Our site is slower due to heavy traffic from automated ’bots’ and AI crawlers. We’re working to fix this. Read more here.

Josh Shak, MD, PhD

Title(s)Associate Professor, Medicine
SchoolSchool of Medicine
Address4150 Clement Street, #0
San Francisco CA 94121
vCardDownload vCard

    Collapse Biography 
    Collapse education and training
    Emory UniversityMD, PhD2015School of Medicine
    University of California, San Francisco, CA2018Internal Medicine Residency
    University of California, San Francisco, CA2021Diversity, Equity, and Inclusion Champion Training

    Collapse Overview 

    Collapse ORNG Applications 
    Collapse Clinical Trials

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    Altmetrics Details 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. Analytical evaluation of TriVerity, a rapid diagnostic and prognostic host gene expression test performed on the Myrna instrument using RT-LAMP. J Clin Microbiol. 2025 Aug 27; e0035225. Figueiredo-Pereira C, Fleming P, Alganes MN, Bi R, Cavaleiro AM, Cruz D, Cunha-Matos C, Davalos-Arias M, Farkas D, Hasin Y, Hu K, Kampouridis C, El Khaja R, Leal G, Lu J, Madeira R, Mayhew M, McBryde B, Oliveira DC, Passernig A, Pendleton D, Popp E, Rasania S, Rebelo C, Santiago A, Shak JR, Silva VP, Srinath A, Sweeney TE, Vieira R, Vu T, Wilson C, Zybin B, Whitfield NN, Liesenfeld O, Bouma HR, Rothman RE, Michelson EA, Fonseca J. PMID: 40862618.
      View in: PubMed   Mentions:    Fields:    
    2. Association of Culturable-Virus Detection and Household Transmission of SARS-CoV-2, California and Tennessee, 2020-2022. J Infect Dis. 2023 06 15; 227(12):1343-1347. Deyoe JE, Kelly JD, Grijalva CG, Bonenfant G, Lu S, Anglin K, Garcia-Knight M, Pineda-Ramirez J, Hagen MB, Saydah S, Abedi GR, Goldberg SA, Tassetto M, Zhang A, Donohue KC, Davidson MC, Sanchez RD, Djomaleu M, Mathur S, Shak JR, Deeks SG, Peluso MJ, Chiu CY, Zhu Y, Halasa NB, Chappell JD, Mellis A, Reed C, Andino R, Martin JN, Zhou B, Talbot HK, Midgley CM, Rolfes MA. PMID: 36705269; PMCID: PMC10266938.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    3. Evaluation of Severe Acute Respiratory Syndrome Coronavirus 2 Nucleocapsid Antigen in the Blood as a Diagnostic Test for Infection and Infectious Viral Shedding. Open Forum Infect Dis. 2022 Nov; 9(11):ofac563. Mathur S, Davidson MC, Anglin K, Lu S, Goldberg SA, Garcia-Knight M, Tassetto M, Zhang A, Romero M, Pineda-Ramirez J, Diaz-Sanchez R, Rugart P, Chen JY, Donohue K, Shak JR, Chenna A, Winslow JW, Petropoulos CJ, Yee BC, Lambert J, Glidden DV, Rutherford GW, Deeks SG, Peluso MJ, Andino R, Martin JN, Kelly JD. PMID: 36381627; PMCID: PMC9620332.
      View in: PubMed   Mentions: 5  
    4. Magnitude and Determinants of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Household Transmission: A Longitudinal Cohort Study. Clin Infect Dis. 2022 10 03; 75(Suppl 2):S193-S204. Kelly JD, Lu S, Anglin K, Garcia-Knight M, Pineda-Ramirez J, Goldberg SA, Tassetto M, Zhang A, Donohue K, Davidson MC, Romero M, Diaz Sanchez R, Djomaleu M, Mathur S, Chen JY, Forman CA, Servellita V, Montejano RD, Shak JR, Rutherford GW, Deeks SG, Abedi GR, Rolfes MA, Saydah S, Briggs-Hagen M, Peluso MJ, Chiu C, Midgley CM, Andino R, Martin JN. PMID: 35788827; PMCID: PMC9278251.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    5. Infectious viral shedding of SARS-CoV-2 Delta following vaccination: A longitudinal cohort study. PLoS Pathog. 2022 09; 18(9):e1010802. Garcia-Knight M, Anglin K, Tassetto M, Lu S, Zhang A, Goldberg SA, Catching A, Davidson MC, Shak JR, Romero M, Pineda-Ramirez J, Diaz-Sanchez R, Rugart P, Donohue K, Massachi J, Sans HM, Djomaleu M, Mathur S, Servellita V, McIlwain D, Gaudiliere B, Chen J, Martinez EO, Tavs JM, Bronstone G, Weiss J, Watson JT, Briggs-Hagen M, Abedi GR, Rutherford GW, Deeks SG, Chiu C, Saydah S, Peluso MJ, Midgley CM, Martin JN, Andino R, Kelly JD. PMID: 36095030; PMCID: PMC9499220.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansCellsPHPublic Health
