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Manish Chandra Choudhary, Ph.D.

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Jamia Millia Islamia, New Delhi, IndiaPhD2015Biological Sciences
MSLS, Manipal, IndiaMS2007Molecular Biology & Human Genetics
Postdoctoral Scholar Award for Excellence in Mentoring
2016 - 2019
Young Scientist award
2015 - 2015
Best paper Award
2010 - 2010
Young Investigator Travel award


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. Boucau J, Marino C, Regan J, Uddin R, Choudhary MC, Flynn JP, Chen G, Stuckwisch AM, Mathews J, Liew MY, Singh A, Lipiner T, Kittilson A, Melberg M, Li Y, Gilbert RF, Reynolds Z, Iyer SL, Chamberlin GC, Vyas TD, Goldberg MB, Vyas JM, Li JZ, Lemieux JE, Siedner MJ, Barczak AK. Duration of Shedding of Culturable Virus in SARS-CoV-2 Omicron (BA.1) Infection. N Engl J Med. 2022 Jun 29. PMID: 35767428.
  2. Boucau J, Uddin R, Marino C, Regan J, Flynn JP, Choudhary MC, Chen G, Stuckwisch AM, Mathews J, Liew MY, Singh A, Reynolds Z, Iyer SL, Chamberlin GC, Vyas TD, Vyas JM, Turbett SE, Li JZ, Lemieux JE, Barczak AK, Siedner MJ. Characterization of virologic rebound following nirmatrelvir-ritonavir treatment for COVID-19. Clin Infect Dis. 2022 Jun 23. PMID: 35737946.
  3. North CM, Barczak A, Goldstein RH, Healy BC, Finkelstein DM, Ding DD, Kim A, Boucau J, Shaw B, Gilbert RF, Vyas T, Reynolds Z, Siddle KJ, MacInnis BL, Regan J, Flynn JP, Choudhary MC, Vyas JM, Laskowski K, Dighe AS, Lemieux JE, Li JZ, Baden LR, Siedner MJ, Woolley AE, Sacks CA. Determining the Incidence of Asymptomatic SARS-CoV-2 Among Early Recipients of COVID-19 Vaccines (DISCOVER-COVID-19): A Prospective Cohort Study of Healthcare Workers Before, During and After Vaccination. Clin Infect Dis. 2022 04 09; 74(7):1275-1278. PMID: 34363462.
    Citations: 7     Fields:    Translation:HumansCellsPHPublic Health
  4. Das Adhikari U, Eng G, Farcasanu M, Avena LE, Choudhary MC, Triant VA, Flagg M, Schiff AE, Gomez I, Froehle LM, Diefenbach TJ, Ronsard L, Lingwood D, Lee GC, Rabi SA, Erstad D, Velmahos G, Li JZ, Hodin R, Stone JR, Honko AN, Griffiths A, Yilmaz ÖH, Kwon DS. Fecal Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-Cov-2) RNA Is Associated With Decreased Coronavirus Disease 2019 (COVID-19) Survival. Clin Infect Dis. 2022 03 23; 74(6):1081-1084. PMID: 34245255.
    Citations: 3     Fields:    Translation:HumansCells
  5. Seaman MS, Siedner MJ, Boucau J, Lavine CL, Ghantous F, Liew MY, Mathews J, Singh A, Marino C, Regan J, Uddin R, Choudhary MC, Flynn JP, Chen G, Stuckwisch AM, Lipiner T, Kittilson A, Melberg M, Gilbert RF, Reynolds Z, Iyer SL, Chamberlin GC, Vyas TD, Vyas JM, Goldberg MB, Luban J, Li JZ, Barczak AK, Lemieux JE. Vaccine Breakthrough Infection with the SARS-CoV-2 Delta or Omicron (BA.1) Variant Leads to Distinct Profiles of Neutralizing Antibody Responses. medRxiv. 2022 Mar 03. PMID: 35262094.
