Mark M Davis

Summary

Affiliation: Stanford University
Country: USA

Publications

  1. pmc The Stanford Data Miner: a novel approach for integrating and exploring heterogeneous immunological data
    Janet C Siebert
    CytoAnalytics, Denver, CO, USA
    J Transl Med 10:62. 2012
  2. pmc A prescription for human immunology
    Mark M Davis
    The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 29:835-8. 2008
  3. pmc Interrogating the repertoire: broadening the scope of peptide-MHC multimer analysis
    Mark M Davis
    Department of Microbiology and Immunology, Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA
    Nat Rev Immunol 11:551-8. 2011
  4. ncbi request reprint The alphabeta T cell repertoire comes into focus
    Mark M Davis
    The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 27:179-80. 2007
  5. pmc TCR-peptide-MHC interactions in situ show accelerated kinetics and increased affinity
    Johannes B Huppa
    Department of Microbiology and Immunology, Stanford School of Medicine, California 94305 5323, USA
    Nature 463:963-7. 2010
  6. pmc Evidence for a functional sidedness to the alphabetaTCR
    Michael S Kuhns
    Department of Microbiology and Immunology, Graduate Program in Immunology, The Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
    Proc Natl Acad Sci U S A 107:5094-9. 2010
  7. pmc TCR and Lat are expressed on separate protein islands on T cell membranes and concatenate during activation
    Björn F Lillemeier
    Howard Hughes Medical Institute, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
    Nat Immunol 11:90-6. 2010
  8. pmc Quantitative imaging of lymphocyte membrane protein reorganization and signaling
    Peter M Kasson
    Biophysics Program, Stanford University School of Medicine, Stanford, California, USA
    Biophys J 88:579-89. 2005
  9. pmc A single peptide-major histocompatibility complex ligand triggers digital cytokine secretion in CD4(+) T cells
    Jun Huang
    Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA
    Immunity 39:846-57. 2013
  10. pmc Quantifying signaling-induced reorientation of T cell receptors during immunological synapse formation
    William C Moss
    Department of Microbiology and Immunology, Stanford University School of Medicine and Howard Hughes Medical Institute, CA 94305, USA
    Proc Natl Acad Sci U S A 99:15024-9. 2002

Detail Information

Publications85

  1. pmc The Stanford Data Miner: a novel approach for integrating and exploring heterogeneous immunological data
    Janet C Siebert
    CytoAnalytics, Denver, CO, USA
    J Transl Med 10:62. 2012
    ..g., mean cytokine levels by age and gender)...
  2. pmc A prescription for human immunology
    Mark M Davis
    The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 29:835-8. 2008
    ..Thus, to maximize the use of immunologic approaches to improve human health, we need more strategically directed efforts in human immunology. This would also open up new opportunities for basic research...
  3. pmc Interrogating the repertoire: broadening the scope of peptide-MHC multimer analysis
    Mark M Davis
    Department of Microbiology and Immunology, Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA
    Nat Rev Immunol 11:551-8. 2011
    ..Furthermore, enrichment techniques have provided a greatly increased sensitivity that allows the analysis of the naive T cell repertoire directly. Thus, we can expect a flood of new information to emerge in the coming years...
  4. ncbi request reprint The alphabeta T cell repertoire comes into focus
    Mark M Davis
    The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 27:179-80. 2007
    ..Moon et al. (2007) report the enumeration and isolation of naive CD4(+) T cells and show their numbers could predict the size and diversity of the primary immune response...
  5. pmc TCR-peptide-MHC interactions in situ show accelerated kinetics and increased affinity
    Johannes B Huppa
    Department of Microbiology and Immunology, Stanford School of Medicine, California 94305 5323, USA
    Nature 463:963-7. 2010
    ..However, CD4 blockade had no effect on the synaptic TCR affinity, nor did it destabilize TCR-pMHC complexes, indicating that the TCR binds pMHC independently of CD4...
