Mark M. Davis, PhD Publications 2015 - 1987


  • Furman D, Jojic V, Sharma S, Shen-Orr SS, L Angel CJ, Onengut-Gumuscu S, Kidd BA, Maecker HT, Concannon P, Dekker CL, Thomas PG, Davis MM. Cytomegalovirus infection enhances the immune response to influenza. Sci Transl Med. 2015 Apr 1;7(281):281ra43. PMID: 25834109 PMCID
  • Roh KH, Lillemeier BF, Wang F, Davis MM. The coreceptor CD4 is expressed in distinct nanoclusters and does not colocalize with T-cell receptor and active protein tyrosine kinase p56lck. Proc Natl Acad Sci U S A. 2015 Mar 31;112(13):E1604-13. doi: 10.1073/pnas.1503532112. Epub 2015 Mar 17. PMID: 25829544 PMCID
  • Kattah NH, Newell EW, Jarrell JA, Chu AD, Xie J, Kattah MG, Goldberger O, Ye J, Chakravarty EF, Davis MM, Utz PJ. Tetramers reveal IL-17-secreting CD4+ T cells that are specific for U1-70 in lupus and mixed connective tissue disease. Proc Natl Acad Sci U S A. 2015 Mar 10;112(10):3044-9. doi: 10.1073/pnas.1424796112. Epub 2015 Feb 23. PMID: 25713364 PMCID
  • Kay AW, Bayless NL, Fukuyama J, Aziz N, Dekker CL, Mackey S, Swan GE, Davis MM, Blish CA. Pregnancy Does Not Attenuate the Antibody or Plasmablast Response to Inactivated Influenza Vaccine. J Infect Dis. 2015 Mar 4. pii: jiv138. [Epub ahead of print] PMID: 25740957 PMCID
  • Hansmann L, Blum L, Hsin-Ju C, Liedtke M, Robinson W, Davis MM. Mass cytometry analysis shows that a novel memory phenotype B cell is expanded in multiple myeloma. Cancer Immunol Res. 2015 Feb 20. pii: canimm.0236.2014. [Epub ahead of print] PMID: 25711758 PMCID
  • Hansmann L, Blum L, Hsin-Ju C, Liedtke M, Robinson W, Davis MM. Mass cytometry analysis shows that a novel memory phenotype B cell is expanded in multiple myeloma. Cancer Immunol Res. 2015 Feb 20. [Epub ahead of print] PMID: 25711758 [PubMed - as supplied by publisher] PMCID
  • Davis MM. Immunology. Flexibility for specificity. Science. 2015 Jan 23;347(6220):371-2. doi: 10.1126/science.aaa5082. No abstract available. PMID: 25613876
  • Brodin P, Jojic V, Gao T, Bhattacharya S, Jang A, Furman D, Dekker CL, Swan G, Butte AJ, Maecker HT, Davis MM. Variation in the human immune system is largely driven by non-heritable influences, Cell. 2015 Jan 15;160(1-2):37-47. PMID: 25594173 [PubMed - in process] PMCID: PMC4302727