    6. A Learning Health System Approach to Long COVID Care. Fed Pract. 2022 Jul; 39(7):310-314. Gustavson AM, Purnell A, Adly M, Awan O, Bräu N, Braus NA, Bryant MS, Chang L, Cyborski C, Darvish B, Del Piero LB, Eaton TL, Kiliveros A, Kloth H, McNiel ER, Miller MA, Patrick A, Powers P, Pyne M, Rodriguez IG, Romesser J, Rud B, Seidel I, Tepper A, Trinh H, Tonkin B, Vachachira J, Yang H, Shak JR. PMID: 36425345; PMCID: PMC9648579.
      View in: PubMed   Mentions: 4  
    7. Increased Nasopharyngeal Density and Concurrent Carriage of Streptococcus pneumoniae, Haemophilus influenzae, and Moraxella catarrhalis Are Associated with Pneumonia in Febrile Children. PLoS One. 2016; 11(12):e0167725. Chochua S, D'Acremont V, Hanke C, Alfa D, Shak J, Kilowoko M, Kyungu E, Kaiser L, Genton B, Klugman KP, Vidal JE. PMID: 27907156; PMCID: PMC5132320.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    8. Focal ST-Segment Elevation in a Young Man. JAMA Intern Med. 2016 09 01; 176(9):1388-9. Shak JR, Johnson AK, Goldschlager N. PMID: 27429393.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    9. The CpAL quorum sensing system regulates production of hemolysins CPA and PFO to build Clostridium perfringens biofilms. Infect Immun. 2015 Jun; 83(6):2430-42. Vidal JE, Shak JR, Canizalez-Roman A. PMID: 25824838; PMCID: PMC4432755.
      View in: PubMed   Mentions: 22     Fields:    Translation:Cells
    10. The adult nasopharyngeal microbiome as a determinant of pneumococcal acquisition. Microbiome. 2014; 2:44. Cremers AJ, Zomer AL, Gritzfeld JF, Ferwerda G, van Hijum SA, Ferreira DM, Shak JR, Klugman KP, Boekhorst J, Timmerman HM, de Jonge MI, Gordon SB, Hermans PW. PMID: 25671106; PMCID: PMC4323220.
      View in: PubMed   Mentions: 44     Fields:    
    11. Impact of experimental human pneumococcal carriage on nasopharyngeal bacterial densities in healthy adults. PLoS One. 2014; 9(6):e98829. Shak JR, Cremers AJ, Gritzfeld JF, de Jonge MI, Hermans PW, Vidal JE, Klugman KP, Gordon SB. PMID: 24915552; PMCID: PMC4051691.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    12. Functional genomic characterization of virulence factors from necrotizing fasciitis-causing strains of Aeromonas hydrophila. Appl Environ Microbiol. 2014 Jul; 80(14):4162-83. Grim CJ, Kozlova EV, Ponnusamy D, Fitts EC, Sha J, Kirtley ML, van Lier CJ, Tiner BL, Erova TE, Joseph SJ, Read TD, Shak JR, Joseph SW, Singletary E, Felland T, Baze WB, Horneman AJ, Chopra AK. PMID: 24795370; PMCID: PMC4068668.
      View in: PubMed   Mentions: 40     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    13. Novel role for the Streptococcus pneumoniae toxin pneumolysin in the assembly of biofilms. mBio. 2013 Sep 10; 4(5):e00655-13. Shak JR, Ludewick HP, Howery KE, Sakai F, Yi H, Harvey RM, Paton JC, Klugman KP, Vidal JE. PMID: 24023386; PMCID: PMC3774193.
      View in: PubMed   Mentions: 48     Fields:    Translation:HumansCells