  6. Boucau J, Marino C, Regan J, Uddin R, Choudhary MC, Flynn JP, Chen G, Stuckwisch AM, Mathews J, Liew MY, Singh A, Lipiner T, Kittilson A, Melberg M, Li Y, Gilbert RF, Reynolds Z, Iyer SL, Chamberlin GC, Vyas TD, Goldberg MB, Vyas JM, Li JZ, Lemieux JE, Siedner MJ, Barczak AK. Duration of viable virus shedding in SARS-CoV-2 omicron variant infection. medRxiv. 2022 Mar 02. PMID: 35262089.
  7. Choudhary MC, Crain CR, Qiu X, Hanage W, Li JZ. Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Sequence Characteristics of Coronavirus Disease 2019 (COVID-19) Persistence and Reinfection. Clin Infect Dis. 2022 01 29; 74(2):237-245. PMID: 33906227.
    Citations: 10     Fields:    Translation:HumansCells
  8. Regan J, Flynn JP, Choudhary MC, Uddin R, Lemieux J, Boucau J, Bhattacharyya RP, Barczak AK, Li JZ, Siedner MJ. Detection of the Omicron Variant Virus With the Abbott BinaxNow SARS-CoV-2 Rapid Antigen Assay. Open Forum Infect Dis. 2022 Mar; 9(3):ofac022. PMID: 35169591.
    Citations: 2     
  9. Siedner MJ, Boucau J, Gilbert RF, Uddin R, Luu J, Haneuse S, Vyas T, Reynolds Z, Iyer S, Chamberlin GC, Goldstein RH, North CM, Sacks CA, Regan J, Flynn JP, Choudhary MC, Vyas JM, Barczak AK, Lemieux JE, Li JZ. Duration of viral shedding and culture positivity with postvaccination SARS-CoV-2 delta variant infections. JCI Insight. 2022 01 25; 7(2). PMID: 34871181.
    Citations: 7     Fields:    Translation:HumansCells
  10. Yonker LM, Boucau J, Regan J, Choudhary MC, Burns MD, Young N, Farkas EJ, Davis JP, Moschovis PP, Bernard Kinane T, Fasano A, Neilan AM, Li JZ, Barczak AK. Virologic Features of Severe Acute Respiratory Syndrome Coronavirus 2 Infection in Children. J Infect Dis. 2021 12 01; 224(11):1821-1829. PMID: 34647601.
    Citations: 12     Fields:    Translation:HumansCellsPHPublic Health
  11. Choudhary MC, Chew KW, Deo R, Flynn JP, Regan J, Crain CR, Moser C, Hughes M, Ritz J, Ribeiro RM, Ke R, Dragavon JA, Javan AC, Nirula A, Klekotka P, Greninger AL, Fletcher CV, Daar ES, Wohl DA, Eron JJ, Currier JS, Parikh UM, Sieg SF, Perelson AS, Coombs RW, Smith DM, Li JZ. Emergence of SARS-CoV-2 Resistance with Monoclonal Antibody Therapy. medRxiv. 2021 Sep 15. PMID: 34545376.
  12. Hahn G, Wu CM, Lee S, Lutz SM, Khurana S, Baden LR, Haneuse S, Qiao D, Hecker J, DeMeo DL, Tanzi RE, Choudhary MC, Etemad B, Mohammadi A, Esmaeilzadeh E, Cho MH, Li JZ, Randolph AG, Laird NM, Weiss ST, Silverman EK, Ribbeck K, Lange C. Genome-wide association analysis of COVID-19 mortality risk in SARS-CoV-2 genomes identifies mutation in the SARS-CoV-2 spike protein that colocalizes with P.1 of the Brazilian strain. Genet Epidemiol. 2021 10; 45(7):685-693. PMID: 34159627.
    Citations: 1     Fields:    Translation:HumansCells
  13. Li JZ, Stella N, Choudhary MC, Javed A, Rodriguez K, Ribaudo H, Moosa MY, Brijkumar J, Pillay S, Sunpath H, Noguera-Julian M, Paredes R, Johnson B, Edwards A, Marconi VC, Kuritzkes DR. Impact of pre-existing drug resistance on risk of virological failure in South Africa. J Antimicrob Chemother. 2021 05 12; 76(6):1558-1563. PMID: 33693678.
