Harvard Catalyst Profiles

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Maha Reda Farhat, M.D.,C.M., M.D.


Available: 04/05/22, Expires: 06/01/23

The Harvard Medical School Department of Biomedical Informatics is seeking a highly motivated student to work on the project titled: “Human adaptation and transmissibility of Mycobacterium tuberculosis genetic lineages. A genomic epidemiology study to guide TB control.” The student will work with infectious disease contact tracing data and apply regression on clinical and environmental variables with the additional option of working with pathogen genomics if they are interested. The student will gain experience in respiratory pathogen transmission, regression, control for confounding and causal inference. Position to start immediately. Student can choose to stay virtual if they prefer this or attend group meetings and 1:1 meetings in person. Duration of the project is 6-12 months with the option to extend to 18 months depending on the student’s time frame. Contact: Maha Farhat, MD MSc, Assistant Professor of Biomedical Informatics, Maha_Farhat@hms.harvard.edu

The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
  1. R21AI154089 (FARHAT, MAHA) Apr 5, 2021 - Mar 31, 2023
    Human adaptation and transmissibility of Mycobacterium tuberculosis genetic lineages. A genomic epidemiology study to guide TB control
    Role: Principal Investigator
  2. R01AI155765 (FARHAT, MAHA) Sep 22, 2020 - Aug 31, 2025
    Investigating bacterial contributions to TB treatment response: a focus on in-host pathogen dynamics
    Role: Principal Investigator
  3. K01ES026835 (FARHAT, MAHA) Sep 30, 2015 - Jul 31, 2020
    New Tools for the interpretation of Pathogen Genomic Data with a focus on Mycobacterium tuberculosis
    Role: Principal Investigator

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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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Ness TE, Meiwes L, Kay A, Mejia R, Lange C, Farhat M, Mandalakas A, DiNardo A. Optimizing DNA Extraction from Pediatric Stool for Diagnosis of Tuberculosis and Use in Next-Generation Sequencing Applications. Microbiol Spectr. 2022 Dec 08; e0226922. PMID: 36475757.
    Citations:    Fields:    
  2. Atre S, Chatterjee A, Farhat M. COVID-19 and global childhood tuberculosis notifications. Lancet Glob Health. 2022 12; 10(12):e1691-e1692. PMID: 36400072; PMCID: PMC9671639.
    Citations:    Fields:    Translation:Humans
  3. Ness TE, DiNardo A, Farhat MR. High Throughput Sequencing for Clinical Tuberculosis: An Overview. Pathogens. 2022 Nov 14; 11(11). PMID: 36422596; PMCID: PMC9695813.
  4. Mave V, Chen L, Ranganathan UD, Kadam D, Vishwanathan V, Lokhande R, S SK, Kagal A, Pradhan NN, Shivakumar SVBY, Paradkar MS, Deshmukh S, Tornheim JA, Kornfeld H, Farhat M, Gupta A, Padmapriyadarsini C, Gupte N, Golub JE, Mathema B, Kreiswirth BN. Whole Genome Sequencing Assessing Impact of Diabetes Mellitus on Tuberculosis Mutations and Type of Recurrence in India. Clin Infect Dis. 2022 09 14; 75(5):768-776. PMID: 34984435; PMCID: PMC9477453.
    Citations:    Fields:    
  5. Koch EM, Du J, Dressner M, Alwasti HE, Taif ZA, Shehab F, Mohamed AM, Ghanem A, Haghighi A, Sunyaev S, Farhat M. Demographic and Viral-Genetic Analyses of COVID-19 Severity in Bahrain Identify Local Risk Factors and a Protective Effect of Polymerase Mutations. medRxiv. 2022 Aug 16. PMID: 36032980; PMCID: PMC9413726.
  6. Green AG, Yoon CH, Chen ML, Ektefaie Y, Fina M, Freschi L, Gröschel MI, Kohane I, Beam A, Farhat M. A convolutional neural network highlights mutations relevant to antimicrobial resistance in Mycobacterium tuberculosis. Nat Commun. 2022 07 02; 13(1):3817. PMID: 35780211; PMCID: PMC9250494.
