J. Sidney

J. Sidney, A. Sette, R. Doebele, 2020, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer.

Spleen cells from young but not old immunized mice eradicate large established cancers

J. Sidney, A. Sette, R. Weichselbaum, 2012, Clinical Cancer Research.

Corrections

J. Greenbaum, Bjoern Peters, V. Pasquetto, 1918, The Lancet.

Immuno-proteomic interrogation of dengue infection reveals novel HLA haplotype-specific MHC-I antigens

Lisa E. Wagar, Mark M. Davis, Joshua E. Elias, 2018, bioRxiv.

Counter-regulation of regulatory T cells by autoreactive CD8+ T cells in rheumatoid arthritis.

J. Sidney, A. Sette, D. Raimondo, 2019, Journal of autoimmunity.

Brucella melitensis T Cell Epitope Recognition in Humans with Brucellosis in Peru

J. Sidney, A. Sette, R. Gilman, 2013, Infection and Immunity.

Impact of Pre-adapted HIV Transmission

Charles E. DeZiel, Todd M. Allen, D. Heckerman, 2016, Nature Medicine.

T Cell Repertoire in C 57 BL / 6 Mice + CD 8 Defining the Herpes Simplex Virus-Specific

Bjoern Peters, J. Sidney, A. Sette, 2011 .

Bjoern Peters, J. Sidney, A. Sette, 2010, Microbiology and Molecular Biology Reviews.

The CD4+ T‐cell epitope‐binding register is a critical parameter when generating functional HLA‐DR tetramers with promiscuous peptides

J. Sidney, A. Sette, R. Longhi, 2010, European journal of immunology.

Epitope identification and vaccine design for cancer immunotherapy.

J. Sidney, A. Sette, R. Chesnut, 2002, Current opinion in investigational drugs.

Generation of NY-ESO-1-specific CD4+ and CD8+ T cells by a single peptide with dual MHC class I and class II specificities: a new strategy for vaccine design.

J. Sidney, S. Rosenberg, G. Zeng, 2002, Cancer research.

gp100/pmel17 and tyrosinase encode multiple epitopes recognized by Th1-type CD4+T cells

V. Brusic, J. Sidney, A. Sette, 2001, British Journal of Cancer.

Effect of pH on MHC class II-peptide interactions.

J. Sidney, H. Grey, A. Sette, 1992, Journal of immunology.

A Review on T Cell Epitopes Identified Using Prediction and Cell-Mediated Immune Models for Mycobacterium tuberculosis and Bordetella pertussis

Sandeep Kumar Dhanda, Bjoern Peters, J. Sidney, 2018, Front. Immunol..

Identification of potential CTL epitopes of tumor-associated antigen MAGE-1 for five common HLA-A alleles.

J. Sidney, A. Sette, E. Celis, 1994, Molecular immunology.

Identification of subdominant CTL epitopes of the GP100 melanoma-associated tumor antigen by primary in vitro immunization with peptide-pulsed dendritic cells.

J. Sidney, A. Sette, K. Sakaguchi, 1997, Journal of immunology.

Impact of Cysteine Residues on MHC Binding Predictions and Recognition by Tumor-Reactive T Cells

Bjoern Peters, J. Sidney, A. Sette, 2020, The Journal of Immunology.

Measuring the capacity of peptides to bind class II MHC molecules and act asTCR antagonists

J. Sidney, A. Sette, J. Alexander, 1996 .

Low HLA binding of diabetes-associated CD8+ T-cell epitopes is increased by post translational modifications

Ravi V. Kolla, J. Sidney, A. Sette, 2018, BMC Immunology.

Development of a strategy and computational application to select candidate protein analogues with reduced HLA binding and immunogenicity

Sandeep Kumar Dhanda, Bjoern Peters, J. Sidney, 2018, Immunology.

Gliadin-Specific CD8+ T Cell Responses Restricted by HLA Class I A*0101 and B*0801 Molecules in Celiac Disease Patients

J. Sidney, A. Sette, L. Greco, 2017, The Journal of Immunology.

Functional analysis of frequently expressed Chinese rhesus macaque MHC class I molecules Mamu-A1*02601 and Mamu-B*08301 reveals HLA-A2 and HLA-A3 supertypic specificities

Bjoern Peters, J. Sidney, A. Sette, 2011, Immunogenetics.

A Multivalent Vaccination Strategy for the Prevention of Old World Arenavirus Infection in Humans

J. Sidney, A. Sette, M. Buchmeier, 2010, Journal of Virology.

A Multivalent and Cross-Protective Vaccine Strategy against Arenaviruses Associated with Human Disease

J. Greenbaum, Bjoern Peters, V. Pasquetto, 2009, PLoS pathogens.

MacaquesMotif Between Humans and Rhesus Conserved MHC Class I Peptide Binding

J. Sidney, A. Sette, D. Watkins, 1999 .

Specific binding of leukemia oncogene fusion protein peptides to HLA class I molecules.

