Genomic Centers for Infectious Diseases

What services does this resource provide?

The NIAID Genomic Centers for Infectious Diseases (GCID) provide insights into the biology of microbes, their role in pathogenesis, and their interactions with the host, including the microbiome by supporting a diverse set of genomic capabilities, such as next-generation sequencing and related genomic technologies.

The GCID use and develop or improve innovative applications of genomic technologies, such as RNA sequencing and metagenomics, and provide rapid and cost-efficient production of high-quality genome sequences of microorganisms, invertebrate vectors of infectious diseases, and hosts and host microbiomes. Multiple strains and isolates of specific microbial species, populations and communities have been and continue to be sequenced.

Genomic capabilities include high-throughput next-generation sequencing, comparative genomic and phylogenomic analysis, genotyping, gene expression, as well as simultaneous processing and analysis of host-pathogen or metagenomic and metatranscriptomic analysis. In addition to methods and protocols developed for next-generation sequencing and related genomic technologies, the GCID also provide bioinformatics software tools and analyses for studying infectious diseases with the intent to be used by the broader infectious diseases community.

The GCIDs sequence the genomes of microorganisms from the NIAID list of emerging and re-emerging infectious diseases, which includes NIAID Category A-C priority pathogens including influenza, clinical isolates, closely related species and strains, and invertebrate vectors of diseases.

Where are the services provided?

• The J. Craig Venter Institute GCID
• The Broad Institute GCID
• The Institute for Genome Sciences at the University of Maryland School of Medicine GCID

Access

Investigators interested in requesting sequencing, assembly, primary annotation, and analysis of microorganisms, invertebrate vectors of infectious diseases, and hosts and host microbiomes should submit a one page description of the project for consideration to Dr. Liliana Brown and Eun Mi Lee. Please include a justification and relevant background. Priority will be given to projects that fall within the scope of ongoing research within the GCIDs.

Program-generated data and software are made available through these publicly accessible Web and database sites:

• The J. Craig Venter Institute GCID
• The Broad Institute GCID
• The Institute for Genome Sciences at the University of Maryland School of Medicine GCID
• NIAID Bioinformatics Resource Centers
• NIH National Center for Biotechnology Information

Reagents are made available through BEI.

Data Sharing, Access and Release

• Data Sharing and Release Guidelines
• Metadata Implementation Guidelines
• Metadata Standards

Information and Related Resources

• Publications
  • The J. Craig Venter Institute GCID Publications
  • The Broad Institute GCID Publications
  • The Institute for Genome Sciences at the University of Maryland School of Medicine GCID Publications
• ​Select Projects and Reports
  • Current Status: NIAID-supported JCVI Influenza Sequencing Center​
  • Building on a Decade of Accomplishments: Report of the 2010 Blue Ribbon Panel on Genomics
• Related NIAID-Supported Services