    Citations:    Fields:    Translation:HumansCells
  7. Walker TM, Miotto P, Köser CU, Fowler PW, Knaggs J, Iqbal Z, Hunt M, Chindelevitch L, Farhat M, Cirillo DM, Comas I, Posey J, Omar SV, Peto TE, Suresh A, Uplekar S, Laurent S, Colman RE, Nathanson CM, Zignol M, Walker AS, Crook DW, Ismail N, Rodwell TC. The 2021 WHO catalogue of Mycobacterium tuberculosis complex mutations associated with drug resistance: A genotypic analysis. Lancet Microbe. 2022 04; 3(4):e265-e273. PMID: 35373160; PMCID: PMC7612554.
    Citations: 4     Translation:Cells
  8. Marin M, Vargas R, Harris M, Jeffrey B, Epperson LE, Durbin D, Strong M, Salfinger M, Iqbal Z, Akhundova I, Vashakidze S, Crudu V, Rosenthal A, Farhat MR. Benchmarking the empirical accuracy of short-read sequencing across the M. tuberculosis genome. Bioinformatics. 2022 03 28; 38(7):1781-1787. PMID: 35020793; PMCID: PMC8963317.
    Citations: 1     Fields:    
  9. Atre SR, Jagtap JD, Faqih MI, Dumbare YK, Sawant TU, Ambike SL, Bhawalkar JS, Bharaswadkar SK, Jogewar PK, Adkekar RS, Hodgar BP, Jadhav V, Mokashi ND, Golub JE, Dixit A, Farhat MR. Tuberculosis Pathways to Care and Transmission of Multidrug Resistance in India. Am J Respir Crit Care Med. 2022 01 15; 205(2):233-241. PMID: 34706203; PMCID: PMC8787245.
    Citations: 1     Fields:    Translation:HumansCells
  10. Freschi L, Vargas R, Husain A, Kamal SMM, Skrahina A, Tahseen S, Ismail N, Barbova A, Niemann S, Cirillo DM, Dean AS, Zignol M, Farhat MR. Population structure, biogeography and transmissibility of Mycobacterium tuberculosis. Nat Commun. 2021 10 20; 12(1):6099. PMID: 34671035.
    Citations: 7     Fields:    Translation:HumansCells
  11. Gaitanidis A, Kaafarani HMA, Christensen MA, Breen K, Mendoza A, Fagenholz PJ, Velmahos GC, Farhat MR. Association Between NEDD4L Variation and the Genetic Risk of Acute Appendicitis: A Multi-institutional Genome-Wide Association Study. JAMA Surg. 2021 10 01; 156(10):917-923. PMID: 34319380; PMCID: PMC8319828.
    Citations: 1     Fields:    Translation:Humans
  12. El Halabi J, Palmer N, Fox K, Kohane I, Farhat MR. Fecal microbiota transplantation and Clostridioides difficile infection among privately insured patients in the United States. J Gastroenterol. 2022 01; 57(1):10-18. PMID: 34495400.
    Citations:    Fields:    Translation:HumansCells
  13. Vargas R, Freschi L, Spitaleri A, Tahseen S, Barilar I, Niemann S, Miotto P, Cirillo DM, Köser CU, Farhat MR. Role of Epistasis in Amikacin, Kanamycin, Bedaquiline, and Clofazimine Resistance in Mycobacterium tuberculosis Complex. Antimicrob Agents Chemother. 2021 10 18; 65(11):e0116421. PMID: 34460306; PMCID: PMC8522733.
    Citations: 10     Fields:    Translation:HumansCells
  14. Gröschel MI, Owens M, Freschi L, Vargas R, Marin MG, Phelan J, Iqbal Z, Dixit A, Farhat MR. GenTB: A user-friendly genome-based predictor for tuberculosis resistance powered by machine learning. Genome Med. 2021 08 30; 13(1):138. PMID: 34461978; PMCID: PMC8407037.
    Citations: 4     Fields:    Translation:Humans
  15. Alser O, Mokhtari A, Naar L, Langeveld K, Breen KA, El Moheb M, Kapoen C, Gaitanidis A, Christensen MA, Maurer LR, Mashbari H, Bankhead-Kendall B, Parks J, Fawley J, Saillant N, Mendoza A, Paranjape C, Fagenholz P, King D, Lee J, Farhat MR, Velmahos GC, Kaafarani HMA. Multisystem outcomes and predictors of mortality in critically ill patients with COVID-19: Demographics and disease acuity matter more than comorbidities or treatment modalities. J Trauma Acute Care Surg. 2021 05 01; 90(5):880-890. PMID: 33891572.
