James E. Galagan, PhD
Associate Professor
Boston University College of Engineering
Dept of Biomedical Engineering

PhD, Massachusetts Institute of Technology

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

Associate Professor
Boston University School of Medicine

Associate Director, Systems Biology
Boston University School of Medicine
National Emerging Infectious Disease Lab

Associate Director of Microbial Genome Analysis
Broad Institute

Development of a Wearable Physiological Status Monitor
09/25/2018 - 09/24/2021 (PI)
Uniformed Services University Health Sciences Henry M Jackson Fdn

Chemical and biochemical determinants of phosphorothioate stability and location in bacterial genomes
08/01/2017 - 07/31/2020 (PI)
Massachusetts Institute of Technology National Science Fdn

Identifying Molecular Signatures of Drug Susceptibility in Enterococcus faecium
12/15/2015 - 07/31/2019 (PI)
Philips Healthcare

Systems Biology of the Circadian Clock Output Network
01/15/2015 - 06/30/2019 (PI)
Texas A&M University NIH NIGMS

Global Mapping and Analysis of Bacterial Transcriptional Regulatory Network
06/01/2015 - 05/31/2019 (PI)
NIH/National Institute of General Medical Sciences

Predictive modeling of the Mycobacterium tuberculosis regulatory and metabolic networks
08/20/2016 - 01/31/2019 (PI)
NIH/National Institute of Allergy & Infectious Diseases

Organic Biosensors for Personal Physiologic Monitoring
04/11/2016 - 10/10/2017 (PI)
Department of Defense/DARPA

07/01/2009 - 03/31/2014 (PI)
Dartmouth College NIH NIGMS

09/26/2008 - 09/25/2013 (PI)
Board of Trustees of the Leland Stanford Junior University NIH NIAID

Yr Title Project-Sub Proj Pubs
2018 Global mapping and analysis of a bacterial transcriptional regulatory network 5R01GM114812-04 4
2018 Systems Biology of the Circadian Clock Output Network 5R01GM113673-04 2
2017 Global mapping and analysis of a bacterial transcriptional regulatory network 5R01GM114812-03 4
2017 Systems Biology of the Circadian Clock Output Network 5R01GM113673-03 2
2016 Predictive modeling of the Mycobacterium tuberculosis regulatory and metabolic networks 1R56AI119491-01A1
2016 Global mapping and analysis of a bacterial transcriptional regulatory network 5R01GM114812-02 4
2016 Systems Biology of the Circadian Clock Output Network 5R01GM113673-02 2
2016 Systems Biology of the Circadian Clock Output Network 3R01GM113673-02S1 2
2015 Global mapping and analysis of a bacterial transcriptional regulatory network 1R01GM114812-01A1 4
2015 Systems Biology of the Circadian Clock Output Network 1R01GM113673-01 2
Showing 10 of 15 results. Show All Results
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.