    Citations: 2     Fields:    Translation:HumansCells
  14. Clark SA, Clark LE, Pan J, Coscia A, McKay LGA, Shankar S, Johnson RI, Brusic V, Choudhary MC, Regan J, Li JZ, Griffiths A, Abraham J. SARS-CoV-2 evolution in an immunocompromised host reveals shared neutralization escape mechanisms. Cell. 2021 05 13; 184(10):2605-2617.e18. PMID: 33831372.
    Citations: 43     Fields:    Translation:HumansCells
  15. Starr TN, Greaney AJ, Addetia A, Hannon WW, Choudhary MC, Dingens AS, Li JZ, Bloom JD. Prospective mapping of viral mutations that escape antibodies used to treat COVID-19. Science. 2021 02 19; 371(6531):850-854. PMID: 33495308.
    Citations: 248     Fields:    Translation:HumansCells
  16. Starr TN, Greaney AJ, Addetia A, Hannon WW, Choudhary MC, Dingens AS, Li JZ, Bloom JD. Prospective mapping of viral mutations that escape antibodies used to treat COVID-19. bioRxiv. 2020 Dec 01. PMID: 33299993.
    Citations: 1     
  17. Choi B, Choudhary MC, Regan J, Sparks JA, Padera RF, Qiu X, Solomon IH, Kuo HH, Boucau J, Bowman K, Adhikari UD, Winkler ML, Mueller AA, Hsu TY, Desjardins M, Baden LR, Chan BT, Walker BD, Lichterfeld M, Brigl M, Kwon DS, Kanjilal S, Richardson ET, Jonsson AH, Alter G, Barczak AK, Hanage WP, Yu XG, Gaiha GD, Seaman MS, Cernadas M, Li JZ. Persistence and Evolution of SARS-CoV-2 in an Immunocompromised Host. N Engl J Med. 2020 12 03; 383(23):2291-2293. PMID: 33176080.
    Citations: 307     Fields:    Translation:HumansCells
  18. Fajnzylber J, Regan J, Coxen K, Corry H, Wong C, Rosenthal A, Worrall D, Giguel F, Piechocka-Trocha A, Atyeo C, Fischinger S, Chan A, Flaherty KT, Hall K, Dougan M, Ryan ET, Gillespie E, Chishti R, Li Y, Jilg N, Hanidziar D, Baron RM, Baden L, Tsibris AM, Armstrong KA, Kuritzkes DR, Alter G, Walker BD, Yu X, Li JZ. SARS-CoV-2 viral load is associated with increased disease severity and mortality. Nat Commun. 2020 10 30; 11(1):5493. PMID: 33127906.
    Citations: 221     Fields:    Translation:HumansCellsPHPublic Health
  19. Gupta E, Choudhary MC, Upadhyay N, Singh G, Nayak SL, Kumar M, Sarin SK. Lower Rates Of Naturally Occurring Resistance-Associated Substitutions (RASs) In Hepatitis C Virus (HCV)-Infected Chronic Kidney Disease (CKD) Patients Than In HCV-Infected Patients With Only Liver Disease. Infect Drug Resist. 2019; 12:3635-3640. PMID: 31819546.
    Citations: 1     
  20. Rawal P, Siddiqui H, Hassan M, Choudhary MC, Tripathi DM, Nain V, Trehanpati N, Kaur S. Endothelial Cell-Derived TGF-ß Promotes Epithelial-Mesenchymal Transition via CD133 in HBx-Infected Hepatoma Cells. Front Oncol. 2019; 9:308. PMID: 31069171.
    Citations: 12     
  21. Choudhary MC, Bajpai V, Anand L, Gupta E. Guillain-Barré syndrome in a patient of acute Hepatitis E virus infection associated with genotype 1: Case report and literature review. Intractable Rare Dis Res. 2019 Feb; 8(1):43-47. PMID: 30881857.
