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Publications - Publications 2012
Fecal microbial determinants of fecal and systemic estrogens and estrogen metabolites: a cross-sectional study, Journal of translational medicine. 2012 Dec 21
Twice-daily application of HIV microbicides alter the vaginal microbiota, mBio. 2012 Dec 18
Ischaemic stroke: the ocular motor system as a sensitive marker for motor and cognitive recovery, Journal of neurology, neurosurgery, and psychiatry. 2012 Dec 06
Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease, PloS one. 2012 Nov 28
Defining a healthy human gut microbiome: current concepts, future directions, and clinical applications, Cell host & microbe. 2012 Nov 19
Comparative Genomics and stx Phage Characterization of LEE-Negative Shiga Toxin-Producing Escherichia coli, Frontiers in cellular and infection microbiology. 2012 Nov 07
A closer look at visually guided saccades in autism and Asperger's disorder, Frontiers in integrative neuroscience. 2012 Nov 07
An integrated map of genetic variation from 1,092 human genomes, Nature. 2012 Nov 06
Transcriptional modulation of enterotoxigenic Escherichia coli virulence genes in response to epithelial cell interactions, Infection and immunity. 2012 Oct 31
Association between Trichomonas vaginalis and vaginal bacterial community composition among reproductive-age women, Sexually transmitted diseases. 2012 Sep 25
Genome sequence of Enterobacter radicincitans DSM16656(T), a plant growth-promoting endophyte, Journal of bacteriology. 2012 Sep 11
Genomic insights into the emerging human pathogen Mycobacterium massiliense, Journal of bacteriology. 2012 Sep 11
Cognition and eye movements: assessment of cerebral dysfunction, Journal of neuro-ophthalmology : the official journal of the North American Neuro-Ophthalmology Society. 2012 Aug 23
Analysis of the gut microbiota in the old order Amish and its relation to the metabolic syndrome, PloS one. 2012 Aug 15
The Human Microbiome Project: a community resource for the healthy human microbiome, PLoS biology. 2012 Aug 14
Natural transformation facilitates transfer of transposons, integrons and gene cassettes between bacterial species, PLoS pathogens. 2012 Aug 02
RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011, Standards in genomic sciences. 2012 Jul 28
Microbial transformation from normal oral microbiota to acute endodontic infections, BMC genomics. 2012 Jul 28
Surgical site infection prophylaxis strategies for cardiothoracic surgery: a decision-analytic model, Scandinavian journal of infectious diseases. 2012 Jul 25
The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness, Standards in genomic sciences. 2012 Jul 20
Hybrid error correction and de novo assembly of single-molecule sequencing reads, Nature biotechnology. 2012 Jul 01
Vaginal microbiome: rethinking health and disease, Annual review of microbiology. 2012 Jun 28
Association of fecal microbial diversity and taxonomy with selected enzymatic functions, PloS one. 2012 Jun 28
Automated hierarchical classification of protein domain subfamilies based on functionally-divergent residue signatures, BMC bioinformatics. 2012 Jun 22
Kinetic and phylogenetic analysis of plant polyamine uptake transporters, Planta. 2012 Jun 19
Genomic diversity of 2010 Haitian cholera outbreak strains, Proceedings of the National Academy of Sciences of the United States of America. 2012 Jun 18
A framework for human microbiome research, Nature. 2012 Jun 13
Structure, function and diversity of the healthy human microbiome, Nature. 2012 Jun 13
Metabolic reconstruction for metagenomic data and its application to the human microbiome, PLoS computational biology. 2012 Jun 13
Complex carbohydrate utilization by the healthy human microbiome, PloS one. 2012 Jun 13
Comparison of storage conditions for human vaginal microbiome studies, PloS one. 2012 May 24
Shigella flexneri effectors OspE1 and OspE2 mediate induced adherence to the colonic epithelium following bile salts exposure, Molecular microbiology. 2012 May 23
Comparative genomics of vancomycin-resistant Staphylococcus aureus strains and their positions within the clade most commonly associated with Methicillin-resistant S. aureus hospital-acquired infection in the United States, mBio. 2012 May 22
