Mary Dunlop, PhD
Associate Professor
Boston University College of Engineering
Biomedical Engineering

PhD, California Institute of Technology
MS, California Institute of Technology
BS, Princeton University

Mary Dunlop is an Associate Professor of Biomedical Engineering at Boston University with additional appointments in Molecular Biology, Cell Biology & Biochemistry and Bioinformatics. She graduated from Princeton University with a B.S.E. in Mechanical and Aerospace Engineering and a minor in Computer Science. She then received her Ph.D. from the California Institute of Technology, where she studied synthetic biology with a focus on dynamics and feedback in gene regulation. As a postdoctoral scholar, she conducted research on biofuel production at the Department of Energy’s Joint BioEnergy Institute. Her lab engineers novel synthetic feedback control systems and also studies naturally occurring examples of feedback in gene regulation. In recognition of her outstanding research and service contributions, she has received many honors including a Department of Energy Early Career Award, a National Science Foundation CAREER Award, and the ACS Synthetic Biology Young Investigator Award.

Transitions: Deep learning models for microbial image analysis and time-series predictions
01/01/2022 - 12/31/2024 (PI)
National Science Foundation

Cell-to-cell heterogeneity and the emergence of antibiotic resistance
06/05/2019 - 05/31/2024 (PI)
NIH/National Institute of Allergy & Infectious Diseases

High-throughput chemical imaging for optimizing biofuel synthesis using synthetic biology
09/15/2018 - 09/14/2023 (Multi-PI)
PI: Mary Dunlop, PhD
Department of Energy

Single-cell feedback, optogenetics, and deep learning to control gene expression in bacteria
08/15/2020 - 07/31/2023 (PI)
National Science Foundation

Quantifying Clostridioides difficile single-cell growth dynamics using time-lapse microscopy
01/15/2021 - 06/30/2023 (Subcontract PI)
Trustees of Tufts College Inc NIH NIAID

Exploiting dynamics and cell-to-cell variation in metabolic engineering
07/01/2018 - 06/30/2022 (PI)
National Science Foundation

Efflux pumps and the emergence of antibiotic resistance in single cells
02/01/2018 - 01/31/2021 (PI)
NIH/National Institute of Allergy & Infectious Diseases

CAREER: Tunable Dynamics from Interlinked Feedback Loops in Synthetic and Natural Gene Circuits
01/01/2017 - 08/31/2020 (PI)
National Science Foundation

Feedback and Noise in a Multiple Antibiotic Resistance Circuit
02/01/2017 - 06/04/2019 (PI)
NIH/National Institute of Allergy & Infectious Diseases

Achieving Closed-loop RNA-based Control with a Cell-free Testbed
01/01/2017 - 03/28/2018 (Subcontract PI)
Regents of the University of Minnesota DOD DARPA


Yr Title Project-Sub Proj Pubs
2023 Cell-to-cell heterogeneity and the emergence of antibiotic resistance 3R01AI102922-09S1
2022 Cell-to-cell heterogeneity and the emergence of antibiotic resistance 5R01AI102922-09
2021 Cell-to-cell heterogeneity and the emergence of antibiotic resistance 5R01AI102922-08 12
2020 Cell-to-cell heterogeneity and the emergence of antibiotic resistance 5R01AI102922-07 12
2019 Efflux pumps and the emergence of antibiotic resistance in single cells 5R21AI137843-02 2
2019 Cell-to-cell heterogeneity and the emergence of antibiotic resistance 2R01AI102922-06 12
2018 Efflux pumps and the emergence of antibiotic resistance in single cells 1R21AI137843-01 2
2018 Feedback and Noise in a Multiple Antibiotic Resistance Circuit 5R01AI102922-05 12
2017 Feedback and Noise in a Multiple Antibiotic Resistance Circuit 7R01AI102922-04 12
2016 Feedback and Noise in a Multiple Antibiotic Resistance Circuit 5R01AI102922-03 12
Showing 10 of 12 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.

