Publications by authors named "Mark M Davis"

100Publications

Aging and CMV discordance are associated with increased immune diversity between monozygotic twins.

Immun Ageing 2021 Jan 18;18(1). Epub 2021 Jan 18.

Sean N. Parker Center for Allergy and Asthma Research, Stanford University School of Medicine, Stanford, CA, USA.

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January 2021

Antigen-specific T Cell Activation Distinguishes Between Recent and Remote Tuberculosis Infection.

Am J Respir Crit Care Med 2021 Jan 6. Epub 2021 Jan 6.

University of Cape Town, 37716, South African Tuberculosis Vaccine Initiative, Institute of Infectious Disease and Molecular Medicine, Division of Immunology, Department of Pathology, , Cape Town, South Africa;

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January 2021

Mass Cytometry Defines Virus-Specific CD4 T Cells in Influenza Vaccination.

Immunohorizons 2020 Dec 11;4(12):774-788. Epub 2020 Dec 11.

Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA 94305;

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December 2020

alters the gut microbiota and modulates the functional metabolism of T regulatory cells in the context of immune checkpoint blockade.

Proc Natl Acad Sci U S A 2020 11 19;117(44):27509-27515. Epub 2020 Oct 19.

Research Center of Translational Medicine, Shanghai Children's Hospital, Shanghai Institute of Immunology, State Key Laboratory of Oncogenes and Related Genes, Shanghai Jiao Tong University School of Medicine, Shanghai 200240, China;

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November 2020

The science and medicine of human immunology.

Science 2020 09;369(6511)

Institute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA.

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September 2020

Regulation of peanut-specific CD8 T cells from nonallergic individuals.

J Allergy Clin Immunol 2021 Jan 21;147(1):385-387.e1. Epub 2020 Aug 21.

Sean N. Parker Center for Allergy and Asthma Research at Stanford University School of Medicine, Stanford University School of Medicine, Stanford, Calif; Division of Pulmonary and Critical Care Medicine, Department of Medicine, Stanford University School of Medicine, Stanford, Calif. Electronic address:

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January 2021

Systems immunology.

Authors:
Mark M Davis

Curr Opin Immunol 2020 Aug 30;65:79-82. Epub 2020 Jul 30.

Institute for Immunity, Transplantation and Infection, Department of Microbiology and Immunology, and Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA, 94305, USA. Electronic address:

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August 2020

An Integrated Multi-omic Single-Cell Atlas of Human B Cell Identity.

Immunity 2020 Jul;53(1):217-232.e5

Immunology Graduate Program, Stanford University, Stanford, CA, 94305, USA; Department of Pathology, Stanford University, Stanford, CA, 94305, USA. Electronic address:

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July 2020

T cell analysis in vaccination.

Authors:
Mark M Davis

Curr Opin Immunol 2020 Aug 27;65:70-73. Epub 2020 Jun 27.

Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA, United States; Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA, United States; Immunology Program, Stanford University School of Medicine, Stanford, CA, United States; Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, United States. Electronic address:

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August 2020

Correction to: Cardiovascular Complications in Patients with COVID-19: Consequences of Viral Toxicities and Host Immune Response.

Curr Cardiol Rep 2020 05 13;22(5):36. Epub 2020 May 13.

Department of Medicine, Stanford University, Room G1120A, Lokey Stem Cell Building, 265 Campus Drive, Stanford, CA, 94305, USA.

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May 2020

Analyzing the Mycobacterium tuberculosis immune response by T-cell receptor clustering with GLIPH2 and genome-wide antigen screening.

Nat Biotechnol 2020 10 27;38(10):1194-1202. Epub 2020 Apr 27.

Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA, USA.

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October 2020

Cardiovascular Complications in Patients with COVID-19: Consequences of Viral Toxicities and Host Immune Response.

Curr Cardiol Rep 2020 04 21;22(5):32. Epub 2020 Apr 21.

Department of Medicine, Stanford University, Room G1120A, Lokey Stem Cell Building, 265 Campus Drive, Stanford, CA, 94305, USA.

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April 2020

Distinct immune characteristics distinguish hereditary and idiopathic chronic pancreatitis.

