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
The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia.
Authors: Gröschel MI, Meehan CJ, Barilar I, Diricks M, Gonzaga A, Steglich M, Conchillo-Solé O, Scherer IC, Mamat U, Luz CF, De Bruyne K, Utpatel C, Yero D, Gibert I, Daura X, Kampmeier S, Rahman NA, Kresken M, van der Werf TS, Alio I, Streit WR, Zhou K, Schwartz T, Rossen JWA, Farhat MR, Schaible UE, Nübel U, Rupp J, Steinmann J, Niemann S, Kohl TA.
Nat Commun
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Identification of a new genetic variant associated with cholecystitis: a multicenter genome-wide association study.
Authors: Bonde A, Gaitanidis A, Breen K, El Hechi M, Nederpelt C, Christensen M, Kokoroskos N, Mendoza A, Velmahos G, Sillesen M, Farhat MR, Kaafarani HMA.
J Trauma Acute Care Surg
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Antibiotic treatment and selection for glpK mutations in patients with active tuberculosis disease.
Authors: Vargas R, Farhat MR.
Proc Natl Acad Sci U S A
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Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues.
Authors: Meehan CJ, Goig GA, Kohl TA, Verboven L, Dippenaar A, Ezewudo M, Farhat MR, Guthrie JL, Laukens K, Miotto P, Ofori-Anyinam B, Dreyer V, Supply P, Suresh A, Utpatel C, van Soolingen D, Zhou Y, Ashton PM, Brites D, Cabibbe AM, de Jong BC, de Vos M, Menardo F, Gagneux S, Gao Q, Heupink TH, Liu Q, Loiseau C, Rigouts L, Rodwell TC, Tagliani E, Walker TM, Warren RM, Zhao Y, Zignol M, Schito M, Gardy J, Cirillo DM, Niemann S, Comas I, Van Rie A.
Nat Rev Microbiol
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GWAS for quantitative resistance phenotypes in Mycobacterium tuberculosis reveals resistance genes and regulatory regions.
Authors: Farhat MR, Freschi L, Calderon R, Ioerger T, Snyder M, Meehan CJ, de Jong B, Rigouts L, Sloutsky A, Kaur D, Sunyaev S, van Soolingen D, Shendure J, Sacchettini J, Murray M.
Nat Commun
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Beyond multidrug resistance: Leveraging rare variants with machine and statistical learning models in Mycobacterium tuberculosis resistance prediction.
Authors: Chen ML, Doddi A, Royer J, Freschi L, Schito M, Ezewudo M, Kohane IS, Beam A, Farhat M.
EBioMedicine
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Whole genome sequencing identifies bacterial factors affecting transmission of multidrug-resistant tuberculosis in a high-prevalence setting.
Authors: Dixit A, Freschi L, Vargas R, Calderon R, Sacchettini J, Drobniewski F, Galea JT, Contreras C, Yataco R, Zhang Z, Lecca L, Kolokotronis SO, Mathema B, Farhat MR.
Sci Rep
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Rifampicin and rifabutin resistance in 1003 Mycobacterium tuberculosis clinical isolates.
Authors: Farhat MR, Sixsmith J, Calderon R, Hicks ND, Fortune SM, Murray M.
J Antimicrob Chemother
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Metagenomic study on the composition of culturable and non-culturable bacteria in tap water and biofilms at intensive care units.
Authors: Farhat M, Alkharsah KR, Alkhamis FI, Bukharie HA.
J Water Health
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Genome-wide discovery of epistatic loci affecting antibiotic resistance in Neisseria gonorrhoeae using evolutionary couplings.
Authors: Schubert B, Maddamsetti R, Nyman J, Farhat MR, Marks DS.
Nat Microbiol
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