J. Sidney, A. Sette, D. Scheinberg, 1995, Blood.

Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 159 individuals from the Worcester region of the Western Cape province of South Africa.

S. Mallal, J. Sidney, A. Sette, 2018, Human immunology.

Human Population Frequently Expressed in the Worldwide Repertoires of Six HLA-DQ Molecules Divergent Motifs but Overlapping Binding

Bjoern Peters, J. Sidney, A. Sette, 2010 .

Overlapping Peptide Binding Repertoires Several Common HLA-DR Types Share Largely

J. Sidney, H. Grey, A. Sette, 1998 .

Predicting the Success of Fmoc-Based Peptide Synthesis

J. Greenbaum, Bjoern Peters, J. Sidney, 2022, ACS omega.

Naturally processed HLA‐DR3‐restricted HHV‐6B peptides are recognized broadly with polyfunctional and cytotoxic CD4 T‐cell responses

J. Sidney, A. Sette, S. Shaffer, 2019, European journal of immunology.

Analysis of the binding of gluten T-cell epitopes to various human leukocyte antigen class II molecules.

J. Sidney, A. Sette, E. Bergseng, 2008, Human immunology.

Restricted myeloperoxidase epitopes drive the adaptive immune response in MPO-ANCA vasculitis.

Dante S. Bortone, D. Bortone, S. Mallal, 2020, Journal of autoimmunity.

Epitope-specific airway-resident CD4+ T cell dynamics during experimental human RSV infection

S. Johnston, Bjoern Peters, J. Sidney, 2019, The Journal of clinical investigation.

Human rhinovirus‐specific CD8 T cell responses target conserved and unusual epitopes

J. Sidney, A. Sette, M. Fernández-arquero, 2020, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

Identification and Characterization of Rift Valley Fever Virus-Specific T Cells Reveals a Dependence on CD40/CD40L Interactions for Prevention of Encephalitis

J. Sidney, A. Sette, A. McElroy, 2021, Journal of virology.

A CD8 T Cell Heptaepitope Minigene Vaccine Induces Protective Immunity against Chlamydia pneumoniae

J. Sidney, A. Sette, E. Appella, 2005 .

The T210M Substitution in the HLA-a*02:01 gp100 Epitope Strongly Affects Overall Proteasomal Cleavage Site Usage and Antigen Processing*

P. Kloetzel, J. Sidney, A. Sette, 2015, The Journal of Biological Chemistry.

Identification of Novel Yellow Fever Class II Epitopes in YF-17D Vaccinees

S. Mallal, J. Sidney, A. Sette, 2020, Viruses.

Dissecting Mechanisms of Immunodominance to the Common Tuberculosis Antigens ESAT-6, CFP10, Rv2031c (hspX), Rv2654c (TB7.7), and Rv1038c (EsxJ)

J. Greenbaum, Magdalini Moutaftsi, Bjoern Peters, 2012, The Journal of Immunology.

A promiscuous T cell epitope-based HIV vaccine providing redundant population coverage of the HLA class II elicits broad, polyfunctional T cell responses in nonhuman primates.

J. Sidney, A. Sette, J. Kalil, 2021, Vaccine.

Characterization of SARS‐CoV‐2 and common cold coronavirus‐specific T‐cell responses in MIS‐C and Kawasaki disease children

J. Sidney, J. Burns, A. Tremoulet, 2021, European journal of immunology.

Atheroprotective vaccination with MHC-II-restricted ApoB peptides induces peritoneal IL-10-producing CD4 T cells.

J. Sidney, A. Sette, K. Ley, 2017, American journal of physiology. Heart and circulatory physiology.

Inflammatory Markers Are Not Useful for Identifying Patients With SARS-CoV-2 Infection

J. Sidney, A. Holmes, R. Medlin, 2020, Journal of the National Medical Association.

High-avidity Autoreactive CD4+ T Cells Induce Host CTL, Overcome Tregs and Mediate Tumor Destruction

J. Sidney, N. Restifo, W. Leitner, 2009, Journal of immunotherapy.

A Case of Human Lassa Virus Infection With Robust Acute T-Cell Activation and Long-Term Virus-Specific T-Cell Responses

Jay B. Varkey, J. Sidney, A. Sette, 2017, The Journal of infectious diseases.

SARS-CoV-2-specific T cell responses and immune regulation in infected pregnant women

J. Sidney, C. Chambers, A. Grifoni, 2021, Journal of Reproductive Immunology.

A conserved Bacteroidetes antigen induces anti-inflammatory intestinal T lymphocytes

T. Lu, J. Sidney, A. Sette, 2022, Science.

Hepatitis C Virus Immune Escape via Exploitation of a Hole in the T Cell Repertoire1

Todd M. Allen, J. Sidney, A. Sette, 2008, The Journal of Immunology.

