James Galagan

Associate Professor, Biomedical Engineering & Microbiology

Dr. Galagan’s research is focused on Systems Biology of microbial organisms, specficially Mycobacterium tuberculosis – the causative agent of tuberculosis – and the fungus Neurospora crassa. The Galagan Lab is an interdisciplinary group that combines computational biology, genomics, and experimental lab work. Specific interests and projects include:

  • Using a genomics, computational modeling, and experimental systems-identification techniques to reconstruct the gene regulatory network of M. tuberculosis.
  • Developing and experimentally validating computational models of microbial metabolism for M. tuberculosis and N. crassa.
  • Using high-throughput sequencing and comparative sequence analysis to study the functional evolution of M. tuberculosis.
  • Developing computational methods for genomic data analysis (including gene prediction, gene expression analysis, and polymorphism discovery)
  • Developing experimental methods for microbial systems identification and analysis, drawing on electrical and mechanical systems identification methods.

 Selected Publications

  1. Colijn, C., Weiner, B., Cheng, T.-Y., Brandes, A., Zucker, J., Lun, D.S., Moody, B., Murray, M., and Galagan, J.E. (In Press). Computational prediction of metabolic flux using expression data: an application to Mycobacterium tuberculosis mycolic acid biosynthesis. PLoS Computational Biology.
  2. McGuire, A.M., M.D. Pearson, D.E. Neafsey, and J.E. Galagan. (2008). Cross-kingdom patterns of alternative splicing and splice recognition. Genome Biology. 9: R50.
  3. Santos-Zavaleta A, Sánchez-Pérez M, Salgado H, Velázquez-Ramírez DA, Gama-Castro S, Tierrafría VH, Busby SJW, Aquino P, Fang X, Palsson BO, Galagan JE, Collado-Vides J. A unified resource for transcriptional regulation in Escherichia coli K-12 incorporating high-throughput-generated binding data into RegulonDB version 10.0. BMC Biol. 2018 08 16; 16(1):91. PMID: 30115066.