  • He X-S, Holmes TH, Sanyal M, Albrecht RA, Garcia-Sastre A, Dekker CL, Davis MM, Greenberg HB. Distinct patterns of B-cell activation and priming by natural influenza infection versus inactivated influenza vaccination. J Infect Dis. 2014 Oct 21. pii: jiu580. [Epub ahead of print] PMID: 25336731 PMCID
  • Fergusson, J.R., Smith, K., Fleming, V.M., Rajoriya, N., Newell, E.W., Simmons, R., Marchi, E., Bjorkander, S., Kang, Y.H., Swadling, L., Kurioka, A., Sahgal, N., Lockstone, H., Baban, D., Freeman, G., Sverremark, E., Davis, M.M., Davenport, M.P., Venturi, V., Ussher, J.E., Willberg, C.B., and Klenerman, P. CD161-expressing lymphocytes share a common transcriptional signature and function. Sci. Trans. Med. 2014 (in press)
  • Kay AW, Fukuyama J, Aziz N, Dekker CL, Mackey S, Swan GE, Davis MM, Holmes S, Blish CA. Enhanced natural killer-cell and T-cell responses to influenza A virus during pregnancy. Proc Natl Acad Sci U S A. 2014 Oct 7;111(40):14506-11. PMID: 25246558 [PubMed - in process] PMCID: PMC4210016 [Available on 2015/4/7]
  • O’Gorman, WE, Huang, H, Wei, YL, Davis, KL, Leipold, MD, Bendall, SC, Kidd, BA, Dekker, CL, Maecker, HT, Chien, YH, and Davis, MM. The Split Virus Influenza Vaccine rapidly activates immune cells through Fc<gamma> Receptors. Vaccine;32(45):5989-97. 2014. PMID: 25203448 [PumMed – as supplied by publisher].
  • Liang EC, Sceats L, Bayless NL, Strauss-Albee DM, Kubo J, Grant PM, Furman D, Desai M, Katzenstein DA, Davis MM, Zolopa AR, Blish CA. Association between latent proviral characteristics and immune activation in antiretrovirus-treated human immunodeficiency virus type 1-infected adults. J Virol. 2014 Aug;88(15):8629-39. PMID: 24850730 [PubMed - in process] PMCID: PMC4135944.
  • Han A, Glanville J, Hansmann L, Davis MM. Linking T-cell receptor sequence to functional phenotype at the single-cell level. Nature biotechnology. 2014 Jul;32(7):684-92. doi: 10.1038/nbt.2938. Epub 2014 Jun 22. PubMed PMID: 24952902. [PubMed – in process]
  • Jackson KJ, Liu Y, Roskin KM, Glanville J, Hoh RA, Seo K, Marshall EL, Gurley TC, Moody MA, Haynes BF, Walter EB, Liao HX, Albrecht RA, GarcÖaSastre A, Chaparro-Riggers J, Rajpal A, Pons J, Simen BB, Hanczaruk B, Dekker CL, Laserson J, Koller D, Davis MM, Fire AZ, Boyd SD. Human Responses to Influenza Vaccination Show Seroconversion Signatures and Convergent Antibody Rearrangements. Cell Host Microbe;16(1):105-14. doi: 10.1016/j.chom.2014.05.013. 2014 PMID: 24981332 [PubMed - as supplied by publisher] PMCID: PMC4158033.
  • Furman D, Hejblum BP, Simon N, Jojic V, Dekker CL, Thiébaut R, Tibshirani RJ, Davis MM. Systems analysis of sex differences reveals an immunosuppressive role for testosterone in the response to influenza vaccination. Proc Natl Acad Sci U S A.2014 Jan 14;111(2):869-74. PMID: 24367114 [PubMed - in process]. PMCID: PMC3896147
  • Wang C, Liu Y, Xu LT, Jackson KJ, Roskin KM, Pham TD, Laserson J, Marshall EL, Seo K, Lee JY, Furman D, Koller D, Dekker CL, Davis MM, Fire AZ, Boyd SD. Effects of Aging, Cytomegalovirus Infection, and EBV Infection on Human B Cell Repertoires. J Immunol. 2014 Jan 15;192(2):603-11. doi: 10.4049/jimmunol.1301384.Epub 2013 Dec 11;. PMID: 24337376. PMCID: PMC3947124.


  • Shekhar K, Brodin P, Davis MM, Chakraborty AK. Automatic Classification of Cellular Expression by Nonlinear Stochastic Embedding (ACCENSE). Proc Natl Acad Sci USA. 2014 Jan 7;111(1):202-7. doi: 10.1073/pnas.1321405111. Epub 2013 Dec 16. PMID:24344260. PMCID: PMC3890841
  • Horowitz H, Strauss-Albee DM, Leipold M, Kubo J, Nemat-Gorgani N, Dogan OC, Dekker CL, Mackey S, Maecker H, Swan GE, Davis MM, Norman PJ, Guethlein LA, Desai M, Parham P, Blish CA. Genetic and environmental determinants of human NK cell diversity revealed by mass cytometry. Sci Transl Med. 2013 Oct 23;5(208):208ra145. doi: 10.1126/scitranslmed.3006702. PMID: 24154599 [PubMed - in process] PMCID: PMC3918221
  • Su LF, Davis MM. Antiviral memory phenotype T cells in unexposed adults. Immunol Rev. 2013 Sept;255(1):95-109. doi: 10.1111/imr.12095. PMID: 23947350 [PubMed - in process] 
  • Han A, Newell EW, Glanville J, Fernandez-Becker N, Khosla C, Chien YH, Davis MM. Dietary gluten triggers concomitant activation of CD4+ and CD8+ ab T cells and gd T cells in celiac disease. Proc Natl Acad Sci U S A. 2013 Aug 6;110(32):13073-8. doi: 10.1073/pnas.1311861110. Epub 2013 Jul 22. PMID: 23878218. PMCID: PMC3740842
  • Newell EW, Sigal N, Nair N, Kidd BA, Greenberg HB, Davis MM. Combinatorial tetramer staining and mass cytometry analysis facilitate T-cell epitope mapping and characterization. Nat Biotechnol. 2013 Jun 9;. [Epub ahead of print] PMID: 23748502 [PubMed - as supplied by publisher] PMCID: PMC3796952
  • Price JV, Jarrell JA, Furman D, Kattah NH, Newell E, Dekker CL, Davis MM, Utz PJ. Characterization of influenza vaccine immunogenicity using influenza antigen microarrays. PLoS One. 2013 May 29;8(5):e64555. doi: 10.1371/journal.pone.0064555. PMID: 23734205 [PubMed - indexed for MEDLINE] PMCID: PMC3667171
  • Furman D, Jojic V, Kidd B, Shen-Orr S, Price J, Jarrell J, Tse T, Huang H, Lund P, Maecker HT, Utz PJ, Dekker CL, Koller D, Davis MM. Apoptosis and other immune biomarkers predict influenza vaccine responsiveness. Mol Syst Biol. 2013 Apr 16;9:659. PMID: 23591775. PMCID: PMC3658270
  • Su LF, Kidd BA, Han A, Kotzin JJ, Davis MM. Virus-specific CD4(+) memory-phenotype T cells are abundant in unexposed adults. Immunity. 2013 Feb 21;38(2):373-83. PMID: 23395677. PMCID: PMC3626102
  • Jiang N, He J, Weinstein JA, Penland L, Sasaki S, He XS, Dekker CL, Zheng NY, Huang M, Sullivan M, Wilson PC, Greenberg HB, Davis MM, Fisher DS, Quake SR. Lineage structure of the human antibody repertoire in response to influenza vaccination. Sci Transl Med. 2013 Feb 6;5(171):171ra19. PMID: 23390249 PMCID:PMC3699344
  • Xie J, Tato CM, Davis MM. How the immune system talks to itself: the varied role of synapses. Immunol Rev. 2013 Jan;251(1):65-79. PMID: 23278741 PMCID:PMC3645447