  6. pmc Evidence for a functional sidedness to the alphabetaTCR
    Michael S Kuhns
    Department of Microbiology and Immunology, Graduate Program in Immunology, The Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
    Proc Natl Acad Sci U S A 107:5094-9. 2010
    ..These data reveal a "functional-sidedness" to the alphabetaTCR constant region, with dimerization occurring on the side of the TCR opposite from where the CD3 heterodimers are located...
  7. pmc TCR and Lat are expressed on separate protein islands on T cell membranes and concatenate during activation
    Björn F Lillemeier
    Howard Hughes Medical Institute, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
    Nat Immunol 11:90-6. 2010
    ..This separation versus physical juxtapositioning of receptor domains and domains containing downstream signaling molecules in quiescent versus activated T cells may be a general feature of plasma membrane-associated signal transduction...
  8. pmc Quantitative imaging of lymphocyte membrane protein reorganization and signaling
    Peter M Kasson
    Biophysics Program, Stanford University School of Medicine, Stanford, California, USA
    Biophys J 88:579-89. 2005
    ..Our methods can be generalized to a range of cell-signaling phenomena and enable novel applications not feasible with single-particle studies, such as analysis of subcellular protein localization in live organ culture...
  9. pmc A single peptide-major histocompatibility complex ligand triggers digital cytokine secretion in CD4(+) T cells
    Jun Huang
    Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA
    Immunity 39:846-57. 2013
    ..These data show that scaling up CD4(+) T cell cytokine responses involves increasingly efficient T cell recruitment rather than greater cytokine production per cell. ..
  10. pmc Quantifying signaling-induced reorientation of T cell receptors during immunological synapse formation
    William C Moss
    Department of Microbiology and Immunology, Stanford University School of Medicine and Howard Hughes Medical Institute, CA 94305, USA
    Proc Natl Acad Sci U S A 99:15024-9. 2002
    ..This method should permit the quantitation of other dynamic membrane events and the associated movement of cell-surface molecules...
  11. pmc Detection and characterization of cellular immune responses using peptide-MHC microarrays
    Yoav Soen
    Department of Biochemistry, Stanford University, Stanford, California, USA
    PLoS Biol 1:E65. 2003
    ....
  12. ncbi request reprint T cells as a self-referential, sensory organ
    Mark M Davis
    Howard Hughes Medical Institute, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Annu Rev Immunol 25:681-95. 2007
    ..With the multitude of specificities available to most T cells, they can thus be considered as a sensory organ, trained on self-peptide-MHCs and primed to detect nonself...
  13. pmc T cell receptor antagonism interferes with MHC clustering and integrin patterning during immunological synapse formation
    Cenk Sumen
    Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA, USA
    J Cell Biol 166:579-90. 2004
    ..Hence, antagonist peptides selectively disable MHC clustering and the stop signal, whereas LFA-1 valency up-regulation occurs normally...
  14. pmc Systems analysis of sex differences reveals an immunosuppressive role for testosterone in the response to influenza vaccination
    David Furman
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305 5323
    Proc Natl Acad Sci U S A 111:869-74. 2014
    ..These results demonstrate a strong association between androgens and genes involved in lipid metabolism, suggesting that these could be important drivers of the differences in immune responses between males and females. ..
  15. ncbi request reprint Agonist/endogenous peptide-MHC heterodimers drive T cell activation and sensitivity
    Michelle Krogsgaard
    The Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Nature 434:238-43. 2005
    ....
  16. ncbi request reprint miR-181a is an intrinsic modulator of T cell sensitivity and selection
    Qi jing Li
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Cell 129:147-61. 2007
    ..Importantly, higher miR-181a expression correlates with greater T cell sensitivity in immature T cells, suggesting that miR-181a acts as an intrinsic antigen sensitivity "rheostat" during T cell development...
