List of works by Jennifer R Wortman

1641. Treatment of Recurrent Clostridium difficile Infection With SER-109 Reduces Gastrointestinal Carriage of Antimicrobial Resistance Genes

article

621. Treatment of Recurrent Clostridium difficile Infection with SER-109 Increases the Concentration of Secondary Bile Acids in a Dose-Dependent Manner

A catalog of reference genomes from the human microbiome

scientific article

A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome

scientific article

A data analysis and coordination center for the human microbiome project.

scientific article

A framework for human microbiome research

scientific article

A preliminary analysis of the process of protein secretion and the diversity of putative secreted hydrolases encoded in Aspergillus fumigatus: insights from the genome

scientific article

Analysis of the transcriptome of the protozoan Theileria parva using MPSS reveals that the majority of genes are transcriptionally active in the schizont stage

scientific article

Annotation of the Arabidopsis genome

scientific article published in 2003

Approaches to Fungal Genome Annotation

scientific article (publication date: 3 October 2011)

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

scientific article (publication date: 11 January 2008)

Comparative analysis of programmed cell death pathways in filamentous fungi

scientific article

Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives

scientific article

Comparative genomics of Brassica oleracea and Arabidopsis thaliana reveal gene loss, fragmentation, and dispersal after polyploidy

article

Comparative genomics of enterococci: variation in Enterococcus faecalis, clade structure in E. faecium, and defining characteristics of E. gallinarum and E. casseliflavus

scientific article

Comparative genomics of recent Shiga toxin-producing Escherichia coli O104:H4: short-term evolution of an emerging pathogen

scientific article

Comparative genomics of the neglected human malaria parasite Plasmodium vivax

scientific article

Comparative genomics of trypanosomatid parasitic protozoa

scientific article (publication date: 15 July 2005)

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

scientific article

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus.

scientific article

Complete reannotation of the Arabidopsis genome: methods, tools, protocols and the final release

scientific article

Comprehensive annotation of secondary metabolite biosynthetic genes and gene clusters of Aspergillus nidulans, A. fumigatus, A. niger and A. oryzae

scientific article

DAGchainer: a tool for mining segmental genome duplications and synteny

scientific article published on 9 July 2004

Draft genome of the filarial nematode parasite Brugia malayi

scientific article

Draft genome sequence of the oilseed species Ricinus communis

scientific article

Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis

scientific article

Emergence of epidemic multidrug-resistant Enterococcus faecium from animal and commensal strains

scientific article published on 20 August 2013

Ergatis: a web interface and scalable software system for bioinformatics workflows

scientific article

Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates from KwaZulu-Natal

scientific article (publication date: September 2015)

Evolution of extensively drug-resistant tuberculosis over four decades revealed by whole genome sequencing of Mycobacterium tuberculosis from KwaZulu-Natal, South Africa

scholarly article by Keira A. Cohen et al published March 2015 in International journal of mycobacteriology

Gastrointestinal Tract Microbiome Dynamics Following Treatment with SER-109, an Investigational Oral Microbiome Therapeutic to Reduce the Recurrence of Clostridium difficile Infection (CDI).

scientific article published on 4 October 2017

Genome Sequence of Theileria parva, a Bovine Pathogen That Transforms Lymphocytes

scientific article

Genome sequence of Aedes aegypti, a major arbovirus vector

scientific article

Genome sequence of Babesia bovis and comparative analysis of apicomplexan hemoprotozoa

scientific article published on 19 October 2007

Genome sequencing and analysis of Aspergillus oryzae

scientific article

Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum

scientific article

Genome wide survey, discovery and evolution of repetitive elements in three Entamoeba species

scientific article (publication date: 10 December 2008)

Genomic and functional analyses of Mycobacterium tuberculosis strains implicate ald in D-cycloserine resistance.

scientific article published on 11 April 2016

Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011.

scientific article published on 6 February 2012

Genomic insights into the Ixodes scapularis tick vector of Lyme disease

scientific article published on 9 February 2016

Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus

scientific article

Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus

scientific article

Genomics of Aspergillus fumigatus

scientific article

Genomics of Loa loa, a Wolbachia-free filarial parasite of humans

scientific article

Identification and characterization of a p53 homologue in Drosophila melanogaster

scientific article

Identification of 50 class D β-lactamases and 65 Acinetobacter-derived cephalosporinases in Acinetobacter spp.

scientific article

Illumina identification of RsrA, a conserved C2H2 transcription factor coordinating the NapA mediated oxidative stress signaling pathway in Aspergillus

scientific article

Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

scientific article (publication date: October 2003)

Kinannote, a computer program to identify and classify members of the eukaryotic protein kinase superfamily

scientific article published on 31 July 2013

Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote

scientific article

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

scientific article

New resources for functional analysis of omics data for the genus Aspergillus

scientific article

Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement

scientific article

Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure

scientific article

Reply to Guy et al.: Support for a bottleneck in the 2011 Escherichia coli O104:H4 outbreak in Germany

scientific article

Revitalization of a Forward Genetic Screen Identifies Three New Regulators of Fungal Secondary Metabolism in the Genus Aspergillus

scientific article

Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species

scientific article

Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae

scientific article

Sequencing of Culex quinquefasciatus establishes a platform for mosquito comparative genomics

scientific article

Standardized metadata for human pathogen/vector genomic sequences

scientific article (publication date: 2014)

Structural, Functional, and Comparative Annotation of Plant Genomes

article

Structure, function and diversity of the healthy human microbiome

scientific article

Sybil: methods and software for multiple genome comparison and visualization

scientific article

The 2008 update of the Aspergillus nidulans genome annotation: a community effort

scientific article

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources

scientific article published on 12 November 2011

The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community

scientific article

The Aspergillus Genome Database: multispecies curation and incorporation of RNA-Seq data to improve structural gene annotations

scientific article

The Gene Ontology (GO) database and informatics resource

scientific article (publication date: 2004)

The Genome Sequence DataBase: towards an integrated functional genomics resource

scientific article

The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease

scientific article

The Genome Sequence of the Malaria Mosquito Anopheles gambiae

scientific article

The IGS Standard Operating Procedure for Automated Prokaryotic Annotation ⬇️

scientific article

The TIGR Rice Genome Annotation Resource: improvements and new features

scientific article published on December 2006

The ergosterol biosynthesis pathway, transporter genes, and azole resistance in Aspergillus fumigatus.

scientific article

The genome of the basidiomycetous yeast and human pathogen Cryptococcus neoformans

scientific article

The genome of the blood fluke Schistosoma mansoni

scientific article

The genome sequence of Drosophila melanogaster

scientific article

The genomic diversification of the whole Acinetobacter genus: origins, mechanisms, and consequences

scientific article

The institute for genomic research Osa1 rice genome annotation database

scientific article published on May 2005

Toward a standard in structural genome annotation for prokaryotes

scientific article

Transcriptional regulation of chemical diversity in Aspergillus fumigatus by LaeA

scientific article

Unraveling the genomic diversity of small eukaryotes

scientific article published on 22 December 2009

What can comparative genomics tell us about species concepts in the genus Aspergillus?

scientific article published on January 2007

Whole genome shotgun sequencing of Brassica oleracea and its application to gene discovery and annotation in Arabidopsis

scientific article

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