SARS-CoV-2 vaccination induces immunological T cell memory able to cross-recognize variants from Alpha to Omicron

S. Mallal, J. Sidney, A. Sette, 2022, Cell.

Respiratory Syncytial Virus Predisposes Mice to Augmented Allergic Airway Responses Via IL-13-Mediated Mechanisms

Bjoern Peters, D. Tscharke, J. Sidney, 2001 .

Is STAT6 Dependent During Respiratory Syncytial Virus Infection IL-13-Induced Airway Hyperreactivity

Bjoern Peters, D. Tscharke, J. Sidney, 2001 .

IL-13-Mediated Mechanisms Viato Augmented Allergic Airway Responses Respiratory Syncytial Virus Predisposes Mice and Hussien

Bjoern Peters, D. Tscharke, J. Sidney, 2001 .

Identification of T. gondii epitopes, adjuvants, & host genetic factors that influence protection of mice & humans

Stephen, A. Montpetit, J. Sidney, 2010 .

Reactive Human CD 8 T Cells that Recognize an Epitope Conserved between VZV , HSV and EBV

M. Carrington, B. Pulendran, Bjoern Peters, 2022 .

Immunogenicity and Cross-Reactivity of a Representative Ancestral Sequence in Hepatitis C Virus Infection

J. Sidney, A. Sette, S. Ray, 2012, The Journal of Immunology.

Characterization of the peptide-binding specificity of Mamu-A*11 results in the identification of SIV-derived epitopes and interspecies cross-reactivity

J. Sidney, H. Bui, A. Sette, 2005, Immunogenetics.

Characterization of the Peptide-Binding Specificity of Mamu-B*17 and Identification of Mamu-B*17-Restricted Epitopes Derived from Simian Immunodeficiency Virus Proteins1

J. Sidney, A. Sette, B. Mothé, 2002, The Journal of Immunology.

Proteins from Simian Immunodeficiency Virus of Mamu-B * 17-Restricted Epitopes Derived Specificity of Mamu-B * 17 and Identification Characterization of the Peptide-Binding

J. Sidney, A. Sette, B. Mothé, 2002 .

Lymphocytic Choriomeningitis Virus Infection Yields Overlapping CD4 (cid:1) and CD8 (cid:1) T-Cell Responses (cid:1)

Bjoern Peters, J. Sidney, A. Sette, 2008 .

Vascular Biology and Microcirculation Atheroprotective vaccination with MHC-II-restricted ApoB peptides induces peritoneal IL-10-producing CD4 T cells

J. Sidney, A. Sette, K. Ley, 2017 .

Molecular Determinants of T Cell Epitope

Ravi V. Kolla, Bjoern Peters, J. Sidney, 2010 .

Asymptomatic HLA-A*02:01–Restricted Epitopes from Herpes Simplex Virus Glycoprotein B Preferentially Recall Polyfunctional CD8+ T Cells from Seropositive Asymptomatic Individuals and Protect HLA Transgenic Mice against Ocular Herpes

J. Sidney, A. Sette, Arif A. Khan, 2013, The Journal of Immunology.

TRANSPLANTATION Systematic identi ﬁ cation of personal tumor-speci ﬁ c neoantigens in chronic lymphocytic leukemia

K. Cibulskis, S. Gabriel, N. Hacohen, 2014 .

Immunodominant MHC-II (Major Histocompatibility Complex II) Restricted Epitopes in Human Apolipoprotein B

S. Mallal, Bjoern Peters, J. Sidney, 2022 .

Advances in Brief Generation of NY-ESO-1-specific CD 4 and CD 8 T Cells by a Single Peptide with Dual MHC Class I and Class II Specificities : A New Strategy for Vaccine Design

J. Sidney, S. Rosenberg, G. Zeng, 2002 .

A Population Response Analysis Approach To Assign Class II HLA-Epitope Restrictions

Mark M. Davis, Bjoern Peters, J. Sidney, 2015, The Journal of Immunology.

Impact of HLA-B Alleles, Epitope Binding Affinity, Functional Avidity, and Viral Coinfection on the Immunodominance of Virus-Specific CTL Responses1

John Sidney, Alessandro Sette, David Heckerman, 2006, The Journal of Immunology.

Extensive HLA class I allele promiscuity among viral CTL epitopes

Nebojsa Jojic, John Sidney, Alessandro Sette, 2007, European journal of immunology.

Systematic Identification of Personal Mutated Tumor-Specific Neoantigens in CLL

N. Hacohen, E. Lander, G. Getz, 2012 .

Allergen and Epitope Targets of Mouse-Specific T Cell Responses in Allergy and Asthma

Bjoern Peters, J. Sidney, A. Sette, 2018, Front. Immunol..

Mapping immune responses to mRBP-3 1-16 peptide with altered peptide ligands.

J. Sidney, A. Sette, A. Dick, 2006, Investigative ophthalmology & visual science.

Experimental validation of the RATE tool for inferring HLA restrictions of T cell epitopes

Bjoern Peters, J. Sidney, A. Sette, 2017, BMC Immunology.

New epitopes in ovalbumin provide insights for cancer neoepitopes.