  1. Santos-Zavaleta A, Salgado H, Gama-Castro S, Sánchez-Pérez M, Gómez-Romero L, Ledezma-Tejeida D, García-Sotelo JS, Alquicira-Hernández K, Muñiz-Rascado LJ, Peña-Loredo P, Ishida-Gutiérrez C, Velázquez-Ramírez DA, Del Moral-Chávez V, Bonavides-Martínez C, Méndez-Cruz CF, Galagan J, Collado-Vides J. RegulonDB v 10.5: tackling challenges to unify classic and high throughput knowledge of gene regulation in E. coli K-12. Nucleic Acids Res. 2019 Jan 08; 47(D1):D212-D220. PMID: 30395280.
  2. 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.
  3. Manson AL, Abeel T, Galagan J, Sundaramurthi JC, Shanmugam SK, Palaniyandi K, Narayanan S, Swaminathan S, Earl AM. Reply to Lee and Howden. Clin Infect Dis. 2018 01 06; 66(1):160-161. PMID: 29040415.
  4. Manson AL, Abeel T, Galagan JE, Sundaramurthi JC, Salazar A, Gehrmann T, Shanmugam SK, Palaniyandi K, Narayanan S, Swaminathan S, Earl AM. Mycobacterium tuberculosis Whole Genome Sequences From Southern India Suggest Novel Resistance Mechanisms and the Need for Region-Specific Diagnostics. Clin Infect Dis. 2017 Jun 01; 64(11):1494-1501. PMID: 28498943.
  5. Manson AL, Cohen KA, Abeel T, Desjardins CA, Armstrong DT, Barry CE, Brand J, Chapman SB, Cho SN, Gabrielian A, Gomez J, Jodals AM, Joloba M, Jureen P, Lee JS, Malinga L, Maiga M, Nordenberg D, Noroc E, Romancenco E, Salazar A, Ssengooba W, Velayati AA, Winglee K, Zalutskaya A, Via LE, Cassell GH, Dorman SE, Ellner J, Farnia P, Galagan JE, Rosenthal A, Crudu V, Homorodean D, Hsueh PR, Narayanan S, Pym AS, Skrahina A, Swaminathan S, Van der Walt M, Alland D, Bishai WR, Cohen T, Hoffner S, Birren BW, Earl AM. Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance. Nat Genet. 2017 Mar; 49(3):395-402.View Related Profiles. PMID: 28092681; DOI: 10.1038/ng.3767;.
  6. Aquino P, Honda B, Jaini S, Lyubetskaya A, Hosur K, Chiu JG, Ekladious I, Hu D, Jin L, Sayeg MK, Stettner AI, Wang J, Wong BG, Wong WS, Alexander SL, Ba C, Bensussen SI, Bernstein DB, Braff D, Cha S, Cheng DI, Cho JH, Chou K, Chuang J, Gastler DE, Grasso DJ, Greifenberger JS, Guo C, Hawes AK, Israni DV, Jain SR, Kim J, Lei J, Li H, Li D, Li Q, Mancuso CP, Mao N, Masud SF, Meisel CL, Mi J, Nykyforchyn CS, Park M, Peterson HM, Ramirez AK, Reynolds DS, Rim NG, Saffie JC, Su H, Su WR, Su Y, Sun M, Thommes MM, Tu T, Varongchayakul N, Wagner TE, Weinberg BH, Yang R, Yaroslavsky A, Yoon C, Zhao Y, Zollinger AJ, Stringer AM, Foster JW, Wade J, Raman S, Broude N, Wong WW, Galagan JE. Coordinated regulation of acid resistance in Escherichia coli. BMC Syst Biol. 2017 Jan 06; 11(1):1. PMID: 28061857; DOI: 10.1186/s12918-016-0376-y;.
  7. Dekhang R, Wu C, Smith KM, Lamb TM, Peterson M, Bredeweg EL, Ibarra O, Emerson JM, Karunarathna N, Lyubetskaya A, Azizi E, Hurley JM, Dunlap JC, Galagan JE, Freitag M, Sachs MS, Bell-Pedersen D. The Neurospora Transcription Factor ADV-1 Transduces Light Signals and Temporal Information to Control Rhythmic Expression of Genes Involved in Cell Fusion. G3 (Bethesda). 2017 Jan 05; 7(1):129-142. PMID: 27856696; DOI: 10.1534/g3.116.034298;.
  8. Farhat MR, Sultana R, Iartchouk O, Bozeman S, Galagan J, Sisk P, Stolte C, Nebenzahl-Guimaraes H, Jacobson K, Sloutsky A, Kaur D, Posey J, Kreiswirth BN, Kurepina N, Rigouts L, Streicher EM, Victor TC, Warren RM, van Soolingen D, Murray M. Genetic Determinants of Drug Resistance in Mycobacterium tuberculosis and Their Diagnostic Value. Am J Respir Crit Care Med. 2016 Sep 01; 194(5):621-30.View Related Profiles. PMID: 26910495; PMCID: PMC5027209; DOI: 10.1164/rccm.201510-2091OC;.
  9. Sharp JD, Singh AK, Park ST, Lyubetskaya A, Peterson MW, Gomes AL, Potluri LP, Raman S, Galagan JE, Husson RN. Comprehensive Definition of the SigH Regulon of Mycobacterium tuberculosis Reveals Transcriptional Control of Diverse Stress Responses. PLoS One. 2016; 11(3):e0152145. PMID: 27003599; PMCID: PMC4803200; DOI: 10.1371/journal.pone.0152145;.
  10. Krueger AS, Munck C, Dantas G, Church GM, Galagan J, Lehár J, Sommer MO. Simulating Serial-Target Antibacterial Drug Synergies Using Flux Balance Analysis. PLoS One. 2016; 11(1):e0147651.View Related Profiles. PMID: 26821252; PMCID: PMC4731467; DOI: 10.1371/journal.pone.0147651;.
Showing 10 of 78 results. Show More

This graph shows the total number of publications by year, by first, middle/unknown, or last author.

Bar chart showing 78 publications over 21 distinct years, with a maximum of 8 publications in 2008

In addition to these self-described keywords below, a list of MeSH based concepts is available here.

Computational Biology
Infectious Diseases
Systems Biology
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24 Cummington St
Boston MA 02215
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