Exploring a road map to counter misconceptions about the cervicovaginal microbiome and disease, Reproductive sciences (Thousand Oaks, Calif.). 2012 May 21
Genome sequence of Klebsiella oxytoca 11492-1, a nosocomial isolate possessing a FOX-5 AmpC β-lactamase, Journal of bacteriology. 2012 May 14
Draft genome sequences of the diarrheagenic Escherichia coli collection, Journal of bacteriology. 2012 May 14
LPS remodeling is an evolved survival strategy for bacteria, Proceedings of the National Academy of Sciences of the United States of America. 2012 May 14
Efficient subtraction of insect rRNA prior to transcriptome analysis of Wolbachia-Drosophila lateral gene transfer, BMC research notes. 2012 May 14
Phylomark, a tool to identify conserved phylogenetic markers from whole-genome alignments, Applied and environmental microbiology. 2012 May 11
Report of the 13(th) Genomic Standards Consortium Meeting, Shenzhen, China, March 4-7, 2012, Standards in genomic sciences. 2012 May 04
Temporal dynamics of the human vaginal microbiota, Science translational medicine. 2012 May 03
Whole-genome sequences of Bacillus subtilis and close relatives, Journal of bacteriology. 2012 Apr 11
CRISPR/cas loci of type II Propionibacterium acnes confer immunity against acquisition of mobile elements present in type I P. acnes, PloS one. 2012 Mar 30
Novel plasmids and resistance phenotypes in Yersinia pestis: unique plasmid inventory of strain Java 9 mediates high levels of arsenic resistance, PloS one. 2012 Mar 30
Evaluation of methods for the extraction and purification of DNA from the human microbiome, PloS one. 2012 Mar 23
Proof of concept of microbiome-metabolome analysis and delayed gluten exposure on celiac disease autoimmunity in genetically at-risk infants, PloS one. 2012 Mar 14
Genome stability of Lyme disease spirochetes: comparative genomics of Borrelia burgdorferi plasmids, PloS one. 2012 Mar 14
Molecular epidemiology of Neisseria meningitidis serogroup B in Brazil, PloS one. 2012 Mar 14
Assessment of the human faecal microbiota: I. Measurement and reproducibility of selected enzymatic activities, European journal of clinical investigation. 2012 Mar 13
Understanding vaginal microbiome complexity from an ecological perspective, Translational research : the journal of laboratory and clinical medicine. 2012 Mar 06
Conceptualizing a Genomics Software Institute (GSI), Standards in genomic sciences. 2012 Mar 05
Assessment of the human faecal microbiota: II. Reproducibility and associations of 16S rRNA pyrosequences, European journal of clinical investigation. 2012 Mar 03
Draft genome sequence of Vibrio fischeri SR5, a strain isolated from the light organ of the Mediterranean squid Sepiola robusta, Journal of bacteriology. 2012 Feb 29
Genome sequences of four divergent multidrug-resistant Acinetobacter baumannii strains isolated from patients with sepsis or osteomyelitis, Journal of bacteriology. 2012 Feb 29
Backpacks and school children's obesity: challenges for public health and ergonomics, Work (Reading, Mass.). 2012 Feb 09
Longitudinal assessment of antisaccades in patients with multiple sclerosis, PloS one. 2012 Feb 02
Policy: Adaptations of avian flu virus are a cause for concern, Nature. 2012 Jan 31
Adaptations of Avian Flu Virus Are a Cause for Concern, Science (New York, N.Y.). 2012 Jan 31
Bilateral dysgerminoma in a patient with a previous diagnosis of Swyer syndrome, The journal of obstetrics and gynaecology research. 2012 Jan 25
Using Sybil for interactive comparative genomics of microbes on the web, Bioinformatics (Oxford, England). 2012 Jan 18
Genomic Characterization of Enteroaggregative Escherichia coli From Children in Mali, The Journal of infectious diseases. 2012 Jan 13
Origin and Variation of Tunicate Secondary Metabolites, Journal of natural products. 2012 Jan 10
The phylogeographic footprint of colonial history in the global dispersal of HIV-2 group A, The Journal of general virology. 2012 Jan 04
Analysis of the global transcriptional profiles of enterotoxigenic Escherichia coli (ETEC) isolate E24377A, Infection and immunity. 2012 Jan 03