leukoc Biol. 98(3):395-407.
2012. Global secretome analysis identifies novel mediators of bone metastasis. Cell Research. 22(9):1339-1355.
2014. Glycan Degradation (GlyDeR) Analysis Predicts Mammalian Gut Microbiota Abundance and Host Diet-Specific Adaptations. mBio. 5(4):e01526-14-e01526-14.
2006. How A.I. and multi-robot systems research will accelerate our understanding of social animal behavior. Proceedings of the IEEE. 94(7):1445-1463.