    14. Characterization of Aeromonas hydrophila wound pathotypes by comparative genomic and functional analyses of virulence genes. mBio. 2013 Apr 23; 4(2):e00064-13. Grim CJ, Kozlova EV, Sha J, Fitts EC, van Lier CJ, Kirtley ML, Joseph SJ, Read TD, Burd EM, Tall BD, Joseph SW, Horneman AJ, Chopra AK, Shak JR. PMID: 23611906; PMCID: PMC3638308.
      View in: PubMed   Mentions: 37     Fields:    Translation:HumansAnimalsCells
    15. Influence of bacterial interactions on pneumococcal colonization of the nasopharynx. Trends Microbiol. 2013 Mar; 21(3):129-35. Shak JR, Vidal JE, Klugman KP. PMID: 23273566; PMCID: PMC3729046.
      View in: PubMed   Mentions: 87     Fields:    Translation:HumansCells
    16. Anemia and Helicobacter pylori seroreactivity in a rural Haitian population. Am J Trop Med Hyg. 2011 Nov; 85(5):913-8. Shak JR, Sodikoff JB, Speckman RA, Rollin FG, Chery MP, Cole CR, Suchdev PS. PMID: 22049049; PMCID: PMC3205641.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    17. Bats, emerging infectious diseases, and the rabies paradigm revisited. Emerg Health Threats J. 2011 Jun 20; 4:7159. Kuzmin IV, Bozick B, Guagliardo SA, Kunkel R, Shak JR, Tong S, Rupprecht CE. PMID: 24149032; PMCID: PMC3168224.
      View in: PubMed   Mentions: 51     Fields:    
    18. The effect of H. pylori eradication on meal-associated changes in plasma ghrelin and leptin. BMC Gastroenterol. 2011 Apr 14; 11:37. Francois F, Roper J, Joseph N, Pei Z, Chhada A, Shak JR, de Perez AZ, Perez-Perez GI, Blaser MJ. PMID: 21489301; PMCID: PMC3089783.
      View in: PubMed   Mentions: 63     Fields:    Translation:HumansCells
    19. Aminoglycoside-resistant Aeromonas hydrophila as part of a polymicrobial infection following a traumatic fall into freshwater. J Clin Microbiol. 2011 Mar; 49(3):1169-70. Shak JR, Whitaker JA, Ribner BS, Burd EM. PMID: 21209173; PMCID: PMC3067704.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    20. Repeat-associated plasticity in the Helicobacter pylori RD gene family. J Bacteriol. 2009 Nov; 191(22):6900-10. Shak JR, Dick JJ, Meinersmann RJ, Perez-Perez GI, Blaser MJ. PMID: 19749042; PMCID: PMC2772487.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    21. The effect of laparoscopic gastric banding surgery on plasma levels of appetite-control, insulinotropic, and digestive hormones. Obes Surg. 2008 Sep; 18(9):1089-96. Shak JR, Roper J, Perez-Perez GI, Tseng CH, Francois F, Gamagaris Z, Patterson C, Weinshel E, Fielding GA, Ren C, Blaser MJ. PMID: 18408980; PMCID: PMC3743550.
      View in: PubMed   Mentions: 38     Fields:    Translation:Humans
    Josh's Networks
    Concepts (117)
    Derived automatically from this person's publications.
    Explore
    _
    Co-Authors (9)
    People in Profiles who have published with this person.
    Explore
    _
    Similar People (60)
    People who share similar concepts with this person.
    Explore
    _
    Same Department
    Search Department
    _

    UCSF Profiles is managed by the UCSF Clinical and Translational Science Institute (CTSI), part of the Clinical and Translational Science Award program funded by the National Center for Advancing Translational Sciences (Grant Number UL1 TR000004) at the National Institutes of Health (NIH).

    We use cookies to operate our website. We also use cookies to analyze our site’s performance and improve your experience on our site. For more information about how we use cookies, please see our Website Terms of Use. This site is running Profiles RNS version UCSF-v3.1.0-16-gff1bd585 on PROFILES-PWEB03.

    Copyright © The Regents of the University of California.