J Clin Invest 2020 05;130(5):2705-2711

Division of Gastroenterology and Hepatology, Department of Medicine, Stanford University Medical School, Stanford, California, USA.

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May 2020

The FluPRINT dataset, a multidimensional analysis of the influenza vaccine imprint on the immune system.

Sci Data 2019 10 21;6(1):214. Epub 2019 Oct 21.

Institute of Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA, 94304, USA.

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October 2019

Predicting HLA class II antigen presentation through integrated deep learning.

Nat Biotechnol 2019 11 14;37(11):1332-1343. Epub 2019 Oct 14.

Department of Medicine, Division of Oncology, Stanford Cancer Institute, Stanford University, Stanford, CA, USA.

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November 2019

Recent progress in the analysis of αβT cell and B cell receptor repertoires.

Curr Opin Immunol 2019 08 18;59:109-114. Epub 2019 Jul 18.

Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA; The Sean N. Parker Center for Allergy and Asthma Research at Stanford University, Stanford, CA, USA; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.

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August 2019

Acute myeloid leukemia immunopeptidome reveals HLA presentation of mutated nucleophosmin.

PLoS One 2019 10;14(7):e0219547. Epub 2019 Jul 10.

Department of Medicine, Division of Oncology, Stanford University, Stanford, CA, United States of America.

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February 2020

Computational and Systems Immunology: A Student's Perspective.

Trends Immunol 2019 08 6;40(8):665-668. Epub 2019 Jul 6.

Department of Medicine, Center for Biomedical Research, Stanford University, Stanford, CA, USA. Electronic address:

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August 2019

SIMON, an Automated Machine Learning System, Reveals Immune Signatures of Influenza Vaccine Responses.

J Immunol 2019 08 14;203(3):749-759. Epub 2019 Jun 14.

Institute of Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94304.

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August 2019

Select sequencing of clonally expanded CD8 T cells reveals limits to clonal expansion.

Proc Natl Acad Sci U S A 2019 04 16;116(18):8995-9001. Epub 2019 Apr 16.

Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305;

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April 2019

Hypoimmunogenic derivatives of induced pluripotent stem cells evade immune rejection in fully immunocompetent allogeneic recipients.

Nat Biotechnol 2019 03 18;37(3):252-258. Epub 2019 Feb 18.

Department of Surgery, Division of Cardiothoracic Surgery, Transplant and Stem Cell Immunobiology-Lab, University of California San Francisco, San Francisco, CA, USA.

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March 2019

Allergen-specific CD8 T cells in peanut-allergic individuals.

J Allergy Clin Immunol 2019 05 22;143(5):1948-1952. Epub 2019 Jan 22.

Sean N. Parker Center for Allergy and Asthma Research at Stanford University School of Medicine, Stanford, Calif; Division of Pulmonary and Critical Care Medicine, Department of Medicine, Stanford University, Stanford, Calif; Division of Allergy, Immunology and Rheumatology, Department of Pediatrics, Stanford University, Stanford, Calif. Electronic address:

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May 2019

Histone H3 lysine 4 methylation signature associated with human undernutrition.

Proc Natl Acad Sci U S A 2018 11 12;115(48):E11264-E11273. Epub 2018 Nov 12.

Department of Biochemistry and Molecular Genetics, University of Virginia Health System, Charlottesville, VA 22908;

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November 2018

Advanced model systems and tools for basic and translational human immunology.

Genome Med 2018 09 28;10(1):73. Epub 2018 Sep 28.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, 94305, USA.

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September 2018

Isolation of a Structural Mechanism for Uncoupling T Cell Receptor Signaling from Peptide-MHC Binding.

Cell 2018 07;174(3):672-687.e27

Departments of Molecular and Cellular Physiology and Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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July 2018

Single-Cell Chromatin Modification Profiling Reveals Increased Epigenetic Variations with Aging.

Cell 2018 05 26;173(6):1385-1397.e14. Epub 2018 Apr 26.

Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Medicine, Division of Immunology and Rheumatology, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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May 2018

Rebooting Human Immunology.

Annu Rev Immunol 2018 04 28;36:843-864. Epub 2018 Feb 28.

