The Data Management, Analysis and Resources Dissemination Core (DMARD) will support all four Research Projects and the Technology Core by providing rapid, accurate and cost-effective data management, high throughput analysis and resource sharing and dissemination according to the Resource Sharing Plan. DMARD Core functions will be divided into three primary responsibilities;resource sharing, comprehensive data management and infrastructure to support high throughput analysis. Our GCID Program will rapidly release, pre-publication genomic and other data including metadata as detailed in the Resource Sharing Plan. Raw genome sequence will be submitted as rapidly as possible not exceeding 45 days from generation and data quality check to either the Trace Archive or, as appropriate, to the Short Read Archive at NCBI/NLM/NIH. Full and partial genome assemblies will be deposited in GenBank at NCBl after verification, no later than 45 days of being generated, followed by release to other web sites, as approved by NIAID. Single nucleotide polymorphisms (SNP) generated as part of the project, will be submitted as rapidly as possible to NCBl dbSNP and not later than 45 days from validation. Clinical data and other metadata will be deposited to the appropriate NIAID funded Bioinformatics Resource Centers or other public resources as appropriate. Metadata formats developed through the NIAID GSC-BRC collaborative efforts will be employed. Microbial strains employed in the JCVI GCID will be deposited to the NIAID BEI (Biodefense &Emerging Infections Research Resources Repository) or other approved public repositories. Informatics tools developed within the Program for processing or analyzing the data generated in the course of performing the Program's Research Projects will be placed in the public domain via SourceForge as open source. The DMARD will provide comprehensive data management for tracking metadata, samples, reagents, and data. The DMARD will work with Technology Core to provide Galaxy and Kepler based modular infrastructure for integrative analysis and interpretation. The DMARD will work with the Technology Core to provide ready to use tools and pipelines to the research community.
The DMARD Core will provide resource sharing, sample tracking, metadata tracking, data management and integration, and analysis infrastructure to all GCID Projects. The DMARD Core services will be crucial for the success of GCID Projects, and equally important for GCID collaborators and the research community.
|Clarke, Thomas H; Brinkac, Lauren M; Inman, Jason M et al. (2018) PanACEA: a bioinformatics tool for the exploration and visualization of bacterial pan-chromosomes. BMC Bioinformatics 19:246|
|Ogden, Kristen M; Tan, Yi; Akopov, Asmik et al. (2018) Multiple introductions and antigenic mismatch with vaccines may contribute to increased predominance of G12P rotaviruses in the United States. J Virol :|
|Ismail, Ashrafali M; Cui, Tiange; Dommaraju, Kalpana et al. (2018) Genomic analysis of a large set of currently-and historically-important human adenovirus pathogens. Emerg Microbes Infect 7:10|
|Tan, Yi; Pickett, Brett E; Shrivastava, Susmita et al. (2018) Differing epidemiological dynamics of Chikungunya virus in the Americas during the 2014-2015 epidemic. PLoS Negl Trop Dis 12:e0006670|
|Moser, Lindsey A; Oldfield, Lauren M; Fedorova, Nadia et al. (2018) Whole-Genome Sequences of Zika Virus FLR Strains after Passage in Vero or C6/36 Cells. Genome Announc 6:|
|Moser, Lindsey A; Boylan, Brendan T; Moreira, Fernando R et al. (2018) Growth and adaptation of Zika virus in mammalian and mosquito cells. PLoS Negl Trop Dis 12:e0006880|
|Becka, Scott A; Zeiser, Elise T; Barnes, Melissa D et al. (2018) Characterization of the AmpC ?-Lactamase from Burkholderia multivorans. Antimicrob Agents Chemother 62:|
|Rosas-Salazar, Christian; Shilts, Meghan H; Tovchigrechko, Andrey et al. (2018) Nasopharyngeal Lactobacillus is associated with a reduced risk of childhood wheezing illnesses following acute respiratory syncytial virus infection in infancy. J Allergy Clin Immunol 142:1447-1456.e9|
|Beigelman, Avraham; Rosas-Salazar, Christian; Hartert, Tina V (2018) Childhood Asthma: Is It All About Bacteria and Not About Viruses? A Pro/Con Debate. J Allergy Clin Immunol Pract 6:719-725|
|Pollett, Simon; Trovão, Nidia S; Tan, Yi et al. (2018) The transmission dynamics and diversity of human metapneumovirus in Peru. Influenza Other Respir Viruses 12:508-513|
Showing the most recent 10 out of 72 publications