Abstract

The specific objective of the Data Management, Analysis, and Resources Dissemination Core is to provide systems and bioinformatics computing infrastructure necessary for tracking, storing, integrating, and disseminating the data and biological resources generated in Research Projects 1-4 and the Technology and Immunology Cores, Cores B and D, respectively. Data and resources from the Projects will be made available to the wider scientific community through submissions to public archives, where applicable, or a project portal when such archives do not exist. Using our customized Laboratory Information Management System (LIMS), project tracking systems, and integrated web tools, we will track all samples, data, IRB documentation, and their respective metadata throughout each of the Research Projects. We expect the Research Projects and Cores to generate significant amounts of data, and we will continue to scale our high-capacity data storage infrastructure to store, manage, and share these data with the scientific community. We will deploy the Open Science Data Framework (OSDF), a scalable file system platform developed at IGS for the storage of different data types along with their metadata. Finally, we will work with the Research Project PIs to ensure that all the primary data and derived analyses results will be made available to the wider scientific community. This will be accomplished by depositing the primary data in public archives such as the NCBI Short Read Archive (SRA), and the derived results such as genome assemblies, sequence variants, and expression data in NCBI Genbank, dbSNP, and the Gene Expression Omnibus (GEO). In addition to deposition of data to public archives, we will build a website for the scientific community to access all raw and custom data sets, analysis tools and standard operating procedure (SOP) documents.

Public Health Relevance

The proposed research in this U19 award will use state-of-the-art genomics approaches to study a variety of high-priority pathogens to better understand how they cause disease in infected individuals. This Data Management, Analysis and Resources Dissemination Core will ensure data and resources from the Projects will be made available to the wider scientific community through submissions to public archives.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Institute of Allergy and Infectious Diseases (NIAID)
Type
Research Program--Cooperative Agreements (U19)
Project #
1U19AI110820-01
Application #
8711766
Study Section
Special Emphasis Panel (ZAI1)
Project Start
2014-04-15
Project End
2019-03-31
Budget Start
2014-04-15
Budget End
2015-03-31
Support Year
1
Fiscal Year
2014
Total Cost
Indirect Cost

  Institution

Name
University of Maryland Baltimore
Department
Type
DUNS #
City
Baltimore
State
MD
Country
United States
Zip Code
21201

  Publications

Richter, Taylor K S; Hazen, Tracy H; Lam, Diana et al. (2018) Temporal Variability of Escherichia coli Diversity in the Gastrointestinal Tracts of Tanzanian Children with and without Exposure to Antibiotics. mSphere 3:
Baldin, Clara; Soliman, Sameh S M; Jeon, Heewon H et al. (2018) PCR-Based Approach Targeting Mucorales-Specific Gene Family for Diagnosis of Mucormycosis. J Clin Microbiol 56:
Liu, Hong; Xu, Wenjie; Solis, Norma V et al. (2018) Functional convergence of gliP and aspf1 in Aspergillus fumigatus pathogenicity. Virulence 9:1062-1073
Richter, Taylor K S; Michalski, Jane M; Zanetti, Luke et al. (2018) Responses of the Human Gut Escherichia coli Population to Pathogen and Antibiotic Disturbances. mSystems 3:
Ouattara, Amed; Tran, Tuan M; Doumbo, Safiatou et al. (2018) Extent and Dynamics of Polymorphism in the Malaria Vaccine Candidate Plasmodium falciparum Reticulocyte-Binding Protein Homologue-5 in Kalifabougou, Mali. Am J Trop Med Hyg 99:43-50
Mendes, António M; Machado, Marta; Gonçalves-Rosa, Nataniel et al. (2018) A Plasmodium berghei sporozoite-based vaccination platform against human malaria. NPJ Vaccines 3:33
Chung, Matthew; Teigen, Laura; Libro, Silvia et al. (2018) Multispecies Transcriptomics Data Set of Brugia malayi, Its Wolbachia Endosymbiont wBm, and Aedes aegypti across the B. malayi Life Cycle. Microbiol Resour Announc 7:
Watkins, Tonya N; Liu, Hong; Chung, Matthew et al. (2018) Comparative transcriptomics of Aspergillus fumigatus strains upon exposure to human airway epithelial cells. Microb Genom :
Robertson, Colin D; Hazen, Tracy H; Kaper, James B et al. (2018) Phosphotyrosine-Mediated Regulation of Enterohemorrhagic Escherichia coli Virulence. MBio 9:
Ndungo, Esther; Randall, Arlo; Hazen, Tracy H et al. (2018) A Novel Shigella Proteome Microarray Discriminates Targets of Human Antibody Reactivity following Oral Vaccination and Experimental Challenge. mSphere 3:

Showing the most recent 10 out of 55 publications