  17. ncbi request reprint Spatial and temporal dynamics of T cell receptor signaling with a photoactivatable agonist
    Morgan Huse
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 27:76-88. 2007
    ..These results establish the speed and localization of early signaling steps, and have important implications regarding the overall structure of the network...
  18. pmc Peptide-MHC heterodimers show that thymic positive selection requires a more restricted set of self-peptides than negative selection
    Jeremy Juang
    The Department of Microbiology and Immunology, Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    J Exp Med 207:1223-34. 2010
    ..Thus, both positive and negative selection can be driven by dimeric but not monomeric ligands. In addition, positive selection has much more stringent requirements for the partner self-pMHC...
  19. pmc An endogenous positively selecting peptide enhances mature T cell responses and becomes an autoantigen in the absence of microRNA miR-181a
    Peter J R Ebert
    The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA
    Nat Immunol 10:1162-9. 2009
    ..Therefore, miR-181a helps to guarantee the clonal deletion of particular moderate-affinity clones by modulating the TCR signaling threshold of thymocytes...
  20. ncbi request reprint CD4 enhances T cell sensitivity to antigen by coordinating Lck accumulation at the immunological synapse
    Qi jing Li
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Nat Immunol 5:791-9. 2004
    ..We also discuss broader implications for T cell biology, including thymic selection, diversity of the repertoire of self pMHC molecules and serial triggering...
  21. ncbi request reprint Dynamics of cell surface molecules during T cell recognition
    Mark M Davis
    Howard Hughes Medical Institute and the Department of Microbiology and Immunology, Stanford University, Stanford, California 94305 5323, USA
    Annu Rev Biochem 72:717-42. 2003
    ....
  22. ncbi request reprint Linker for activation of T cells, zeta-associated protein-70, and Src homology 2 domain-containing leukocyte protein-76 are required for TCR-induced microtubule-organizing center polarization
    Michelle R Kuhne
    Department of Medicine, Howard Hughes Medical Institute, Rosalind Russell Center for Medical Research in Arthritis, University of California, San Francisco, CA 94143, USA
    J Immunol 171:860-6. 2003
    ..Moreover, our studies revealed that a calcium-dependent event not requiring calcineurin or calcium/calmodulin-dependent kinase is required for TCR-induced polarization of the MTOC...
  23. pmc Structural basis of specificity and cross-reactivity in T cell receptors specific for cytochrome c-I-E(k)
    Evan W Newell
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford University, Stanford, CA 94305, USA
    J Immunol 186:5823-32. 2011
    ..These and other data illustrate the ability of TCRs to accommodate large variations in CDR3 structure and peptide contacts within the constraints of highly conserved TCR-MHC interactions...
  24. ncbi request reprint Linking molecular and cellular events in T-cell activation and synapse formation
    Michelle Krogsgaard
    Howard Hughes Medical Institute and the Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305 5323, USA
    Semin Immunol 15:307-15. 2003
    ..Ultimately, we want to integrate these cellular aspects of T-cell recognition with key features of the molecular interactions that drive specific events...
  25. pmc Simultaneous detection of many T-cell specificities using combinatorial tetramer staining
    Evan W Newell
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
    Nat Methods 6:497-9. 2009
    ..Here we describe and validate a method using combinations of fluorescent pMHC tetramers to simultaneously detect and enrich for many (>or=15) T-cell specificities in a single human blood sample...
  26. pmc Marked differences in human melanoma antigen-specific T cell responsiveness after vaccination using a functional microarray
    Daniel S Chen
    Department of Internal Medicine Division of Oncology, Stanford University, Stanford, California, United States of America
    PLoS Med 2:e265. 2005
    ..In contrast to many animal model studies, immunotherapeutic trials in humans suffering from cancer invariably result in a broad range of outcomes, from long-lasting remissions to no discernable effect...
  27. ncbi request reprint Imaging synapse formation during thymocyte selection: inability of CD3zeta to form a stable central accumulation during negative selection
    Lauren I Richie
    Program in Immunology, Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 16:595-606. 2002
    ..This implicates differences in synapse geometry in initiation of alternate signals downstream of the TCR...