J. Sidney, A. Sette, P. Srivastava, 2019, JCI insight.

Identification of epitopes in ovalbumin that provide insights for cancer neoepitopes

J. Sidney, A. Sette, P. Srivastava, 2019 .

Polyfunctional CD4+ T cell responses to a set of pathogenic arenaviruses provide broad population coverage

Bjoern Peters, J. Sidney, H. Bui, 2010, Immunome research.

A shared MHC supertype motif emerges by convergent evolution in macaques and mice, but is totally absent in human MHC molecules

J. Sidney, A. Sette, B. Mothé, 2012, Immunogenetics.

Immunomic and Bioinformatics Analysis of Host Immunity in the Vaccinia Virus and Influenza A Systems

Magdalini Moutaftsi, Bjoern Peters, V. Pasquetto, 2008 .

Supertypefor Multiple Molecules of the HLA B44 Simultaneous Prediction of Binding Capacity

V. Pasquetto, J. Sidney, A. Sette, 2003 .

Correction: Definition of Human Epitopes Recognized in Tetanus Toxoid and Development of an Assay Strategy to Detect Ex Vivo Tetanus CD4+ T Cell Responses

S. Mallal, J. Sidney, A. Sette, 2017, PloS one.

Definition of Human Epitopes Recognized in Tetanus Toxoid and Development of an Assay Strategy to Detect Ex Vivo Tetanus CD4+ T Cell Responses

S. Mallal, J. Sidney, A. Sette, 2017, PloS one.

Defining antigen targets to dissect vaccinia virus (VACV) and Monkeypox virus (MPXV)-specific T cell responses in humans

R. Scheuermann, J. Sidney, A. Sette, 2022, bioRxiv.

High‐resolution analysis of individual spike peptide‐specific CD4 + T‐cell responses in vaccine recipients and COVID‐19 patients

J. Sidney, A. Sette, M. Addo, 2022, Clinical & translational immunology.

Conserved Hierarchy of Helper T Cell Responses in a Chimpanzee during Primary and Secondary Hepatitis C Virus Infections 1

J. Sidney, A. Sette, C. Walker, 2004, The Journal of Immunology.

and Secondary Hepatitis C Virus Infections Responses in a Chimpanzee during Primary Conserved Hierarchy of Helper T Cell

J. Sidney, A. Sette, C. Walker, 2003 .

Cutting Edge: Transcriptional Profiling Reveals Multifunctional and Cytotoxic Antiviral Responses of Zika Virus–Specific CD8+ T Cells

P. J. Norris, Bjoern Peters, J. Sidney, 2018, The Journal of Immunology.

Variable Fraction of Total Response to Are Differently Polarized and Account for a T Cell Responses to Known Allergen Proteins

Ravi V. Kolla, J. Greenbaum, Bjoern Peters, 2012 .

Broadly directed SARS-CoV-2-specific CD4+ T cell response includes frequently detected peptide specificities within the membrane and nucleoprotein in patients with acute and resolved COVID-19

J. Sidney, A. Sette, W. Kwok, 2021, PLoS pathogens.

Characterization of Conserved and Promiscuous Human Rhinovirus CD4 T Cell Epitopes

J. Sidney, A. Sette, E. Reinherz, 2021, Cells.

IgG Epitopes Processed and Presented by IgG+ B Cells Induce Suppression by Human Thymic-Derived Regulatory T Cells

J. Sidney, A. Sette, G. Firestein, 2021, The Journal of Immunology.

Detection of EXP1-Specific CD4+ T Cell Responses Directed Against a Broad Range of Epitopes Including Two Promiscuous MHC Class II Binders During Acute Plasmodium falciparum Malaria

J. Sidney, A. Sette, T. Jacobs, 2020, Frontiers in Immunology.

Quantification of epitope abundance reveals the effect of direct and cross-presentation on influenza CTL responses

D. Tscharke, J. Sidney, A. Sette, 2019, Nature Communications.

Characterizing monkeypox virus specific CD8+ T cell epitopes in rhesus macaques

J. Sidney, A. Sette, P. Jahrling, 2013, Virology.

A computational pipeline to generate MHC binding motifs

Bjoern Peters, J. Sidney, A. Sette, 2011, Immunome research.

Urinary Peptides As a Novel Source of T Cell Allergen Epitopes

S. Mallal, Bjoern Peters, J. Sidney, 2018, Front. Immunol..

Apoptotic Epitope-Specific CD8+ T Cells and Interferon Signaling Intersect in Chronic Hepatitis C Virus Infection.

E. Coccia, J. Sidney, A. Sette, 2016, The Journal of infectious diseases.

Class I MHC-peptide interactions: structural requirements and functional implications.

A. Vitiello, J. Sidney, H. Grey, 1995, Cancer surveys.

Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 496 adults from San Diego, California, USA.

S. Mallal, J. Sidney, A. Sette, 2018, Human Immunology.

Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 714 adults from Colombo, Sri Lanka.

