Jonathan H. Badger, Ph.D.

Staff Scientist

Team Member of:

Dr. Badger's research focuses on computationally integrating genomic, transcriptomic, and phylogenetic information from microbes and their hosts in order to obtain insights into the role the microbiome plays in disease, particularly in relation to cancer. Dr, Badger is also interested in the role predatory bacteria (Bdellovibrio and relatives) play in the environment and as members of the microbiota.

Areas of Expertise

1. Bioinformatics 2. Microbial Ecology 3. Microbiome 4. Genomics 5. Phylogeny

Contact Info

Jonathan H. Badger, Ph.D.
Center for Cancer Research
National Cancer Institute
Building 37, Room 4140B
Bethesda, MD 20892
Ph: 301-443-3136

I have just recently joined Giorgio Trinchieri's group at the NCI. Our immediate goal is to establish a microbiome center for efficient production of 16S data for Trinchieri's and other's groups. I am on the computational side of things and plan to work on new methods of interpreting the resulting data when the center is up and running.

NIH Scientific Focus Areas:
Cancer Biology, Computational Biology, Genetics and Genomics, Microbiology and Infectious Diseases

Selected Publications

  1. The Human Genome, Microbiomes, and Disease.
    Badger JH, Ng PC, and Venter JC
    In: Metagenomics of the Human Body (Karen E, Nelson, editor) . New York: Springer 1-14, 2011. [ Book Chapter ]
  2. The Human Microbiome Project Consortium (Initial authors in list of 248 authors: Curtis Huttenhower, Dirk Gevers, Rob Knight, Sahar Abubucker, Jonathan H. Badger)
    Nature. 486: 207-214, 2012. [ Journal Article ]
  3. Draft genome sequences for the obligate bacterial predators Bacteriovorax spp. of four phylogenetic clusters.
    Chen H, Brinkac LM, Mishra P, Li N, Lymperopoulou DS, Dickerson TL, Gordon-Bradley N, Williams HN, and Badger JH
    Standards in Genomic Sciences. 10: e11, 2015. [ Journal Article ]
  4. Konotchick T, Dupont CL, Valas RE, Badger JH, and Allen AE
    New Phytologist. 198: 398-407, 2013. [ Journal Article ]
  5. Badger JH, Eisen JA, and Ward NL
    International Journal of Systematic and Evolutionary Microbiology. 55: 1021-1026, 2005. [ Journal Article ]

Dr. Badger received his doctoral training in Gary Olsen's lab in the Department of Microbiology of the University of Illinois at Urbana-Champaign, There he focused on creating computational tools for analyzing the then new data from microbial genomes. He then was a postdoctoral fellow in the Computer Science department of the University of Waterloo in Canada where he worked on methods of computational phylogeny with Ming Li and Paul Kearney. In 2001, he (along with Paul Kearney and other members of the group) started the bioinformatics group at Caprion, a proteomics startup in Montreal. In 2003 Dr. Badger joined the J. Craig Venter Institute (or TIGR as it was then known) where he worked on numerous genomics, metagenomics and transcriptomics projects, including the initial Human Microbiome Project. In 2015 Dr. Badger joined the NCI.