  28. pmc Characterization of influenza vaccine immunogenicity using influenza antigen microarrays
    Jordan V Price
    Department of Medicine, Division of Immunology and Rheumatology, Stanford University School of Medicine, Stanford, California, USA
    PLoS ONE 8:e64555. 2013
    ....
  29. pmc Photocrosslinkable pMHC monomers stain T cells specifically and cause ligand-bound TCRs to be 'preferentially' transported to the cSMAC
    Jianming Xie
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
    Nat Immunol 13:674-80. 2012
    ....
  30. pmc Low ligand requirement for deletion and lack of synapses in positive selection enforce the gauntlet of thymic T cell maturation
    Peter J R Ebert
    Howard Hughes Medical Institute and the Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 29:734-45. 2008
    ....
  31. ncbi request reprint A hybrid machine-learning approach for segmentation of protein localization data
    Peter M Kasson
    Biophysics Program, Stanford Synchrotron Radiation Laboratory, Stanford University, Stanford, CA 94305, USA
    Bioinformatics 21:3778-86. 2005
    ....
  32. pmc γδ T cells recognize a microbial encoded B cell antigen to initiate a rapid antigen-specific interleukin-17 response
    Xun Zeng
    Department of Microbiology and Immunology, School of Medicine, Stanford University, Stanford, CA 94305, USA
    Immunity 37:524-34. 2012
    ..These results underscore the adaptability of lymphocyte antigen receptors and suggest an antigen-driven rapid response in protective immunity prior to the maturation of classical adaptive immunity...
  33. pmc Virus-specific CD4(+) memory-phenotype T cells are abundant in unexposed adults
    Laura F Su
    Division of Immunology and Rheumatology, Stanford University School of Medicine, Stanford, CA 94304, USA
    Immunity 38:373-83. 2013
    ..Thus, the presence of these memory-phenotype T cells has significant implications for immunity to novel pathogens, child and adult health, and the influence of pathogen-rich versus hygienic environments...
  34. pmc The safety on the TCR trigger
    Michael S Kuhns
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Cell 135:594-6. 2008
    ..Prior to activation, basic residues in the cytoplasmic domain of the signaling subunits of the T cell receptor associate with the plasma membrane such that the key signaling tyrosines are sequestered in the bilayer...
  35. ncbi request reprint Dynamics of p56lck translocation to the T cell immunological synapse following agonist and antagonist stimulation
    Lauren I Richie Ehrlich
    Program in Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 17:809-22. 2002
    ..Most surprisingly, we find an intracellular pool of lck associated with recycling endosomes that translocates to mature synapses within 10 min of calcium flux. This bolus of lck may contribute to intermediate-late signal transduction...
  36. ncbi request reprint Evidence that structural rearrangements and/or flexibility during TCR binding can contribute to T cell activation
    Michelle Krogsgaard
    Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Mol Cell 12:1367-78. 2003
    ..Structural analysis shows significant changes in the central TCR contact residue of the peptide-MHC, indicating that structural rearrangements within the TCR-peptide-MHC interface can contribute to T cell activation...
  37. pmc Apoptosis and other immune biomarkers predict influenza vaccine responsiveness
    David Furman
    Department of Microbiology and Immunology, School of Medicine, Stanford University, Palo Alto, CA 94305, USA
    Mol Syst Biol 9:659. 2013
    ..The identification of these biomarkers provides new insights into what immune features may be most important for immune health...
  38. pmc Isolating highly enriched populations of circulating epithelial cells and other rare cells from blood using a magnetic sweeper device
    AmirAli H Talasaz
    Department of Electrical Engineering, Stanford University, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 106:3970-5. 2009
    ..In contrast, we could not find any circulating epithelial cells in samples from 5 healthy donors. The isolated CEpCs are all stored individually for further molecular analysis...
