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
Microbiology


Faculty
Boston University
National Emerging Infectious Disease Lab


Member
Boston University
Evans Center for Interdisciplinary Biomedical Research


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


Associate Director of Microbial Genome Analysis
Broad Institute


Member
Boston University
Genome Science Institute




Development of a Wearable Physiological Status Monitor
09/25/2018 - 09/24/2021 (PI)
Uniformed Services University of the Health Sciences Federal Medical School


Development of a Wearable Physiological Status Monitor
09/25/2018 - 09/24/2021 (Subcontract PI)
Uniformed Services University Health Sciences HJF AdvOfMilitaryMed


Chemical and biochemical determinants of phosphorothioate stability and location in bacterial genomes
08/01/2017 - 07/31/2020 (Subcontract PI)
Massachusetts Institute of Technology National Science Fdn
CHE-1709364

Global Mapping and Analysis of Bacterial Transcriptional Regulatory Network
06/01/2015 - 05/31/2020 (PI)
NIH/National Institute of General Medical Sciences
5R01GM114812-04

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


Systems Biology of the Circadian Clock Output Network
01/15/2015 - 06/30/2019 (Subcontract PI)
Texas A&M University NIH NIGMS
5R01GM113673-04

Predictive modeling of the Mycobacterium tuberculosis regulatory and metabolic networks
08/20/2016 - 01/31/2019 (PI)
NIH/National Institute of Allergy & Infectious Diseases
1R56AI119491-01A1

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


FUNCTIONAL ANALYSIS AND SYSTEMS BIOLOGY OF FILAMENTOUS FUNGI
07/01/2009 - 03/31/2014 (Subcontract PI)
Dartmouth College NIH NIGMS
5P01GM068087-10

A SYSTEMS BIOLOGY APPROACH TO INFECTIOUS DISEASE RESEARCH
09/26/2008 - 09/25/2013 (Subcontract PI)
Board of Trustees of the Leland Stanford Junior University NIH NIAID




Title


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 3
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 3
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 3
2016 Systems Biology of the Circadian Clock Output Network 3R01GM113673-02S1 3
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 3
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.

iCite Analysis       Copy PMIDs To Clipboard

  1. Chen M, Nguyen TT, Varongchayakul N, Grazon C, Chern M, Baer RC, Lecommandoux S, Klapperich CM, Galagan JE, Dennis AM, Grinstaff MW. Surface Immobilized Nucleic Acid-Transcription Factor Quantum Dots for Biosensing. Adv Healthc Mater. 2020 Jul 21; e2000403.View Related Profiles. PMID: 32691962
     
  2. Mejía-Almonte C, Busby SJW, Wade JT, van Helden J, Arkin AP, Stormo GD, Eilbeck K, Palsson BO, Galagan JE, Collado-Vides J. Redefining fundamental concepts of transcription initiation in bacteria. Nat Rev Genet. 2020 Jul 14. PMID: 32665585
     
  3. Wu X, Cao B, Aquino P, Chiu TP, Chen C, Jiang S, Deng Z, Chen S, Rohs R, Wang L, Galagan JE, Dedon PC. Epigenetic competition reveals density-dependent regulation and target site plasticity of phosphorothioate epigenetics in bacteria. Proc Natl Acad Sci U S A. 2020 Jun 23; 117(25):14322-14330. PMID: 32518115
     
  4. Nguyen TT, Chern M, Baer RC, Galagan J, Dennis AM. A Förster Resonance Energy Transfer-Based Ratiometric Sensor with the Allosteric Transcription Factor TetR. Small. 2020 Apr; 16(17):e1907522.View Related Profiles. PMID: 32249506
     
  5. Grazon C, Baer RC, Kuzmanovic U, Nguyen T, Chen M, Zamani M, Chern M, Aquino P, Zhang X, Lecommandoux S, Fan A, Cabodi M, Klapperich C, Grinstaff MW, Dennis AM, Galagan JE. A progesterone biosensor derived from microbial screening. Nat Commun. 2020 03 09; 11(1):1276.View Related Profiles. PMID: 32152281
     
  6. 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 01 08; 47(D1):D212-D220. PMID: 30395280
     
  7. 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
     
  8. 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
     
  9. 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
     
  10. 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;
     
Showing 10 of 83 results. Show More

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

Bar chart showing 83 publications over 22 distinct years, with a maximum of 8 publications in 2008

YearPublications
19851
19861
20012
20021
20031
20044
20056
20063
20076
20088
20097
20103
20116
20124
20136
20145
20154
20163
20174
20182
20191
20205

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

Computational Biology
Genomics
Infectious Diseases
Microbiology
Systems Biology
Tuberculosis
Contact for Mentoring:

24 Cummington St
Boston MA 02215
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