Publications
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2016. Genome-scale study reveals reduced metabolic adaptability in patients with non-alcoholic fatty liver disease. Nature Communications. 7:8994.
2016. Heterogeneity of transcription factor binding specificity models within and across cell lines. Genome Research. :gr.199166.115.
2016. Identification and genomic analysis of a novel group C orthobunyavirus isolated from a mosquito captured near Iquitos, Peru. PLoS Negl Trop Dis. 10:e0004440.
2016. Identification guide to the heterobranch sea slugs (Mollusca: Gastropoda) from Bocas del Toro, Panama. Marine Biodiversity Records. 96737453830254034557880541418411912544728739317415779780725696418782226404216145163412560451520488424050829677(12343–4)
2016. The fruRBA Operon Is Necessary for Group A Streptococcal Growth in Fructose and for Resistance to Neutrophil Killing during Growth in Whole Human Blood. Infection and Immunity. 84(4):1016-1031.
2016. Individual-specific changes in the human gut microbiota after challenge with enterotoxigenic Escherichia coli and subsequent ciprofloxacin treatment. BMC Genomics. 17183412111831230710512122489914142853341501081566039108377115651846133171373920352123327102188151723(1326124105778571763174155114260523Suppl 1611Suppl 26-7Suppl 197591Pt 11321131 Suppl241Database issue1612210375335)
2016. A joint analysis of transcriptomic and metabolomic data uncovers enhanced enzyme-metabolite coupling in breast cancer.. Sci Rep. 6:29662.
2016. Limitations of Current Approaches for Reference-Free, Graph-Based Variant Detection. the 7th ACM International ConferenceProceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics - BCB '16.
2016. Longitudinal analysis of the lung microbiota of cynomolgous macaques during long-term SHIV infection. Microbiome. 4320384718719152130282021211818418719223326578105723(158836212108125732558101131110121arXiv:1006.3316)
2016. Mash: fast genome and metagenome distance estimation using MinHash. Genome Biology. (1Suppl 19)
2016. methylFlow: cell-specific methylation pattern reconstruction from high-throughput bisulfite-converted DNA sequencing. Bioinformatics. 32(11):1618-1624.
2016. A pathway-centric view of spatial proximity in the 3D nucleome across cell lines. Scientific Reports. 6:39279.
2016. A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity. npj Biofilms and Microbiomes. 2:16004.
2016. Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins. Nature Communications. 7:13570.
2016. Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in E. coli.. PLoS Comput Biol. 12(1):e1004705.
2016. System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.. Cell Syst. 2(3):172-84.
2016. Transcriptome Remodeling in Trypanosoma cruzi and Human Cells during Intracellular Infection.. PLoS Pathog. 12(4):e1005511.
2017. Draft Genome Sequences from a Novel Clade of Bacillus cereus sensu lato Strains Isolated from the International Space Station. Genome Announcements. 1:1.