  39. doi request reprint Functional development of the T cell receptor for antigen
    Peter J R Ebert
    The Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
    Prog Mol Biol Transl Sci 92:65-100. 2010
    ..Here, we discuss our recent findings relating to T cell antigen recognition and how this leads to the thymic development of foreign-antigen-responsive alphabetaT cells...
  40. ncbi request reprint Direct observation of ligand recognition by T cells
    Darrell J Irvine
    Department of Microbiology and Immunology and the Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California 94305, USA
    Nature 419:845-9. 2002
    ..This sensitivity is highly dependent on CD4, because blocking this molecule with antibodies renders T cells unable to detect less than about 30 ligands...
  41. pmc Lineage structure of the human antibody repertoire in response to influenza vaccination
    Ning Jiang
    Department of Bioengineering, Stanford University School of Medicine, Stanford, CA 94305, USA
    Sci Transl Med 5:171ra19. 2013
    ..We have thus shown that global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects...
  42. pmc Immunosuppressive therapy mitigates immunological rejection of human embryonic stem cell xenografts
    Rutger Jan Swijnenburg
    Department of Cardiothoracic Surgery, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 105:12991-6. 2008
    ..This process can be mitigated by a combined immunosuppressive regimen as assessed by molecular imaging approaches...
  43. ncbi request reprint Blimp-1 over Budapest
    Mark M Davis
    Howard Hughes Medical Institute and the Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Nat Immunol 8:445-7. 2007
    ..Recent work confirmed its role in the maturation of B cells into immunoglobulin-secreting plasmablasts, as well as in the control of T cell homeostasis and tolerance. What follows is a short history of how Blimp-1 was discovered...
  44. pmc Thymic selection determines gammadelta T cell effector fate: antigen-naive cells make interleukin-17 and antigen-experienced cells make interferon gamma
    Kirk D C Jensen
    Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA
    Immunity 29:90-100. 2008
    ..The swift IL-17 response mounted by antigen-naive gammadelta T cells suggests a critical role for these cells at the onset of an acute inflammatory response to novel antigens...
  45. ncbi request reprint How T cells 'see' antigen
    Michelle Krogsgaard
    The Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Nat Immunol 6:239-45. 2005
    ..Here we summarize some of the more recent work on alphabeta T cell receptor recognition and discuss the implications for activation...
  46. pmc Limited efficacy of inactivated influenza vaccine in elderly individuals is associated with decreased production of vaccine-specific antibodies
    Sanae Sasaki
    Department of Immunology and Microbiology, Stanford University School of Medicine, Stanford, California, USA
    J Clin Invest 121:3109-19. 2011
    ..They also suggest that exposure history affects the cross-reactivity of vaccination-induced antibodies...
  47. pmc Genetic and environmental determinants of human NK cell diversity revealed by mass cytometry
    Amir Horowitz
    Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Sci Transl Med 5:208ra145. 2013
    ..These findings further suggest the possibility that discrete NK cell subpopulations could be harnessed for immunotherapeutic strategies in the settings of infection, reproduction, and transplantation. ..
  48. ncbi request reprint T cells use two directionally distinct pathways for cytokine secretion
    Morgan Huse
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Nat Immunol 7:247-55. 2006
    ..These data suggest that T helper cells release some cytokines into the immunological synapse to impart specific communication and others multidirectionally to promote inflammation and to establish chemokine gradients...
  49. ncbi request reprint T-cell-antigen recognition and the immunological synapse
    Johannes B Huppa
    The Howard Hughes Medical Institute and The Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Nat Rev Immunol 3:973-83. 2003
  50. ncbi request reprint Disruption of extracellular interactions impairs T cell receptor-CD3 complex stability and signaling
    Michael S Kuhns
    Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Immunity 26:357-69. 2007
    ..These data demonstrate that extracellular TCR-CD3 subunit interactions contribute to the structural integrity and function of this multisubunit receptor...
