Renuka Nayak, MD, PhD

Title(s)Assistant Professor, Medicine
SchoolSchool of Medicine
Address4150 Clement Street, #553
San Francisco CA 94121
Phone415-221-4810 ext. 22398
ORCID ORCID Icon0000-0002-1123-4668 Additional info
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    Collapse Biography 
    Collapse Education and Training
    Swarthmore College, Swarthmore, PABA2004Computer Science
    Swarthmore College, Swarthmore, PABA2004Biology
    University of Pennsylvania, Philadelphia, PAMD, PhD2012Genomics
    UCSF, San Francisco, CA2014Internal Medicine
    UCSF, San Francisco, CA2017Rheumatology
    University of California, San Francisco, CA2022Diversity, Equity, and Inclusion Champion Training

    Collapse Overview 
    Collapse Overview
    Dr. Renuka Nayak, MD, PhD, is a physician-scientist dedicated to advancing the care and treatment of patients with rheumatologic conditions such as rheumatoid arthritis, lupus, psoriatic arthritis, and other autoimmune diseases. She uses her unique backgrounds in Biology, Computer Science, and Clinical Rheumatology to investigate the role of the human gut microbiome in the treatment of rheumatoid arthritis. She uses an innovative combination of patient specimens, microbiology, next generation sequencing, and gnotobiotic mouse models to better understand how our microbiome, which many consider our "second genome," influences health and disease.

    Collapse Research 
    Collapse Research Activities and Funding
    The impact of the gut microbiome on rheumatoid arthritis treatment
    NIH K08AR073930Aug 1, 2018 - Jul 31, 2023
    Role: Principal Investigator
    Dynamic gene networks in human cells exposed to ionizing radiation.
    NIH F30ES017584May 1, 2010 - Apr 30, 2012
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Collaboration Interests