    Citations: 6     Fields:    Translation:HumansCells
  16. AlJindan R, AlEraky DM, Borgio JF, AbdulAzeez S, Abdalhamid B, Mahmoud N, Farhat M. Diagnostic deficiencies of C. difficile infection among patients in a tertiary hospital in Saudi Arabia: A laboratory-based case series. Saudi J Biol Sci. 2021 Aug; 28(8):4472-4477. PMID: 34354432.
    Citations: 2     
  17. El Halabi J, Palmer N, McDuffie M, Golub JJ, Fox K, Kohane I, Farhat MR. Measuring health-care delays among privately insured patients with tuberculosis in the USA: an observational cohort study. Lancet Infect Dis. 2021 08; 21(8):1175-1183. PMID: 33770534.
    Citations: 3     Fields:    Translation:Humans
  18. Vargas R, Freschi L, Marin M, Epperson LE, Smith M, Oussenko I, Durbin D, Strong M, Salfinger M, Farhat MR. In-host population dynamics of Mycobacterium tuberculosis complex during active disease. Elife. 2021 02 01; 10. PMID: 33522489; PMCID: PMC7884073.
    Citations: 9     Fields:    Translation:HumansCells
  19. Ektefaie Y, Dixit A, Freschi L, Farhat MR. Globally diverse Mycobacterium tuberculosis resistance acquisition: a retrospective geographical and temporal analysis of whole genome sequences. Lancet Microbe. 2021 03; 2(3):e96-e104. PMID: 33912853; PMCID: PMC8078851.
    Citations: 9     Translation:HumansCells
  20. Lemieux JE, Siddle KJ, Shaw BM, Loreth C, Schaffner SF, Gladden-Young A, Adams G, Fink T, Tomkins-Tinch CH, Krasilnikova LA, DeRuff KC, Rudy M, Bauer MR, Lagerborg KA, Normandin E, Chapman SB, Reilly SK, Anahtar MN, Lin AE, Carter A, Myhrvold C, Kemball ME, Chaluvadi S, Cusick C, Flowers K, Neumann A, Cerrato F, Farhat M, Slater D, Harris JB, Branda JA, Hooper D, Gaeta JM, Baggett TP, O'Connell J, Gnirke A, Lieberman TD, Philippakis A, Burns M, Brown CM, Luban J, Ryan ET, Turbett SE, LaRocque RC, Hanage WP, Gallagher GR, Madoff LC, Smole S, Pierce VM, Rosenberg E, Sabeti PC, Park DJ, MacInnis BL. Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events. Science. 2021 02 05; 371(6529). PMID: 33303686; PMCID: PMC7857412.
    Citations: 89     Fields:    Translation:HumansCellsPHPublic Health
  21. El Moheb M, Naar L, Christensen MA, Kapoen C, Maurer LR, Farhat M, Kaafarani HMA. Gastrointestinal Complications in Critically Ill Patients With and Without COVID-19. JAMA. 2020 Nov 10; 324(18):1899-1901. PMID: 32970139; PMCID: PMC7516799.
    Citations: 46     Fields:    Translation:Humans
  22. Rankin NA, Gröschel MI, Farhat MR. Mentorship at a distance. Science. 2020 Oct 23; 370(6515):494. PMID: 33093113.
    Citations:    Fields:    
  23. Lemieux JE, Siddle KJ, Shaw BM, Loreth C, Schaffner SF, Gladden-Young A, Adams G, Fink T, Tomkins-Tinch CH, Krasilnikova LA, DeRuff KC, Rudy M, Bauer MR, Lagerborg KA, Normandin E, Chapman SB, Reilly SK, Anahtar MN, Lin AE, Carter A, Myhrvold C, Kemball ME, Chaluvadi S, Cusick C, Flowers K, Neumann A, Cerrato F, Farhat M, Slater D, Harris JB, Branda J, Hooper D, Gaeta JM, Baggett TP, O'Connell J, Gnirke A, Lieberman TD, Philippakis A, Burns M, Brown CM, Luban J, Ryan ET, Turbett SE, LaRocque RC, Hanage WP, Gallagher GR, Madoff LC, Smole S, Pierce VM, Rosenberg E, Sabeti PC, Park DJ, Maclnnis BL. Phylogenetic analysis of SARS-CoV-2 in the Boston area highlights the role of recurrent importation and superspreading events. medRxiv. 2020 Aug 25. PMID: 32869040; PMCID: PMC7457619.
