Publications
2002. Identification of transcription factor binding sites in the human genome sequence. Mammalian GenomeMammalian Genome. 13
2001. Enrichment of Regulatory Signals in Conserved Non-Coding Genomic Sequence. BioinformaticsBioinformaticsBioinformaticsBioinformatics. 17
2006. Retroviral DNA integration: viral and cellular determinants of target-site selection. PLoS pathogensPLoS pathogens. 2
2005. Genome-Wide Analysis of Chromosomal Features Repressing Human Immunodeficiency Virus Transcription. Journal of VirologyJ. Virol.Journal of VirologyJ. Virol.. 79
2016. Transcriptome Remodeling in Trypanosoma cruzi and Human Cells during Intracellular Infection.. PLoS Pathog. 12(4):e1005511.
2012. Myocardin-like Protein (MKL)-2 Regulates TGF-beta Signaling. Embryonic Stem Cells and the Developing Vasculature DevelopmentEmbryonic Stem Cells and the Developing Vasculature Development.
2012. AGORA: Assembly Guided by Optical Restriction Alignment. BMC bioinformaticsBMC Bioinformatics. 13
2013. Quantitative PCR for Detection of Shigella Improves Ascertainment of Shigella Burden in Children with Moderate-to-Severe Diarrhea in Low-Income Countries. Journal of Clinical MicrobiologyJournal of Clinical Microbiology. 51
2015. Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.
2013. Survey of Culture, GoldenGate Assay, Universal Biosensor Assay, and 16S rRNA Gene Sequencing as Alternative Methods of Bacterial Pathogen Detection. Journal of Clinical MicrobiologyJournal of Clinical Microbiology. 51
2003. Direct Detection of Vibrio Cholerae and ctxA in Peruvian Coastal Water and Plankton by PCR. Applied and Environmental MicrobiologyAppl. Environ. Microbiol.Applied and Environmental MicrobiologyAppl. Environ. Microbiol.. 69
2002. Effects of Global Climate on Infectious Disease: The Cholera Model. Clinical Microbiology ReviewsClin. Microbiol. Rev.Clinical Microbiology ReviewsClin. Microbiol. Rev.. 15
2009. Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons. Genome BiologyGenome Biology. 10
2010. Identifying Differentially Abundant Metabolic Pathways in Metagenomic Datasets. Bioinformatics Research and ApplicationsBioinformatics Research and Applications. 6053
2012. Deep Sequencing of the Oral Microbiome Reveals Signatures of Periodontal Disease. PloS onePLoS One. 7
2011. Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences. BMC GenomicsBMC Genomics. 12
2015. RNA-Seq identifies novel myocardial gene expression signatures of heart failure.. Genomics. 105(2):83-9.
2010. MetaPhyler: Taxonomic profiling for metagenomic sequences. 2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).
2011. MetaPath: identifying differentially abundant metabolic pathways in metagenomic datasets. BMC ProceedingsBMC Proceedings. 5
1990. Drosophila melanogaster genes for U1 snRNA variants and their expression during development.. Nucleic Acids Res. 18(23):6971-9.