    Citations: 2     
  22. Lall S, Choudhary MC, Mahajan S, Kumar G, Gupta E. Performance evaluation of TRUPCR® HBV Real-time PCR assay for Hepatitis B virus DNA quantification in clinical samples: report from a tertiary care liver centre. Virusdisease. 2019 Jun; 30(2):186-192. PMID: 31179355.
    Citations: 1     
  23. Sukriti S, Choudhary MC, Maras JS, Sharma S, Thangariyal S, Singh A, Das S, Islam M, Sharma S, Trehanpati N, Gupta E, Sarin SK. Extracellular vesicles from hepatitis B patients serve as reservoir of hepatitis B virus DNA. J Viral Hepat. 2019 01; 26(1):211-214. PMID: 30187611.
    Citations: 4     Fields:    Translation:HumansCells
  24. Maras JS, Das S, Sharma S, Sukriti S, Kumar J, Vyas AK, Kumar D, Bhat A, Yadav G, Choudhary MC, Sharma S, Kumar G, Bihari C, Trehanpati N, Maiwall R, Sarin SK. Iron-Overload triggers ADAM-17 mediated inflammation in Severe Alcoholic Hepatitis. Sci Rep. 2018 07 06; 8(1):10264. PMID: 29980709.
    Citations: 13     Fields:    Translation:Humans
  25. Bhatia M, Gupta E, Choudhary MC, Jindal A, Sarin SK. Evaluation of impact of occult hepatitis B infection in chronic HCV-infected patients: A retrospective cohort study. J Lab Physicians. 2018 Jul-Sep; 10(3):304-308. PMID: 30078967.
    Citations: 1     
  26. Mahajan S, Choudhary MC, Kumar G, Gupta E. Evaluation of dried blood spot as an alternative sample collection method for hepatitis C virus RNA quantitation and genotyping using a commercial system. Virusdisease. 2018 Jun; 29(2):141-146. PMID: 29911146.
    Citations: 1     
  27. Agarwala P, Gupta E, Choudhary MC, Pamecha V. Absence of chronic hepatitis E virus infection in liver transplant recipients: Report from a hyperendemic region. Indian J Gastroenterol. 2018 03; 37(2):160-163. PMID: 29552742.
    Citations: 5     Fields:    Translation:HumansCellsPHPublic Health
  28. Choudhary MC, Gupta E, Sharma S, Hasnain N, Agarwala P. Genetic signatures coupled with lineage shift characterise endemic evolution of Dengue virus serotype 2 during 2015 outbreak in Delhi, India. Trop Med Int Health. 2017 07; 22(7):871-880. PMID: 28544099.
    Citations: 3     Fields:    Translation:HumansCellsPHPublic Health
  29. Choudhary MC, Natarajan V, Pandey P, Gupta E, Sharma S, Tripathi R, Kumar MS, Kazim SN, Sarin SK. Identification of Indian sub-continent as hotspot for HCV genotype 3a origin by Bayesian evolutionary reconstruction. Infect Genet Evol. 2014 Dec; 28:87-94. PMID: 25224661.
    Citations: 8     Fields:    Translation:HumansCells
  30. Choudhary MC, Gupta E, Pandey P, Natarajan V, Sharma S, Vashishtha C, Sharma MK, Kazim SN, Sarin SK. Identification and full-length molecular characterization of rare hepatitis C virus genotype 5a from India. Arch Virol. 2015 Jan; 160(1):329-33. PMID: 25193070.
    Citations:    Fields:    Translation:HumansCells
  31. Saha B, Choudhary MC, Sarin SK. Expression of inhibitory markers is increased on effector memory T cells during hepatitis C virus/HIV coinfection as compared to hepatitis C virus or HIV monoinfection. AIDS. 2013 Sep 10; 27(14):2191-200. PMID: 23820090.
    Citations: 9     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.