    Citations: 3     
  24. Kadura S, King N, Nakhoul M, Zhu H, Theron G, Köser CU, Farhat M. Systematic review of mutations associated with resistance to the new and repurposed Mycobacterium tuberculosis drugs bedaquiline, clofazimine, linezolid, delamanid and pretomanid. J Antimicrob Chemother. 2020 08 01; 75(8):2031-2043. PMID: 32361756.
    Citations: 29     Fields:    Translation:HumansCells
  25. 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. Identification of a new genetic variant associated with cholecystitis: A multicenter genome-wide association study. J Trauma Acute Care Surg. 2020 07; 89(1):173-178. PMID: 32118827.
    Citations: 1     Fields:    Translation:HumansCells
  26. 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. The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia. Nat Commun. 2020 04 27; 11(1):2044. PMID: 32341346.
    Citations: 23     Fields:    Translation:HumansCells
  27. Vargas R, Farhat MR. Antibiotic treatment and selection for glpK mutations in patients with active tuberculosis disease. Proc Natl Acad Sci U S A. 2020 02 25; 117(8):3910-3912. PMID: 32075922.
    Citations: 6     Fields:    Translation:HumansCells
  28. Hunt M, Bradley P, Lapierre SG, Heys S, Thomsit M, Hall MB, Malone KM, Wintringer P, Walker TM, Cirillo DM, Comas I, Farhat MR, Fowler P, Gardy J, Ismail N, Kohl TA, Mathys V, Merker M, Niemann S, Omar SV, Sintchenko V, Smith G, van Soolingen D, Supply P, Tahseen S, Wilcox M, Arandjelovic I, Peto TEA, Crook DW, Iqbal Z. Antibiotic resistance prediction for Mycobacterium tuberculosis from genome sequence data with Mykrobe. Wellcome Open Res. 2019; 4:191. PMID: 32055708; PMCID: PMC7004237.
    Citations: 22     
  29. 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. Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues. Nat Rev Microbiol. 2019 09; 17(9):533-545. PMID: 31209399.
    Citations: 76     Fields:    Translation:HumansCells
  30. Farhat MR, Sixsmith J, Calderon R, Hicks ND, Fortune SM, Murray M. Rifampicin and rifabutin resistance in 1003 Mycobacterium tuberculosis clinical isolates. J Antimicrob Chemother. 2019 06 01; 74(6):1477-1483. PMID: 30793747.
    Citations: 11     Fields:    Translation:HumansCells
  31. 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. GWAS for quantitative resistance phenotypes in Mycobacterium tuberculosis reveals resistance genes and regulatory regions. Nat Commun. 2019 05 13; 10(1):2128. PMID: 31086182.
    Citations: 45     Fields:    Translation:HumansCells
  32. Chen ML, Doddi A, Royer J, Freschi L, Schito M, Ezewudo M, Kohane IS, Beam A, Farhat M. Beyond multidrug resistance: Leveraging rare variants with machine and statistical learning models in Mycobacterium tuberculosis resistance prediction. EBioMedicine. 2019 May; 43:356-369. PMID: 31047860.
    Citations: 15     Fields:    Translation:HumansCells
  33. 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. Whole genome sequencing identifies bacterial factors affecting transmission of multidrug-resistant tuberculosis in a high-prevalence setting. Sci Rep. 2019 04 03; 9(1):5602. PMID: 30944370.
    Citations: 7     Fields:    Translation:HumansCells
  34. Schubert B, Maddamsetti R, Nyman J, Farhat MR, Marks DS. Genome-wide discovery of epistatic loci affecting antibiotic resistance in Neisseria gonorrhoeae using evolutionary couplings. Nat Microbiol. 2019 02; 4(2):328-338. PMID: 30510172; PMCID: PMC6663919.
