Approved White Papers
Since these sequencing projects are considered community resources and the data sets are valuable research resources to the community, centers anticipate making the white papers available to the scientific community through their websites. If necessary, we will work with white paper authors to make suitable versions of the white papers available through the centers’ websites. White papers will not undergo alteration if sequencing or analysis strategies change during the course of the project.
Sequence Analysis of the Genus Acinetobacter
The pathogenomics and evolution of anthrax-like Bacillus cereus isolates and plasmid.
Characterization of pathogenicity and ecology of Bartonella species through whole genome sequence analysis.
A continuation of the comparative genomics of the zoonotic genus Brucella and development of diagnostic resources for epidemiological tracking of potential bioweapons agents.
Using Next generation sequencing to define strain variation and virulence in clinical isolates of Candida albicans.
Carbapenem Resistant bacteria
Whole Genome Sequence Analysis of Carbapenem-resistant Enterobacteriaceae Isolated from 3 Boston Area Medical Institutions
RNASeq Analysis to study determinants of poor outcome in cryptococcal disease
Surveillance of dengue virus in Florida mosquitoes
Sequence analysis of mouse-passaged Dengue virus strains that induce a non-paralytic, lethal disease in mouse.
Comparative Genomics of Dengue Virus: genome population structure, transmission, and understanding differential inflammatory disease responses
Diarrheal Dysbiosis and Treatment
Understanding the pathogenesis of diarrheal illness
Comparative Genomics of Coccidioides and Other Pathogenic Dimorphic Fungi
Scope of the diversity of emerging hospital pathpgens Enterococcus faecalis and Enterococcus faecium.
Escherichia coli UTI Bacteremia
E. coli as a human pathogen: Uncomplicated urinary tract infection (UTI) and UTI induced bacteremia
Escherichia coli UTI Defensins
E. coli urinary tract infection: Importance of antimicrobial peptides and bacterial factors of the rectal flora and UTI pathogenic E. coli.
Genome Sequencing of Francisella tularensis subsp. tularensis Schu S4 Isolates
Infant gut Metagenomics
Assessing the impact of antibiotic administration on the establishment and development of infant gut flora.
Influenza virus and SARS-CoV
Examination of Differential Occupancy in early innate immunity in an infection time course.
Genome analysis of Major Tick and Mite Vectors of Human Pathogens
Comparative genomics of the phylum Defining shared and specific genes in a phylum of emerging human pathogens.
High Throughput Genomic Microbial Surveillance.
Mycobacterium tuberulosis - CDRC
To facilitate development of new diagnostic and therapeutic approaches to tuberculosis
Mycobacterium tuberulosis - Belarussia
Comparative sequence analysis of M.tuberculosis isolates from Patients with multi and extensively drug resistant tuberculosis in Belarussia
Mycobacterium tuberculosis - K-RITH, South Africa
Characterization of M. tuberculosis Resistance Through Whole Genome Sequence Analysis to Support Diagnostic Development, Drug Discovery, and Molecular Epidemiology
Mycobacterium tuberculosis - Mali
A Proposal to Compare the Genomes of MDR and Susceptible M. africanum and M. tuberculosis
Mycobacterium tuberculosis - MRC, South Africa
PETTS (Preserving Effective TB Treatment Study) Samples from the South African Medical Research Council for sequencing
Mycobacterium tuberculosis - Taiwan
Understanding Resistance to Fluoroquinolones in the treatment of MDR TB
Mustela putorius furo (Ferret)
Genomic and EST Sequencing of the Ferret
Bacterial Persistence in E.coli, M. tuberculosis, P. aeruginosa and C. albicans
Plasmodium spp. Comparative Genomics
Comprehensive sequencing of malarial parasites: Plasmodium species.
Plasmodium falciparum & RTS,S Vaccine
RTS,S Phase III Malaria Vaccine Trial Genotyping
Sequencing of Plasmodium vivax clinical malaria samples using hybrid selection
Whole Genome Sequence Analysis of Pseudomonas aeruginosa Clinical Isolates
Respiratory Syncytial Virus (RSV)
Respiratory Syncytial Virus (RSV) intra-host sequence variation over the course of infection in immune competent and immunocompromised hosts.
TraCS for Mycobacterium tuberculosis
Identification of novel drug target through genome-wide mapping of metabolic networks in Mycobacterium tuberculosis.
Vibrio cholerea Transcriptome
Using next-generation sequencing technology to define the Vibrio cholerae transcriptome.
VRSA and VRE
Comparative Genome Analysis of Vancomycin Resistant Staphylococcus aureus and Vancomycin Resistant Enterococci