S. Mallal, J. Sidney, A. Sette, 2017, Human Immunology.

T Cells + CD8 Specific - Antiviral Responses of Zika Virus Reveals Multifunctional and Cytotoxic Cutting Edge: Transcriptional Profiling

P. J. Norris, Aravinda, Bjoern Peters, 2018 .

Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 339 adults from Managua, Nicaragua.

S. Mallal, J. Sidney, A. Sette, 2018, Human Immunology.

Immunodominant Dengue Virus-Specific CD8+ T Cell Responses Are Associated with a Memory PD-1+ Phenotype

Bjoern Peters, J. Sidney, A. Sette, 2016, Journal of Virology.

Virus Serotype and Primary versus Secondary Infection

Bjoern Peters, J. Sidney, A. Sette, 2014 .

ProductionSpecificity and Relationship to IgE Allergens from German Cockroach: Epitope Analysis of T Cell Responses to the Major

Ravi V. Kolla, J. Greenbaum, Bjoern Peters, 2012 .

Contact Residues Protooncogene by Alterations of MHC Immunodominant Epitope of the Her-2/neu Improved Immunogenicity of an

J. Sidney, A. Sette, R. Kiessling, 2004 .

Lymphocyte Epitopes Immunogens Based on Multiple Th A Rational Strategy to Design Multiepitope

J. Sidney, A. Sette, E. Appella, 2002 .

Association Between Specific Timothy Grass Antigens and Changes in Thelper 1 and 2 Cell Responses Following Specific Immunotherapy

J. Greenbaum, Bjoern Peters, J. Sidney, 2014 .

Erratum: RSV-specific airway resident memory CD8+ T cells and differential disease severity after experimental human infection

S. Johnston, Bjoern Peters, J. Sidney, 2016, Nature Communications.

Effect of Rheumatoid Arthritis (RA) Susceptibility Genes on the Immune Response to Viral Citrullinated Peptides in RA

J. Sidney, A. Sette, P. Migliorini, 2012, The Journal of Rheumatology.

Identification of CD4+ T Cell Epitopes in C. burnetii Antigens Targeted by Antibody Responses

Bjoern Peters, J. Sidney, Peng Wang, 2011, PloS one.

pathogenic arenaviruses provide broad population coverage

Bjoern Peters, J. Sidney, H. Bui, 2010 .

ResearchPolyfunctional CD 4 + T cell responses to a set of pathogenic arenaviruses provide broad population coverage

Bjoern Peters, J. Sidney, H. Bui, 2010 .

Immunodominant Epitopes in Herpes Simplex Virus Type 2 Glycoprotein D Are Recognized by CD4 Lymphocytes from Both HSV-1 and HSV-2 Seropositive Subjects1

J. Sidney, A. Sette, R. Khanna, 2008, The Journal of Immunology.

HSV-1 and HSV-2 Seropositive Subjects Recognized by CD4 Lymphocytes from Both Simplex Virus Type 2 Glycoprotein D Are Immunodominant Epitopes in Herpes

Rajiv, J. Sidney, A. Sette, 2008 .

Identification of paramyosin T cell epitopes associated with human resistance to Schistosoma mansoni reinfection

J. Sidney, A. Sette, R. Corrêa-Oliveira, 2005, Clinical and experimental immunology.

Identification of novel epitopes from Mycobacterium tuberculosis

J. Greenbaum, Bjoern Peters, J. Sidney, 2012 .

High affinity for class II molecules as a necessary but not sufficient characteristic of encephalitogenic determinants.

J. Sidney, A. Sette, S. Colon, 1992, International immunology.

SARS-CoV-2 vaccination induces immunological memory able to cross-recognize variants from Alpha to Omicron

S. Mallal, J. Sidney, A. Sette, 2021 .

Chronic Ethanol Ingestion in Rats Decreases Granulocyte-Macrophage Colony-Stimulating Factor Receptor Expression and Downstream Signaling in the Alveolar Macrophage

Bjoern Peters, J. Sidney, A. Sette, 2005 .

An Insertion Mutant in DQA1*0501 Restores Susceptibility to HLA-DM: Implications for Disease Associations

J. Sidney, Zhenjun Chen, E. Mellins, 2011, The Journal of Immunology.

Susceptibility to HLA-DM: Implications for An Insertion Mutant in DQA1*0501 Restores

J. Sidney, E. Mellins, M. Strohman, 2022 .

Protein nanovaccine confers robust immunity against Toxoplasma

J. Sidney, A. Sette, K. El Bissati, 2017, npj Vaccines.

T cell receptor antagonism mediated by interaction between T cell receptor junctional residues and peptide antigen analogues.

J. Sidney, A. Sette, J. Krieger, 1993, Journal of immunology.

Immunodominant Tuberculosis CD8 Antigens Preferentially Restricted by HLA-B

Matthew S. Cook, J. Sidney, A. Sette, 2007, PLoS pathogens.

