Welcome to the Computational Biology Program

The program in Computational Biology at the FHCRC was established to bring a new generation of biological researcher into the Center; biological researchers whose training in biology is accompanied by advanced training in quantitative sciences, including physics, statistics, mathematics, or computer science. Researchers with a core computational training bring a unique perspective to approaches to solve important biological problems, much as would scientists whose training is in other more traditional areas, such as biochemistry, genetics, immunology, or other disciplines. The inclusion of quantitative and computational biology researchers alongside these more traditional disciplines has been compelled in part by the explosion of information about the molecular machinery of living organisms; including human genome sequence and its products, and also the availability of bio-technologies that measure them on a genome-scale.  Our program members span a gap between what was once purely experimental or purely computational/statistical, and by doing so it allows our program members to address new areas of research.

The Computational Biology Program was established in January 2007 with the support of Bob and Pat Herbold. Center-wide program administered by the Public Health Sciences Division, but its faculty and activities include membership from each of the Center’s scientific Divisions.

Our program's research is described in more detail on the Member Track Faculty and Staff Scientist sites. The broad themes covered by their research includes:

  • Computational immunology, including the study of antigen formation and expression, and the evolution of the T Cell and B Cell response in cancer.
  • The natural history of the adaptive immune response in infectious disease.
  • Transcription control and its dis-regulation in human disease and aging.
  • Molecular evolution of viruses and proteins, especially HIV and flu.
  • Mathematical carcinogenesis modeling and its use in explaining cancer trends.
  • Macro-molecule interaction modeling on to understanding protein-DNA binding.
  • Biocomputing and statistical computing, including leadership (as PI or co-PI) in Bioconductor (  and Rosetta (

Activities in the Program

  • Seminars: To receive seminar announcements by email, please send an email to Abby Stimmel.
  • is a freely accessible online seminar series on phylogenetics organized by Dr. Matsen. The seminars occur approximately monthly and can be attended either interactively in real time or via recordings.
  • Bioconductor is an open-source toolkit for the analysis and comprehension of high-throughput genomic data. The developers are worldwide, but the core platform development teams are hosted at the FHCRC as members of the program. At the FHCRC, Dr. Morgan leads this development team.