Science for Life Laboratory, Department of Women's and Children's Health, Karolinska Institutet, 17121 Solna, Sweden.

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April 2018

Autologous iPSC-Based Vaccines Elicit Anti-tumor Responses In Vivo.

Cell Stem Cell 2018 04 15;22(4):501-513.e7. Epub 2018 Feb 15.

Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA; Stanford Cardiovascular Institute of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Radiology, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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April 2018

A Macrophage Colony-Stimulating-Factor-Producing γδ T Cell Subset Prevents Malarial Parasitemic Recurrence.

Immunity 2018 02 6;48(2):350-363.e7. Epub 2018 Feb 6.

Institute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA; Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA. Electronic address:

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February 2018

Plasmablast antibody repertoires in elderly influenza vaccine responders exhibit restricted diversity but increased breadth of binding across influenza strains.

Clin Immunol 2018 08 2;193:70-79. Epub 2018 Feb 2.

Geriatric Research Education and Clinical Center (GRECC), Veterans Affairs Palo Alto Health Care System, Palo Alto, CA 94304, USA; Division of Immunology and Rheumatology, Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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August 2018

Antigen Identification for Orphan T Cell Receptors Expressed on Tumor-Infiltrating Lymphocytes.

Cell 2018 01 21;172(3):549-563.e16. Epub 2017 Dec 21.

Departments of Molecular and Cellular Physiology and Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA; The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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January 2018

can mitigate intestinal immunopathology in the context of CTLA-4 blockade.

Proc Natl Acad Sci U S A 2018 01 18;115(1):157-161. Epub 2017 Dec 18.

Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305;

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January 2018

High-Dimensional Phenotypic Mapping of Human Dendritic Cells Reveals Interindividual Variation and Tissue Specialization.

Immunity 2017 12 5;47(6):1037-1050.e6. Epub 2017 Dec 5.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA; Program in Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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December 2017

Reply to Roerink et al: Methods for recruitment, serum separation, and storage were the same for patients and controls.

Proc Natl Acad Sci U S A 2017 11 30;114(45):E9436. Epub 2017 Oct 30.

Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305;

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November 2017

Will Systems Biology Deliver Its Promise and Contribute to the Development of New or Improved Vaccines? Seeing the Forest Rather than a Few Trees.

Cold Spring Harb Perspect Biol 2018 08 1;10(8). Epub 2018 Aug 1.

Institute of Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, California 94304.

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August 2018

Clonal Expansion and Interrelatedness of Distinct B-Lineage Compartments in Multiple Myeloma Bone Marrow.

Cancer Immunol Res 2017 09 2;5(9):744-754. Epub 2017 Aug 2.

Department of Microbiology and Immunology, Stanford University, Stanford, California.

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September 2017

Cytokine signature associated with disease severity in chronic fatigue syndrome patients.

Proc Natl Acad Sci U S A 2017 08 31;114(34):E7150-E7158. Epub 2017 Jul 31.

Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305;

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August 2017

Continuous immunotypes describe human immune variation and predict diverse responses.

Proc Natl Acad Sci U S A 2017 07 10;114(30):E6097-E6106. Epub 2017 Jul 10.

Science for Life laboratory, Department of Medicine, Karolinska Institutet, Solna 17177, Sweden;

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July 2017

Systems immunology: just getting started.

Nat Immunol 2017 Jun;18(7):725-732

Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, California, USA.

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June 2017

The Repertoire Dissimilarity Index as a method to compare lymphocyte receptor repertoires.

BMC Bioinformatics 2017 Mar 7;18(1):155. Epub 2017 Mar 7.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, 94305, CA, USA.

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March 2017

Phylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging.

Proc Natl Acad Sci U S A 2017 01 17;114(5):1105-1110. Epub 2017 Jan 17.

Department of Applied Physics, Stanford University, Stanford, CA 94305;

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January 2017

Human immune system variation.

Nat Rev Immunol 2017 01 5;17(1):21-29. Epub 2016 Dec 5.

Department of Microbiology and Immunology, Stanford University School of Medicine.

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January 2017

MHC-Peptide Tetramers to Visualize Antigen-Specific T Cells.

Curr Protoc Immunol 2016 11 1;115:17.3.1-17.3.44. Epub 2016 Nov 1.