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  1. Tague EP, McMahan JB, Tague N, Dunlop MJ, Ngo JT. Controlled protein activities with viral proteases, antiviral peptides, and antiviral drugs. bioRxiv. 2023 Feb 27.View Related Profiles. PMID: 36909459; PMCID: PMC10002686; DOI: 10.1101/2023.02.27.530290;
  2. Tague N, Coriano-Ortiz C, Sheets MB, Dunlop MJ. Light inducible protein degradation in E. coli with LOVtag. bioRxiv. 2023 Feb 26. PMID: 36865169; PMCID: PMC9980293; DOI: 10.1101/2023.02.25.530042;
  3. Sheets MB, Tague N, Dunlop MJ. An optogenetic toolkit for light-inducible antibiotic resistance. Nat Commun. 2023 Feb 23; 14(1):1034. PMID: 36823420; PMCID: PMC9950086; DOI: 10.1038/s41467-023-36670-2;
  4. Alnahhas RN, Dunlop MJ. Advances in linking single-cell bacterial stress response to population-level survival. Curr Opin Biotechnol. 2023 Feb; 79:102885. PMID: 36641904; PMCID: PMC9899315; DOI: 10.1016/j.copbio.2022.102885;
  5. Zhang J, Shin J, Tague N, Lin H, Zhang M, Ge X, Wong W, Dunlop MJ, Cheng JX. Visualization of a Limonene Synthesis Metabolon Inside Living Bacteria by Hyperspectral SRS Microscopy. Adv Sci (Weinh). 2022 Nov; 9(32):e2203887.View Related Profiles. PMID: 36169112; PMCID: PMC9661820; DOI: 10.1002/advs.202203887;
  6. Beardall WAV, Stan GB, Dunlop MJ. Deep Learning Concepts and Applications for Synthetic Biology. GEN Biotechnol. 2022 Aug 01; 1(4):360-371. PMID: 36061221; PMCID: PMC9428732; DOI: 10.1089/genbio.2022.0017;
  7. Shin J, South EJ, Dunlop MJ. Transcriptional Tuning of Mevalonate Pathway Enzymes to Identify the Impact on Limonene Production in Escherichia coli. ACS Omega. 2022 Jun 07; 7(22):18331-18338. PMID: 35694509; PMCID: PMC9178717; DOI: 10.1021/acsomega.2c00483;
  8. Sampaio NMV, Blassick CM, Andreani V, Lugagne JB, Dunlop MJ. Dynamic gene expression and growth underlie cell-to-cell heterogeneity in Escherichia coli stress response. Proc Natl Acad Sci U S A. 2022 Apr 05; 119(14):e2115032119.View Related Profiles. PMID: 35344432; PMCID: PMC9168488; DOI: 10.1073/pnas.2115032119;
  9. Lugagne JB, Dunlop MJ. Anticipating antibiotic resistance. Science. 2022 02 25; 375(6583):818-819. PMID: 35201873; DOI: 10.1126/science.abn9969;
  10. O'Connor OM, Alnahhas RN, Lugagne JB, Dunlop MJ. DeLTA 2.0: A deep learning pipeline for quantifying single-cell spatial and temporal dynamics. PLoS Comput Biol. 2022 01; 18(1):e1009797. PMID: 35041653; PMCID: PMC8797229; DOI: 10.1371/journal.pcbi.1009797;
Showing 10 of 51 results. Show More

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

Bar chart showing 51 publications over 16 distinct years, with a maximum of 6 publications in 2018 and 2020 and 2022


2022 National Science Foundation: Transitions Award
2020 College of Engineering: Teaching Excellence Award
2019 Biomedical Engineering: Professor of the Year
2017 ACS: Synthetic Biology Young Investigator
2015 University of Vermont, Graduate Student Senate: Nominee for Outstanding Faculty Advisor Award
2014 National Science Foundation : CAREER Award
2013 University of Vermont, College of Engineering and Mathematical Sciences: Outstanding Junior Faculty Award
2011 Department of Energy: Early Career Award
2008 California Institute of Technology: Dean’s Award for Community Service
2004 American Control Conference: Best Student Paper
2002-2006 Department of Energy: Computational Science Graduate Fellowship
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44 Cummington St
Boston MA 02118
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