  51. ncbi request reprint Continuous T cell receptor signaling required for synapse maintenance and full effector potential
    Johannes B Huppa
    Stanford University School of Medicine, Department of Microbiology and Immunology, and Howard Hughes Medical Institute, Beckman Center B221, 279 Campus Drive, Stanford, California 94305, USA
    Nat Immunol 4:749-55. 2003
    ..Thus TCR signaling persists for hours, has a cumulative effect and is necessary for the maintenance of the immunological synapse...
  52. ncbi request reprint T cell killing does not require the formation of a stable mature immunological synapse
    Marco A Purbhoo
    Department of Microbiology and Immunology and the Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California 94305, USA
    Nat Immunol 5:524-30. 2004
    ..Furthermore, only three pMHC complexes were required for killing, showing that stable synapse formation and complete signaling are not required for cytotoxicity...
  53. ncbi request reprint Two-step binding mechanism for T-cell receptor recognition of peptide MHC
    Lawren C Wu
    Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, B221 Beckman Center, Stanford, California 94305, USA
    Nature 418:552-6. 2002
    ....
  54. pmc Pluripotent stem cells: immune to the immune system?
    Jeremy I Pearl
    Department of Medicine and Radiology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Sci Transl Med 4:164ps25. 2012
    ..With clinical trials on the horizon, it is imperative that the immunogenicity of hESCs and iPSCs be definitively understood...
  55. pmc How the immune system talks to itself: the varied role of synapses
    Jianming Xie
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305 5323, USA
    Immunol Rev 251:65-79. 2013
    ..We describe some of the many characteristics of the immunological synapse that make it a vital part of intercellular communication and some of the questions that remain to be answered...
  56. pmc Short-term immunosuppression promotes engraftment of embryonic and induced pluripotent stem cells
    Jeremy I Pearl
    Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
    Cell Stem Cell 8:309-17. 2011
    ....
  57. ncbi request reprint Deconstructing the form and function of the TCR/CD3 complex
    Michael S Kuhns
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
    Immunity 24:133-9. 2006
    ..Here, we review the current state of our understanding of the structure and organization of the TCR/CD3 complex...
  58. pmc Cell type-specific gene expression differences in complex tissues
    Shai S Shen-Orr
    Department of Pediatrics, Stanford University School of Medicine, Stanford, California, USA
    Nat Methods 7:287-9. 2010
    ....
  59. pmc Plasma membrane-associated proteins are clustered into islands attached to the cytoskeleton
    Björn F Lillemeier
    Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 103:18992-7. 2006
    ..Abundant actin staining and inhibitor studies show that these structures are connected to the cytoskeleton and at least partially depend on it for their formation and/or maintenance...
  60. pmc A blood-borne antigen induces rapid T-B cell contact: a potential mechanism for tolerance induction
    Ines Gütgemann
    Department of Microbiology and Immunology, Stanford University, Stanford, California, USA
    Immunology 107:420-5. 2002
    ..In addition, B cells gain the ability to present antigen. Our results suggest a way for T cells to be stimulated by blood-borne antigen presented by naïve B cells, a potential mechanism of tolerance induction...
  61. pmc Plasmablast-derived polyclonal antibody response after influenza vaccination
    Xiao Song He
    Stanford University School of Medicine, Stanford, CA, USA
    J Immunol Methods 365:67-75. 2011
    ....
  62. pmc Human circulating PD-⁺1CXCR3⁻CXCR5⁺ memory Tfh cells are highly functional and correlate with broadly neutralizing HIV antibody responses
    Michela Locci
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA Department of Medicine, School of Medicine, University of California, San Diego, La Jolla, CA 92037, USA
    Immunity 39:758-69. 2013
    ..Importantly, the frequency of these cells correlated with the development of bnAbs against HIV in a large cohort of HIV⁺ individuals...