Stanford University School of Medicine and The Howard Hughes Medical Institute, Palo Alto, California.

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November 2016

Defective Signaling in the JAK-STAT Pathway Tracks with Chronic Inflammation and Cardiovascular Risk in Aging Humans.

Cell Syst 2016 10 13;3(4):374-384.e4. Epub 2016 Oct 13.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA; Institute of Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA. Electronic address:

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October 2016

Defective T Memory Cell Differentiation after Varicella Zoster Vaccination in Older Individuals.

PLoS Pathog 2016 Oct 20;12(10):e1005892. Epub 2016 Oct 20.

Department of Medicine, Division of Immunology and Rheumatology, Stanford University, Stanford, California, United States of America.

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October 2016

Antigen exposure shapes the ratio between antigen-specific Tregs and conventional T cells in human peripheral blood.

Proc Natl Acad Sci U S A 2016 10 28;113(41):E6192-E6198. Epub 2016 Sep 28.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94304; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94304

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October 2016

Global Analysis of O-GlcNAc Glycoproteins in Activated Human T Cells.

J Immunol 2016 10 21;197(8):3086-3098. Epub 2016 Sep 21.

Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305;

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October 2016

In Praise of Descriptive Science: A Breath of Fresh AIRE.

Authors:
Mark M Davis

Cell 2016 Jul;166(3):530-531

Howard Hughes Medical Institute, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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July 2016

Inhibition of T cell receptor signaling by cholesterol sulfate, a naturally occurring derivative of membrane cholesterol.

Nat Immunol 2016 07 23;17(7):844-50. Epub 2016 May 23.

The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA.

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July 2016

Detection, phenotyping, and quantification of antigen-specific T cells using a peptide-MHC dodecamer.

Proc Natl Acad Sci U S A 2016 Mar 15;113(13):E1890-7. Epub 2016 Mar 15.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305; Stanford Institute for Immunity, Transplantation, and Infection, Stanford University, Stanford, CA 94305; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305

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March 2016

CXCL13 is a plasma biomarker of germinal center activity.

Proc Natl Acad Sci U S A 2016 Mar 23;113(10):2702-7. Epub 2016 Feb 23.

Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037; Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, La Jolla, CA 92037;

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March 2016

Successful immunotherapy induces previously unidentified allergen-specific CD4+ T-cell subsets.

Proc Natl Acad Sci U S A 2016 Mar 25;113(9):E1286-95. Epub 2016 Jan 25.

Sean N. Parker Center for Allergy and Asthma Research at Stanford University, Pulmonary and Critical Care Medicine, Institute of Immunity, Transplantation, and Infectious Diseases, Stanford University, Stanford, CA 94305;

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March 2016

William Erwin Paul (1936-2015).

Cell 2015 Oct;163(3):529-30

Howard Hughes Medical Institute, Department of Microbiology and Immunology, Institute of Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA 94304, USA

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October 2015

Not-So-Negative Selection.

Authors:
Mark M Davis

Immunity 2015 Nov;43(5):833-5

Howard Hughes Medical Institute; Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford University, Stanford, CA 94305, USA. Electronic address:

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November 2015

Distinct Roles of Cytoskeletal Components in Immunological Synapse Formation and Directed Secretion.

J Immunol 2015 Nov 21;195(9):4117-25. Epub 2015 Sep 21.

Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305; Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305; and

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November 2015

Human B-cell isotype switching origins of IgE.

J Allergy Clin Immunol 2016 Feb 22;137(2):579-586.e7. Epub 2015 Aug 22.

Department of Pathology, Transplantation and Infection, Stanford University, Stanford, Calif. Electronic address:

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February 2016

New approaches to understanding the immune response to vaccination and infection.

Vaccine 2015 Sep 29;33(40):5271-81. Epub 2015 Jul 29.

Institute for Immunity, Transplantation and Infection, School of Medicine, Stanford University, Stanford, CA, United States; Department of Microbiology and Immunology, School of Medicine, Stanford University, Stanford, CA, United States; Howard Hughes Medical Institute, School of Medicine, Stanford University, Stanford, CA, United States. Electronic address:

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September 2015