SARS-CoV-2-specific T cell responses and immune regulation in infected pregnant women Journal of Reproductive Immunology

J. Sidney, A. Grifoni, A. Franco, 2021 .

AIDS virus–specific CD8+ T lymphocytes against an immunodominant cryptic epitope select for viral escape

A. Hughes, J. Sidney, A. Sette, 2007, The Journal of experimental medicine.

AIDS virus–specific CD8+ T lymphocytes against an immunodominant cryptic epitope select for viral escape

A. Hughes, J. Sidney, A. Sette, 2007, The Journal of experimental medicine.

Apoptotic Epitope – Speci fi c CD 8 + T Cells and Interferon Signaling Intersect in Chronic Hepatitis C Virus Infection

E. Coccia, J. Sidney, A. Sette, 2016 .

Cdc2/Cyclin B1 Interacts with and Modulates Inositol 1,4,5-Trisphosphate Receptor (Type 1) Functions

Bjoern Peters, D. Tscharke, J. Sidney, 2005 .

HLA-B*27 subtype specificity determines targeting and viral evolution of a hepatitis C virus-specific CD8+ T cell epitope.

Todd M. Allen, J. Sidney, A. Sette, 2014, Journal of hepatology.

Peptides and Definition of Their Peptide Molecules That Bind HLA Supertype Identification of Five Different Patr Class I

J. Sidney, A. Sette, F. Chisari, 2000 .

Identification of the peptide-binding motif recognized by the pigtail macaque class I MHC molecule Mane-A1*082:01 (Mane A*0301)

J. Sidney, A. Sette, B. Mothé, 2012, Immunogenetics.

Immunogenic peptides can be detected in whole gluten by transamidating highly susceptible glutamine residues: implication in the search for gluten-free cereals.

J. Sidney, A. Sette, A. Camarca, 2013, Journal of agricultural and food chemistry.

Defining antigen targets to dissect vaccinia virus and monkeypox virus-specific T cell responses in humans

R. Scheuermann, J. Sidney, A. Sette, 2022, Cell host & microbe.

Evaluating the Immunogenicity of Protein Drugs by Applying In Vitro MHC Binding Data and the Immune Epitope Database and Analysis Resource

Bjoern Peters, John Sidney, Ward Fleri, 2013, Clinical & developmental immunology.

Rationally Engineered Therapeutic Proteins with Reduced Immunogenicity

John Sidney, Alessandro Sette, Scott Southwood, 2005, The Journal of Immunology.

Broad Repertoire of the CD4+ Th Cell Response in Spontaneously Controlled Hepatitis C Virus Infection Includes Dominant and Highly Promiscuous Epitopes1

Todd M. Allen, B. Walker, J. Sidney, 2005, The Journal of Immunology.

Presence of effector CD8+ T cells in hepatitis C virus-exposed healthy seronegative donors.

A Sette, J Sidney, J. Sidney, 1999, Journal of immunology.

Memory T Cells in Latent Mycobacterium tuberculosis Infection Are Directed against Three Antigenic Islands and Largely Contained in a CXCR3+CCR6+ Th1 Subset

Bjoern Peters, John Sidney, Alessandro Sette, 2013, PLoS pathogens.

In Silico Prediction of Peptides Binding to Multiple HLA-DR Molecules Accurately Identifies Immunodominant Epitopes from gp43 of Paracoccidioides brasiliensis Frequently Recognized in Primary Peripheral Blood Mononuclear Cell Responses from Sensitized Individuals

J. Sidney, A. Sette, L. Juliano, 2003, Molecular medicine.

Development of high potency universal DR-restricted helper epitopes by modification of high affinity DR-blocking peptides.

C Oseroff, J Alexander, A Sette, 1994, Immunity.

Impact of Distinct Poxvirus Infections on the Specificities and Functionalities of CD4+ T Cell Responses

J. Sidney, A. Sette, Nicholas A. Siciliano, 2014, Journal of Virology.

Broad and Cross-Clade CD4+ T-Cell Responses Elicited by a DNA Vaccine Encoding Highly Conserved and Promiscuous HIV-1 M-Group Consensus Peptides

J. Sidney, A. Sette, J. Kalil, 2012, PloS one.

Defining the Herpes Simplex Virus-Specific CD8+ T Cell Repertoire in C57BL/6 Mice

Bjoern Peters, J. Sidney, A. Sette, 2011, The Journal of Immunology.

The CD8+ T-Cell Response to Lymphocytic Choriomeningitis Virus Involves the L Antigen: Uncovering New Tricks for an Old Virus

Bjoern Peters, John Sidney, Alessandro Sette, 2007, Journal of Virology.

Bolstering the Number and Function of HSV-1–Specific CD8+ Effector Memory T Cells and Tissue-Resident Memory T Cells in Latently Infected Trigeminal Ganglia Reduces Recurrent Ocular Herpes Infection and Disease

J. Sidney, A. Sette, Ruchi Srivastava, 2017, The Journal of Immunology.

A Rational Strategy to Design Multiepitope Immunogens Based on Multiple Th Lymphocyte Epitopes1

John Sidney, Alessandro Sette, Brian Livingston, 2002, The Journal of Immunology.

