Maha Farhat

Maha Farhat, MD, MSc

Gilbert S. Omenn Associate Professor of Biomedical Informatics
Associate Director, Bioinformatics and Integrative Genomics (BIG) PhD Track

10 Shattuck Street #307, Boston, MA 02115

Farhat Lab

Maha Farhat  holds an MD from the McGill University Faculty of Medicine and a MSc in biostatistics from the Harvard Chan School of Public Health. She is also a practicing physician at the Massachusetts General Hospital Division of Pulmonary and Critical Care Medicine.

Dr. Farhat's research focuses on the development and application of methods for associating genotype and phenotype in infectious disease pathogens, with a strong emphasis on translation to better diagnostics and surveillance in resource-poor settings. To date, Farhat's work has focused on the pathogen Mycobacterium tuberculosis and spans the spectrum from computational analysis to field studies. She is PI and Co-Investigator on several large projects funded by NIH including the NIAID and the BD2K initiative.


DBMI Research Areas
Transcriptomic responses to antibiotic exposure in Mycobacterium tuberculosis.
Authors: Poonawala H, Zhang Y, Kuchibhotla S, Green AG, Cirillo DM, Di Marco F, Spitlaeri A, Miotto P, Farhat MR.
Antimicrob Agents Chemother
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Estimation of country-specific tuberculosis resistance antibiograms using pathogen genomics and machine learning.
Authors: Dixit A, Freschi L, Vargas R, Gröschel MI, Nakhoul M, Tahseen S, Alam SMM, Kamal SMM, Skrahina A, Basilio RP, Lim DR, Ismail N, Farhat MR.
BMJ Glob Health
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Analysis of the limited M. tuberculosis accessory genome reveals potential pitfalls of pan-genome analysis approaches.
Authors: Marin MG, Wippel C, Quinones-Olvera N, Behruznia M, Jeffrey BM, Harris M, Mann BC, Rosenthal A, Jacobson KR, Warren RM, Li H, Meehan CJ, Farhat MR.
bioRxiv
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Drug-resistant tuberculosis: a persistent global health concern.
Authors: Farhat M, Cox H, Ghanem M, Denkinger CM, Rodrigues C, Abd El Aziz MS, Enkh-Amgalan H, Vambe D, Ugarte-Gil C, Furin J, Pai M.
Nat Rev Microbiol
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Evaluating generalizability of artificial intelligence models for molecular datasets.
Authors: Ektefaie Y, Shen A, Bykova D, Marin M, Zitnik M, Farhat M.
bioRxiv
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Exploring gene content with pangenome gene graphs.
Authors: Li H, Marin M, Farhat MR.
ArXiv
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Genotype-Phenotype Characterization of Serial Mycobacterium tuberculosis Isolates in Bedaquiline-Resistant Tuberculosis.
Authors: Brown TS, Tang L, Omar SV, Joseph L, Meintjes G, Maartens G, Wasserman S, Shah NS, Farhat MR, Gandhi NR, Ismail N, Brust JCM, Mathema B.
Clin Infect Dis
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Phase variation as a major mechanism of adaptation in Mycobacterium tuberculosis complex.
Authors: Vargas R, Luna MJ, Freschi L, Marin M, Froom R, Murphy KC, Campbell EA, Ioerger TR, Sassetti CM, Farhat MR.
Proc Natl Acad Sci U S A
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Analysis of Genome-Wide Mutational Dependence in Naturally Evolving Mycobacterium tuberculosis Populations.
Authors: Green AG, Vargas R, Marin MG, Freschi L, Xie J, Farhat MR.
Mol Biol Evol
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Mutation rates and adaptive variation among the clinically dominant clusters of Mycobacterium abscessus.
Authors: Commins N, Sullivan MR, McGowen K, Koch EM, Rubin EJ, Farhat M.
Proc Natl Acad Sci U S A
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