  • Zeng X, Wei YL, Huang J, Newell EW, Yu H, Kidd BA, Kuhns MS, Waters RW, Davis MM, Weaver CT, Chien YH. gdT cells recognize a microbial encoded B cell antigen to initiate a rapid antigen-specific interleukin-17 response. Immunity. 2012 Sep 21;37(3):524-34. PMID: 22960222. PMCID: PMC3495981 
  • Siebert JC, Munsil W, Rosenberg-Hasson Y, Davis MM, Maecker HT. The Stanford Data Miner: a novel approach for integrating and exploring heterogenous immunological data. J Transl Med 2012 Mar 28;10:62. PMID:22452993 PMCID:PMC3358233
  • Won JH, Goldberger O, Shen-Orr SS, Davis MM, Olshen RA. Significance analysis of xMap cytokine bead arrays. Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):2848-53. doi: 10.1073/pnas.1112599109. Epub 2012 Feb 9. PubMed PMID: 22323610; PubMed Central PMCID: PMC3286996.
  • Newell EW, Sigal N, Bendall SC, Nolan GP, Davis MM. Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8+ T cell phenotypes. Immunity. 2012 Jan 27;36(1):142-52. PMID: 22265676. PMCID: PMC3752833
  • Davis MM. Immunology taught by humans. Sci Transl Med. 2012 Jan 18;4(117):117fs2. PMID: 22261029. PMCID: PMC3762495


  • Sasaki S, Sullivan M, Narvaez CF, Holmes TH, Furman D, Zheng NY, Nishtala M, Wrammert J, Smith K, James JA, Dekker CL, Davis MM, Wilson PC, Greenberg HB, He XS. Limited efficacy of inactivated influenza vaccine in elderly individuals is associated with decreased production of vaccine-specific antibodies. J Clin Invest. 2011 Aug;121(8):3109-19. doi: 10.1172/JCI57834. Epub 2011 Jul 25. PubMed PMID: 21785218; PubMed Central PMCID: PMC3148747.
  • Davis MM, Altman JD, Newell EW. Interrogating the repertoire: broadening the scope of peptide-MHC multimer analysis. Nat Rev Immunol. 2011 Jul 15;11(8):551-8. doi: 10.1038/nri3020. PubMed PMID: 21760610; PubMed Central PMCID: PMC3699324.
  • Newell EW, Ely LK, Kruse AC, Reay PA, Rodriguez SN, Lin AE, Kuhns MS, Garcia KC, Davis MM. Structural basis of specificity and cross-reactivity in T cell receptors specific for cytochrome c-I-E(k). J Immunol. 2011 May 15;186(10):5823-32. PMID: 21490152 PMCID: PMC3754796 
  • He XS, Sasaki S, Narvaez CF, Zhang C, Liu H, Woo JC, Kemble GW, Dekker CL, Davis MM, Greenberg HB. Plasmablast-derived polyclonal antibody response after influenza vaccination. J Immunol Methods. 2011 Feb 28;365(1-2):67-75. doi: 10.1016/j.jim.2010.12.008. Epub 2010 Dec 21. PubMed PMID: 21182843; PubMed Central PMCID: PMC3039424.
  • Sarwal MM, Benjamin J, Butte AJ, Davis MM, Wood K, Chapman J. Transplantomics and biomarkers in organ transplantation: a report from the first international conference. Transplantation. 2011 Feb 27;91(4):379-82. doi: 10.1097/TP.0b013e3182105fb8. No abstract available. PMID: 21278631 [PubMed - indexed for MEDLINE] PMCID: PMC3762499
  • Adachi K, Davis MM. T-cell receptor ligation induces distinct signaling pathways in naive vs. antigen-experienced T cells. Proc Natl Acad Sci U S A. 2011 Jan 25;108(4):1549-54. PMID: 21205892 PMCID:PMC3029746