The development of multi-epitope vaccines: epitope identification, vaccine design and clinical evaluation.

A Sette, J Sidney, J. Sidney, 2001, Biologicals : journal of the International Association of Biological Standardization.

Development of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines

Wei Li, John Sidney, Huynh-Hoa Bui, 2007, BMC Bioinformatics.

Tumor‐associated carbohydrate antigens: A possible avenue for cancer prevention

John Sidney, Alessandro Sette, J. Sidney, 2005, Immunology and cell biology.

Immunization with the HBV core 18-27 epitope elicits CTL responses in humans expressing different HLA-A2 supertype molecules.

J. Sidney, A. Sette, R. Chesnut, 1999, Human immunology.

Identification of A2-restricted hepatitis C virus-specific cytotoxic T lymphocyte epitopes from conserved regions of the viral genome.

C Crimi, R W Chesnut, A Sette, 1996, International immunology.

Identification of multiple HLA-A*0201-restricted cruzipain and FL-160 CD8+ epitopes recognized by T cells from chronically Trypanosoma cruzi-infected patients.

J. Sidney, A. Sette, A. Toubert, 2005, Microbes and infection.

Mycobacterial ESAT-6 and katG are Recognized by Sarcoidosis CD4+ T Cells When Presented by the American Sarcoidosis Susceptibility Allele, DRB1*1101

J. Sidney, A. Sette, W. Drake, 2009, Journal of Clinical Immunology.

The common equine class I molecule Eqca-1*00101 (ELA-A3.1) is characterized by narrow peptide binding and T cell epitope repertoires

Bjoern Peters, J. Sidney, A. Sette, 2015, Immunogenetics.

Novel and shared neoantigen derived from histone 3 variant H3.3K27M mutation for glioma T cell therapy

M. Mann, K. Garcia, J. Sidney, 2018, The Journal of experimental medicine.

Functional HPV-specific PD-1+ stem-like CD8 T cells in head and neck cancer

Christopher C. Griffith, J. Sidney, A. Sette, 2021, Nature.

Profiling SARS-CoV-2 HLA-I peptidome reveals T cell epitopes from out-of-frame ORFs

Jennifer G. Abelin, N. Hacohen, D. Keskin, 2021, Cell.

The HLA Molecules DQA1*0501/B1*0201 and DQA1*0301/B1*0302 Share an Extensive Overlap in Peptide Binding Specificity1

John Sidney, Alessandro Sette, Scott Southwood, 2002, The Journal of Immunology.

Cutting Edge: Prolonged Exposure to HIV Reinforces a Poised Epigenetic Program for PD-1 Expression in Virus-Specific CD8 T Cells

Todd M. Allen, T. Miura, B. Walker, 2013, The Journal of Immunology.

Prolonged Exposure to HIV Reinforces a Poised Epigenetic Program for PD-1 Expression in Virus-Specific CD8 T Cells

Rafi, Todd M. Allen, B. Walker, 2022 .

T cells of Parkinson’s disease patients recognize α–synuclein peptides

S. Mallal, L. Cote, Bjoern Peters, 2017, Nature.

Relapse or eradication of cancer is predicted by peptide-major histocompatibility complex affinity.

John Sidney, Alessandro Sette, David M Kranz, 2013, Cancer cell.

Automatic Generation of Validated Specific Epitope Sets

Bjoern Peters, J. Sidney, A. Sette, 2015, Journal of immunology research.

Human CD8+ and CD4+ T Cell Memory to Lymphocytic Choriomeningitis Virus Infection

Ravi V. Kolla, Bjoern Peters, J. Sidney, 2011, Journal of Virology.

Characterization of the specificity of peptide binding to four DR haplotypes.

R W Chesnut, A Sette, J Sidney, 1990, Journal of immunology.

Microbiota epitope similarity either dampens or enhances the immunogenicity of disease-associated antigenic epitopes

Ali A. Faruqi, Sandeep Kumar Dhanda, Bjoern Peters, 2018, PloS one.

The effect of acylation with fatty acids and other modifications on HLA class II:peptide binding and T cell stimulation for three model peptides

J. Sidney, A. Sette, K. Lamberth, 2018, PloS one.

Structural basis for the presentation of tumor-associated MHC class II-restricted phosphopeptides to CD4+ T cells.

J. Sidney, A. Sette, D. Hunt, 2010, Journal of molecular biology.

Supertypic Binding Specificity Population Share a Common HLA Expressed in the Worldwide Human Five HLA-DP Molecules Frequently

Bjoern Peters, J. Sidney, A. Sette, 2010 .

A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach

John Sidney, Alessandro Sette, Peng Wang, 2008, PLoS Comput. Biol..

On the interaction of promiscuous antigenic peptides with different DR alleles. Identification of common structural motifs.