  63. pmc Combinatorial tetramer staining and mass cytometry analysis facilitate T-cell epitope mapping and characterization
    Evan W Newell
    Agency for Science, Technology and Research, Singapore Immunology Network, Singapore
    Nat Biotechnol 31:623-9. 2013
    ..This approach should be useful for the comprehensive analysis of T-cell responses to infectious diseases or vaccines. ..
  64. pmc T-cell receptor ligation induces distinct signaling pathways in naive vs. antigen-experienced T cells
    Keishi Adachi
    The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 108:1549-54. 2011
    ..Thus, there are distinct signaling pathways triggered by TCR ligation that impair signaling in naïve cells and facilitate it in antigen-experienced cells...
  65. ncbi request reprint Molecular and functional analysis using live cell microarrays
    Daniel S Chen
    Department of Microbiology and Immunology and the Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
    Curr Opin Chem Biol 10:28-34. 2006
    ..This review focuses on the use of cellular microarrays to detect antigen-specific T cells and their responsiveness, analyze cancer cell types and behavior and to investigate the control of stem cell differentiation...
  66. ncbi request reprint A new trigger for T cells
    Mark M Davis
    Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Cell 110:285-7. 2002
    ..A recent study has described a new trigger for T cell activation, involving a TCR-ligand-induced conformational change in CD3epsilon that permits binding of the adaptor protein Nck...
  67. ncbi request reprint Structural insight into pre-B cell receptor function
    Alexander J Bankovich
    Program in Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Science 316:291-4. 2007
    ....
  68. pmc Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8+ T cell phenotypes
    Evan W Newell
    Department of Microbiology and Immunology, Stanford University, CA 94305, USA
    Immunity 36:142-52. 2012
    ..This large degree of functional diversity even between cells with the same specificity gives CD8(+) T cells a remarkable degree of flexibility in responding to pathogens...
  69. pmc Significance analysis of xMap cytokine bead arrays
    Joong Ho Won
    Division of Biostatistics, Department of Health Research and Policy, Stanford University, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 109:2848-53. 2012
    ..We show that SAxCyB outperforms conventional analysis schemes in both sensitivity (low fluorescence) and robustness (high variability) and has enabled us to find many new differentially expressed cytokines in published studies...
  70. ncbi request reprint Modular nature of Blimp-1 in the regulation of gene expression during B cell maturation
    Roger Sciammas
    Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    J Immunol 172:5427-40. 2004
    ..Furthermore, mutagenesis of Blimp-1 reveals multiple effector domains, which regulate distinct genes. This indicates that Blimp-1 subdivides the maturation program into select and tunable pathways...
  71. ncbi request reprint Costimulation and endogenous MHC ligands contribute to T cell recognition
    Christoph Wulfing
    The Howard Hughes Medical Institute and The Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Nat Immunol 3:42-7. 2002
    ..Thus, low-affinity ligands can contribute to synapse formation and T cell signaling...
  72. pmc Probing the plasma membrane structure of immune cells through the analysis of membrane sheets by electron microscopy
    Björn F Lillemeier
    Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
    Methods Mol Biol 748:169-82. 2011
    ..The exposed inner membrane surfaces can then be visualized with electron dense stains and specific proteins can be detected with gold conjugated probes...
  73. ncbi request reprint Cellular immunotherapy: antigen recognition is just the beginning
    Daniel S Chen
    Department of Internal Medicine, Division of Oncology, Stanford University, Stanford, California 94305 5124, USA
    Springer Semin Immunopathol 27:119-27. 2005
    ..Such understanding will lead to more sophisticated clinical trials, earlier determination of efficacy and individualized protocols...
  74. pmc CD4+ T-cell synapses involve multiple distinct stages
    Hironori Ueda
    The Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305 5323, USA
    Proc Natl Acad Sci U S A 108:17099-104. 2011
    ....
  75. ncbi request reprint The evolutionary and structural 'logic' of antigen receptor diversity
    Mark M Davis
    The Department of Microbiology and Immunology, Stanford University School of Medicine, The Howard Hughes Medical Institute, 279 Campus Drive, Stanford, CA 94305 5323, USA
    Semin Immunol 16:239-43. 2004
    ..Thus, the wide variations seen in V region repertoires amongst vertebrates is likely to be of lesser importance than the preservation of one or more diverse CDR3 regions...
