Reconstruction of the Genealogy of Recombining Viruses using Phylogenetic Networks

• Applicant: Dr. Ingo Bulla
• Subject Area: Bioinformatics and Theoretical Biology
• Term: from 2013 to 2015
• Project identifier: Deutsche Forschungsgemeinschaft (DFG) - Project number 237440467

• Final Report Year: 2016

Final Report Abstract

No abstract available

Publications

• (2014), “A model-based information sharing protocol for profile hidden Markov models used for HIV-1 recombination detection”, BMC Bioinformatics, 15:205
  Bulla I., Schultz A.-K., Chesneau C., Mark T., Serea F.
  (See online at https://doi.org/10.1186/1471-2105-15-205)
• (2014), “ClassyFlu: Classification of influenza A viruses with discriminatively trained profile-HMMs”, PLOS ONE, 9(1):e84558
  Van der Auwera S., Bulla I., Ziller M., Pohlmann A., Harder T., Stanke M.
  (See online at https://doi.org/10.1371/journal.pone.0084558)
• (2014), “Time between transmission events is not directly reflected in a pathogen phylogeny”, Molecular Biology and Evolution, 31(9), 2472-82
  Romero-Severson E., Skar H., Bulla I., Albert J., Leitner T.
  (See online at https://doi.org/10.1093/molbev/msu179)
• (2016), “Phylogenetically resolving epidemiologic linkage”, Proceedings of the National Academy of Sciences, 113(10), 2690-2695
  Romero-Severson E.-O., Bulla I., Leitner T.
  (See online at https://doi.org/10.1073/pnas.1522930113)