    Citations: 15     Fields:    Translation:HumansCells
  35. Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, Golubchik T, Gonzalo X, Grandjean L, He G, Guthrie JL, Hoosdally S, Hunt M, Iqbal Z, Ismail N, Johnston J, Khanzada FM, Khor CC, Kohl TA, Kong C, Lipworth S, Liu Q, Maphalala G, Martinez E, Mathys V, Merker M, Miotto P, Mistry N, Moore DAJ, Murray M, Niemann S, Omar SV, Ong RT, Peto TEA, Posey JE, Prammananan T, Pym A, Rodrigues C, Rodrigues M, Rodwell T, Rossolini GM, Sánchez Padilla E, Schito M, Shen X, Shendure J, Sintchenko V, Sloutsky A, Smith EG, Snyder M, Soetaert K, Starks AM, Supply P, Suriyapol P, Tahseen S, Tang P, Teo YY, Thuong TNT, Thwaites G, Tortoli E, van Soolingen D, Walker AS, Walker TM, Wilcox M, Wilson DJ, Wyllie D, Yang Y, Zhang H, Zhao Y, Zhu B. Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing. N Engl J Med. 2018 10 11; 379(15):1403-1415. PMID: 30280646; PMCID: PMC6121966.
    Citations: 142     Fields:    Translation:HumansCells
  36. Pollock N, Dhiman R, Daifalla N, Farhat M, Campos-Neto A. Discovery of a unique Mycobacterium tuberculosis protein through proteomic analysis of urine from patients with active tuberculosis. Microbes Infect. 2018 04; 20(4):228-235. PMID: 29306028; PMCID: PMC5946903.
    Citations: 2     Fields:    Translation:HumansCells
  37. Farhat MR, Jacobson KR, Franke MF, Kaur D, Murray M, Mitnick CD. Fluoroquinolone Resistance Mutation Detection Is Equivalent to Culture-Based Drug Sensitivity Testing for Predicting Multidrug-Resistant Tuberculosis Treatment Outcome: A Retrospective Cohort Study. Clin Infect Dis. 2017 Oct 15; 65(8):1364-1370. PMID: 29017248; PMCID: PMC5850426.
    Citations: 5     Fields:    Translation:HumansCells
  38. Nebenzahl-Guimaraes H, van Laarhoven A, Farhat MR, Koeken VACM, Mandemakers JJ, Zomer A, van Hijum SAFT, Netea MG, Murray M, van Crevel R, van Soolingen D. Transmissible Mycobacterium tuberculosis Strains Share Genetic Markers and Immune Phenotypes. Am J Respir Crit Care Med. 2017 06 01; 195(11):1519-1527. PMID: 27997216; PMCID: PMC5803666.
    Citations: 15     Fields:    Translation:Cells
  39. 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 09 01; 194(5):621-30. PMID: 26910495; PMCID: PMC5027209.
    Citations: 59     Fields:    Translation:HumansCells
  40. Andre E, Isaacs C, Affolabi D, Alagna R, Brockmann D, de Jong BC, Cambau E, Churchyard G, Cohen T, Delmee M, Delvenne JC, Farhat M, Habib A, Holme P, Keshavjee S, Khan A, Lightfoot P, Moore D, Moreno Y, Mundade Y, Pai M, Patel S, Nyaruhirira AU, Rocha LE, Takle J, Trébucq A, Creswell J, Boehme C. Connectivity of diagnostic technologies: improving surveillance and accelerating tuberculosis elimination. Int J Tuberc Lung Dis. 2016 08; 20(8):999-1003. PMID: 27393530; PMCID: PMC4937753.
    Citations: 12     Fields:    Translation:HumansPHPublic Health
  41. Farhat MR, Jacobson KR, Franke MF, Kaur D, Sloutsky A, Mitnick CD, Murray M. Gyrase Mutations Are Associated with Variable Levels of Fluoroquinolone Resistance in Mycobacterium tuberculosis. J Clin Microbiol. 2016 Mar; 54(3):727-33. PMID: 26763957; PMCID: PMC4767988.
