Dr. Ingo Bulla


Dr. Ingo Bulla

Institut für Mathematik und Informatik
Franz-Mehring-Straße 48
17489 Greifswald

Telefon +49 3834 420 4620

Research Interests:

Coalescence Theory for Recombining Sequences

  •  Phylogeny and recombination analysis of HIV, HBV, and other viruses
  •  Phylodynamics of HIV 
  •  Epidemiology of HIV
  •  Hidden Semi-Markov models

siehe auch Professur für Bioinformatik


  • ARGUS - A virus classification tool

Papers in journals and refereed conference proceedings

  1. Romero-Severson E.-O., Bulla I., Leitner T. (2016), “Phylogenetically resolving epidemiologic linkage”, Proceedings of the National Academy of Sciences, 113(10), 2690-2695
  2. Popova B., Schubert S., Bulla I., Buchwald D., Kramer W. (2015), “A robust and versatile method of combinatorial chemical synthesis of gene libraries via hierarchical assembly of partially randomized modules”, PLOS ONE, 10(9):e0136778
  3. Bulla I., Chesneau C., Navarro F., Mark T. (2015), “A note on the adaptive estimation of a bi-dimensional density in the case of knowledge of the copula density”, Statistics and Probability Letters, 105, 6-13
  4. Bulla I., Schultz A.-K., Chesneau C., Mark T., Serea F. (2014), “A model-based information sharing protocol for profile hidden Markov models used for HIV-1 recombination detection”, BMC Bioinformatics, 15:205
  5. Romero-Severson E., Skar H., Bulla I., Albert J., Leitner T. (2014), “Time between transmission events is not directly reflected in a pathogen phylogeny”, Molecular Biology and Evolution, 31(9), 2472-82
  6. Van der Auwera S., Bulla I., Ziller M., Pohlmann A., Harder T., Stanke M. (2014), “ClassyFlu: Classification of influenza A viruses with discriminatively trained profile-HMMs”, PLOS ONE, 9(1):e84558
  7. Sablok G., Sánchez-Paz A., Wu X. M., Bulla I. (2012), “Genome dynamics in three different geo-graphical isolates of white spot syndrome virus (WSSV) genome”, Archives of Virology, 157(12), 2357-2362
  8. Schultz A.-K., Bulla I., Abdou-Chekaraou M., Gordien E., Morgenstern B., Zoaulim F., Dény P., Stanke M. (2012), “jpHMM: recombination analysis in viruses with circular genomes such as the hepatitis B virus”, Nucleic Acids Research, 40(W1), W193-W198
  9. Bulla I., Schultz A.-K., Meinicke P. (2012), “Improving hidden Markov models for classification of HIV-1 subtypes through linear discriminant learning”, Statistical Applications in Genetics and Molecular Biology, 11(1)
  10. Buckdahn R., Bulla I., Ma J. (2011), “Pathwise Taylor expansions for Itô random fields”, Mathematical Control and Related Fields, 1(4), 437-468
  11. Bulla J., Mergner S., Bulla I., Sesboüé A., Chesneau C. (2011), “Markov-switching asset allocation: do profitable strategies exist?”, Journal of Asset Management, 12(5), 310-321
  12. Unterthiner T., Schultz A.-K., Bulla J., Morgenstern B., Stanke M., Bulla I. (2011), “Detection of viral sequence fragments of HIV-1 subfamilies yet unknown”, BMC Bioinformatics, 12:93
  13. Zhang M., Foley B., Schultz A.-K., Macke J. P., Bulla I., Stanke M., Morgenstern B., Korber B., Leitner T. (2010), “The role of recombination in the emergence of a complex and dynamic HIV epidemic”, Retrovirology, 7, 25
  14. Bulla I., Schultz A.-K., Zhang M., Leitner T., Korber B., Morgenstern B., Stanke M. (2010), “HIV classification using coalescent theory”, Bioinformatics, 26(11), 1409-1415
  15. Bulla I., Bulla J., Nenadić O. (2010), “hsmm – an R package for analyzing Hidden Semi-Markov Models”, Computational Statistics and Data Analysis, 54, 611-619
  16. Schultz A.-K., Zhang M., Bulla I., Leitner T., Korber B., Morgenstern B., Stanke M. (2009), "jpHMM: Improving the reliability of recombination prediction in HIV-1”, Nucleic Acids Research,37, W647-W651
  17. Bulla J., Bulla I. (2006), “Stylized facts of financial time series and hidden semi-Markov models”, Computational Statistics and Data Analysis, 51, 2192-2209
  18. Bulla I. (2005) Dirichlet problem with stochastic coefficients”, Stochastics and Dynamics, 5(4), 555-568

PhD Thesis

  • Bulla I.
    Existence and Uniqueness of Solutions of Linear Elliptic Stochastic Partial Differential Equations with Distributive Source Term
    Mathematica Gottingensis, no. 3

Referee service for

  • Bioinformatics
  • Nucleic Acids Research
  • Computational Biology and Chemistry
  • Algorithms for Molecular Biology
  • Computational Statistics & Data Analysis
  • Journal of Statistical Software
  • Communications in Statistics
  • Stochastics and Dynamics
  • Computational Economics
  • Quantitative Finance