  76. pmc Restricted islet-cell reactive T cell repertoire of early pancreatic islet infiltrates in NOD mice
    Felix J Baker
    Howard Hughes Medical Institute and Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 99:9374-9. 2002
    ..Thus, autoimmune diabetes in NOD may be initiated by a limited number of antigens distinct from GAD65 and insulin...
  77. doi request reprint MHC-peptide tetramers to visualize antigen-specific T cells
    John D Altman
    Emory University School of Medicine, Atlanta, Georgia, USA
    Curr Protoc Immunol . 2003
    ....
  78. pmc A large T cell invagination with CD2 enrichment resets receptor engagement in the immunological synapse
    Kentner Singleton
    Center for Immunology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390, USA
    J Immunol 177:4402-13. 2006
    ..Based on this characterization, we speculate that the T cell invagination, aided by CD2 enrichment, internalizes parts of the TCR signaling machinery to reset T cell signaling upon agonist-mediated, stable APC contact...
  79. pmc A role for "self" in T-cell activation
    Michelle Krogsgaard
    Department of Pathology and NYU Cancer Institute, NYU School of Medicine, New York, NY 10016, USA
    Semin Immunol 19:236-44. 2007
    ..Here, we highlight recent experimental data that provides insights into the initiation of T-cell activation and also discuss the main controversies and uncertainties in this area...
  80. pmc Shouts, whispers and the kiss of death: directional secretion in T cells
    Morgan Huse
    Immunology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
    Nat Immunol 9:1105-11. 2008
    ..Thus, the mode of secretion seems to be tailored to the intended function of the secreted molecule...
  81. ncbi request reprint A single class II myosin modulates T cell motility and stopping, but not synapse formation
    Jordan Jacobelli
    Department of Pathology, University of California at San Francisco, 513 Parnassus Ave, San Francisco, California 93143, USA
    Nat Immunol 5:531-8. 2004
    ..Phosphorylation of MyH9 in its multimerization domain by T cell receptor-generated signals indicates that inactivation of this motor may be a key step in the 'stop' response during antigen recognition...
  82. ncbi request reprint The zinc finger transcriptional repressor Blimp1/Prdm1 is dispensable for early axis formation but is required for specification of primordial germ cells in the mouse
    Stephane D Vincent
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
    Development 132:1315-25. 2005
    ..Thus Blimp1 probably acts to turn off the default pathway that allows epiblast cells to adopt a somatic cell fate, and shifts the transcriptional program so that they become exclusively allocated into the germ cell lineage...
  83. pmc Molecular flexibility can influence the stimulatory ability of receptor-ligand interactions at cell-cell junctions
    Shuyan Qi
    Department of Chemical Engineering, University of California, Berkeley, CA 94720, USA
    Proc Natl Acad Sci U S A 103:4416-21. 2006
    ....
  84. ncbi request reprint Dynamics of the immunological synapse: finding, establishing and solidifying a connection
    Matthew F Krummel
    Department of Pathology, University of California at San Francisco, San Francisco, CA 94143 0511, USA
    Curr Opin Immunol 14:66-74. 2002
    ..This unexpected level of complexity of co-clustering and exclusion in the interface has generated much interest in the functional consequences of signaling and/or immune effector function...
  85. ncbi request reprint Distinct molecular mechanisms account for the specificity of two different T-cell receptors
    Nadja Anikeeva
    Department of Microbiology and Immunology and Kimmel Cancer Institute, Thomas Jefferson University, Philadelphia, Pennsylvania 19107, USA
    Biochemistry 42:4709-16. 2003
    ..The use of these different mechanisms by TCRs to recognize ligands might be an important means augmenting their inherent cross-reactivity...