    Citations: 27     Fields:    Translation:HumansCells
  42. Ramly EP, Bohnen JD, Farhat MR, Razmdjou S, Mavros MN, Yeh DD, Lee J, Butler K, De Moya M, Velmahos GC, Kaafarani HM. The nature, patterns, clinical outcomes, and financial impact of intraoperative adverse events in emergency surgery. Am J Surg. 2016 Jul; 212(1):16-23. PMID: 26601649.
    Citations: 2     Fields:    Translation:Humans
  43. Farhat MR, Mitnick CD, Franke MF, Kaur D, Sloutsky A, Murray M, Jacobson KR. Concordance of Mycobacterium tuberculosis fluoroquinolone resistance testing: implications for treatment. Int J Tuberc Lung Dis. 2015 Mar; 19(3):339-41. PMID: 25686144; PMCID: PMC4486051.
    Citations: 9     Fields:    Translation:HumansCells
  44. Farhat MR, Shapiro BJ, Sheppard SK, Colijn C, Murray M. A phylogeny-based sampling strategy and power calculator informs genome-wide associations study design for microbial pathogens. Genome Med. 2014; 6(11):101. PMID: 25484920; PMCID: PMC4256898.
    Citations: 18     Fields:    
  45. Nebenzahl-Guimaraes H, Jacobson KR, Farhat MR, Murray MB. Systematic review of allelic exchange experiments aimed at identifying mutations that confer drug resistance in Mycobacterium tuberculosis. J Antimicrob Chemother. 2014 Feb; 69(2):331-42. PMID: 24055765.
    Citations: 44     Fields:    Translation:HumansAnimalsCells
  46. Farhat MR, Shapiro BJ, Kieser KJ, Sultana R, Jacobson KR, Victor TC, Warren RM, Streicher EM, Calver A, Sloutsky A, Kaur D, Posey JE, Plikaytis B, Oggioni MR, Gardy JL, Johnston JC, Rodrigues M, Tang PK, Kato-Maeda M, Borowsky ML, Muddukrishna B, Kreiswirth BN, Kurepina N, Galagan J, Gagneux S, Birren B, Rubin EJ, Lander ES, Sabeti PC, Murray M. Genomic analysis identifies targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis. Nat Genet. 2013 Oct; 45(10):1183-9. PMID: 23995135.
    Citations: 190     Fields:    Translation:Cells
  47. Farhat MR, Loring SH, Riskind P, Weinhouse G. Disturbance of respiratory muscle control in a patient with early-stage multiple sclerosis. Eur Respir J. 2013 Jun; 41(6):1454-6. PMID: 23728406.
    Citations: 2     Fields:    Translation:Humans
  48. Karvellas CJ, Farhat MR, Sajjad I, Mogensen SS, Leung AA, Wald R, Bagshaw SM. A comparison of early versus late initiation of renal replacement therapy in critically ill patients with acute kidney injury: a systematic review and meta-analysis. Crit Care. 2011; 15(1):R72. PMID: 21352532.
    Citations: 129     Fields:    Translation:Humans
  49. Colijn C, Brandes A, Zucker J, Lun DS, Weiner B, Farhat MR, Cheng TY, Moody DB, Murray M, Galagan JE. Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production. PLoS Comput Biol. 2009 Aug; 5(8):e1000489. PMID: 19714220.
    Citations: 183     Fields:    Translation:Cells
  50. Menzies D, Gardiner G, Farhat M, Greenaway C, Pai M. Thinking in three dimensions: a web-based algorithm to aid the interpretation of tuberculin skin test results. Int J Tuberc Lung Dis. 2008 May; 12(5):498-505. PMID: 18419884.
    Citations: 31     Fields:    Translation:Humans
  51. Cobelens FG, Menzies D, Farhat M. False-positive tuberculin reactions due to non-tuberculous mycobacterial infections. Int J Tuberc Lung Dis. 2007 Aug; 11(8):934-5;author reply 935. PMID: 17705966.
    Citations: 3     Fields:    Translation:HumansCells
  52. Farhat M, Greenaway C, Pai M, Menzies D. False-positive tuberculin skin tests: what is the absolute effect of BCG and non-tuberculous mycobacteria? Int J Tuberc Lung Dis. 2006 Nov; 10(11):1192-204. PMID: 17131776.
    Citations: 218     Fields:    Translation:HumansCells
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.