    Collapse Bibliographic 
    Collapse 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. Alteration in the gut microbiome is associated with changes in bone metabolism after laparoscopic sleeve gastrectomy. J Bone Miner Res. 2024 Jan 04. Wu KC, McCauley KE, Lynch SV, Nayak RR, King NJ, Patel S, Kim TY, Condra K, Fadrosh D, Nguyen D, Lin DL, Lynch K, Rogers SJ, Carter JT, Posselt AM, Stewart L, Schafer AL. PMID: 38477719.
      View in: PubMed   Mentions:    Fields:    
    2. A diet-dependent host metabolite shapes the gut microbiota to protect from autoimmunity. bioRxiv. 2023 Nov 03. Alexander M, Upadhyay V, Rock R, Ramirez L, Puchalska P, Orellana D, Ang QY, Turnbaugh JA, Tian Y, Dumlao D, Nayak R, Patterson A, Newman JC, Crawford PA, Turnbaugh PJ. PMID: 37961209; PMCID: PMC10635093.
      View in: PubMed   Mentions:
    3. Simvastatin induces human gut bacterial cell surface genes. Mol Microbiol. 2023 Sep 15. Escalante V, Nayak RR, Noecker C, Babdor J, Spitzer M, Deutschbauer AM, Turnbaugh PJ. PMID: 37712143; PMCID: PMC10940213.
      View in: PubMed   Mentions:    Fields:    
    4. SIMMER employs similarity algorithms to accurately identify human gut microbiome species and enzymes capable of known chemical transformations. Elife. 2023 Jun 12; 12. Bustion AE, Nayak RR, Agrawal A, Turnbaugh PJ, Pollard KS. PMID: 37306300; PMCID: PMC10289814.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    5. Fanning the Flames of Autoimmunity: The Microbiome in Rheumatic Disease. Arthritis Rheumatol. 2022 04; 74(4):549-552. Nayak RR. PMID: 34962101; PMCID: PMC8957547.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    6. Human gut bacterial metabolism drives Th17 activation and colitis. Cell Host Microbe. 2022 01 12; 30(1):17-30.e9. Alexander M, Ang QY, Nayak RR, Bustion AE, Sandy M, Zhang B, Upadhyay V, Pollard KS, Lynch SV, Turnbaugh PJ. PMID: 34822777; PMCID: PMC8785648.
      View in: PubMed   Mentions: 58     Fields:    Translation:HumansAnimalsCells
    7. Phage-delivered CRISPR-Cas9 for strain-specific depletion and genomic deletions in the gut microbiome. Cell Rep. 2021 11 02; 37(5):109930. Lam KN, Spanogiannopoulos P, Soto-Perez P, Alexander M, Nalley MJ, Bisanz JE, Nayak RR, Weakley AM, Yu FB, Turnbaugh PJ. PMID: 34731631; PMCID: PMC8591988.
      View in: PubMed   Mentions: 38     Fields:    Translation:AnimalsCells
    8. Western Diet and Psoriatic-Like Skin and Joint Diseases: A Potential Role for the Gut Microbiota. J Invest Dermatol. 2021 07; 141(7):1630-1632. Nayak RR. PMID: 34167722.
      View in: PubMed   Mentions: 7     Fields:    Translation:Animals
    9. The Pretreatment Gut Microbiome Is Associated With Lack of Response to Methotrexate in New-Onset Rheumatoid Arthritis. Arthritis Rheumatol. 2021 06; 73(6):931-942. Artacho A, Isaac S, Nayak R, Flor-Duro A, Alexander M, Koo I, Manasson J, Smith PB, Rosenthal P, Homsi Y, Gulko P, Pons J, Puchades-Carrasco L, Izmirly P, Patterson A, Abramson SB, Pineda-Lucena A, Turnbaugh PJ, Ubeda C, Scher JU. PMID: 33314800.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansCells
    10. Methotrexate impacts conserved pathways in diverse human gut bacteria leading to decreased host immune activation. Cell Host Microbe. 2021 03 10; 29(3):362-377.e11. Nayak RR, Alexander M, Deshpande I, Stapleton-Gray K, Rimal B, Patterson AD, Ubeda C, Scher JU, Turnbaugh PJ. PMID: 33440172; PMCID: PMC7954989.
      View in: PubMed   Mentions: 42     Fields:    Translation:HumansAnimalsCells
    11. Pharmacomicrobiomics in inflammatory arthritis: gut microbiome as modulator of therapeutic response. Nat Rev Rheumatol. 2020 05; 16(5):282-292. Scher JU, Nayak RR, Ubeda C, Turnbaugh PJ, Abramson SB. PMID: 32157196.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansAnimals
    12. Genome-wide profiling identifies associations between lupus nephritis and differential methylation of genes regulating tissue hypoxia and type 1 interferon responses. Lupus Sci Med. 2016; 3(1):e000183. Mok A, Solomon O, Nayak RR, Coit P, Quach HL, Nititham J, Sawalha AH, Barcellos LF, Criswell LA, Chung SA. PMID: 28074145; PMCID: PMC5174796.
      View in: PubMed   Mentions: 27     Fields:    
    13. Mirror, mirror on the wall: which microbiomes will help heal them all? BMC Med. 2016 May 04; 14:72. Nayak RR, Turnbaugh PJ. PMID: 27146150; PMCID: PMC4857263.
      View in: PubMed   Mentions: 13     Fields:    Translation:Humans
    14. Stress-induced changes in gene interactions in human cells. Nucleic Acids Res. 2014 Feb; 42(3):1757-71. Nayak RR, Bernal WE, Lee JW, Kearns MJ, Cheung VG. PMID: 24170811; PMCID: PMC3919594.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    15. Polymorphic cis- and trans-regulation of human gene expression. PLoS Biol. 2010 Sep 14; 8(9). Cheung VG, Nayak RR, Wang IX, Elwyn S, Cousins SM, Morley M, Spielman RS. PMID: 20856902; PMCID: PMC2939022.
      View in: PubMed   Mentions: 102     Fields:    Translation:Humans
    16. Gene expression and genetic variation in response to endoplasmic reticulum stress in human cells. Am J Hum Genet. 2010 May 14; 86(5):719-29. Dombroski BA, Nayak RR, Ewens KG, Ankener W, Cheung VG, Spielman RS. PMID: 20398888; PMCID: PMC2869002.
      View in: PubMed   Mentions: 48     Fields:    Translation:HumansAnimalsCells
    17. Coexpression network based on natural variation in human gene expression reveals gene interactions and functions. Genome Res. 2009 Nov; 19(11):1953-62. Nayak RR, Kearns M, Spielman RS, Cheung VG. PMID: 19797678; PMCID: PMC2775589.
      View in: PubMed   Mentions: 58     Fields:    Translation:HumansCells
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