C Oseroff, J Sidney, J. Sidney, 1991, Journal of immunology.

Truncation analysis of several DR binding epitopes.

A Sette, J Sidney, J. Sidney, 1991, Journal of immunology.

Mapping the MHC Class I–Spliced Immunopeptidome of Cancer Cells

J. Sidney, A. Sette, Juliane Liepe, 2018, Cancer Immunology Research.

Detection of an autoreactive T-cell population within the polyclonal repertoire that undergoes distinct autoimmune regulator (Aire)-mediated selection

Mark S. Anderson, J. Sidney, A. Sette, 2012, Proceedings of the National Academy of Sciences.

Structural snapshot of aberrant antigen presentation linked to autoimmunity: the immunodominant epitope of MBP complexed with I-Au.

John Sidney, Alessandro Sette, Caius Radu, 2002, Immunity.

Binding of myelin basic protein peptides to human histocompatibility leukocyte antigen class II molecules and their recognition by T cells from multiple sclerosis patients.

L. Kappos, J. Sidney, A. Sette, 1993, The Journal of clinical investigation.

Lack of allergy to timothy grass pollen is not a passive phenomenon but associated with the allergen‐specific modulation of immune reactivity

J. Greenbaum, Bjoern Peters, J. Sidney, 2016, Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology.

Analysis of epitope information related to Bacillus anthracis and Clostridium botulinum

Bjoern Peters, John Sidney, Alessandro Sette, 2008, Expert review of vaccines.

Novel Plasmodium antigens identified via genome-based antibody screen induce protection associated with polyfunctional T cell responses

Angela Trieu, J. Sidney, A. Sette, 2017, Scientific Reports.

Immunization with Apical Membrane Antigen 1 Confers Sterile Infection-Blocking Immunity against Plasmodium Sporozoite Challenge in a Rodent Model

Angela Trieu, J. Sidney, A. Sette, 2013, Infection and Immunity.

Vaccinia Virus-Specific CD4+ T Cell Responses Target a Set of Antigens Largely Distinct from Those Targeted by CD8+ T Cell Responses1

Magdalini Moutaftsi, Bjoern Peters, V. Pasquetto, 2007, The Journal of Immunology.

Antigen-specific induction of CD4+CD8αα+ intraepithelial T lymphocytes by Bacteroidetes species

T. Lu, J. Sidney, A. Sette, 2020, bioRxiv.

Derivation of an amino acid similarity matrix for peptide:MHC binding and its application as a Bayesian prior

Clemencia Pinilla, John Sidney, Alessandro Sette, 2009, BMC Bioinformatics.

SARS-CoV-2 human T cell epitopes: Adaptive immune response against COVID-19

Bjoern Peters, J. Sidney, A. Sette, 2021, Cell Host & Microbe.

Definition of the Mamu A*01 Peptide Binding Specificity: Application to the Identification of Wild-Type and Optimized Ligands from Simian Immunodeficiency Virus Regulatory Proteins1

John Sidney, Alessandro Sette, Mark J. Newman, 2000, The Journal of Immunology.

Identification of Plasmodium falciparum antigens by antigenic analysis of genomic and proteomic data

John Sidney, Alessandro Sette, Scott Southwood, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Consequences of Periodic α-to-β3 Residue Replacement for Immunological Recognition of Peptide Epitopes

J. Sidney, A. Sette, S. Gellman, 2015, ACS chemical biology.

Identification of T. gondii epitopes, adjuvants, and host genetic factors that influence protection of mice and humans.

A. Montpetit, J. Sidney, A. Sette, 2010, Vaccine.

Development of a novel clustering tool for linear peptide sequences

Bjoern Peters, John Sidney, Alessandro Sette, 2018, Immunology.

An ontology for major histocompatibility restriction

James A. Overton, Bjoern Peters, J. Sidney, 2016, J. Biomed. Semant..

Automated benchmarking of peptide-MHC class I binding predictions

Morten Nielsen, John Sidney, Ole Lund, 2015, Bioinform..

Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions

Morten Nielsen, John Sidney, Alessandro Sette, 2014, BMC Bioinformatics.

Curation of complex, context-dependent immunological data

Philip E. Bourne, John Sidney, Huynh-Hoa Bui, 2006, BMC Bioinformatics.

A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules

Morten Nielsen, John Sidney, Huynh-Hoa Bui, 2006, PLoS Comput. Biol..

Predicting population coverage of T-cell epitope-based diagnostics and vaccines

John Sidney, Huynh-Hoa Bui, Alessandro Sette, 2006, BMC Bioinformatics.

The Immune Epitope Database and Analysis Resource: From Vision to Blueprint

Steve Wilson, Bjoern Peters, John Sidney, 2005, PLoS biology.

CD8+ T Cells from SIV Elite Controller Macaques Recognize Mamu-B*08-Bound Epitopes and Select for Widespread Viral Variation

A. Hughes, J. Sidney, A. Sette, 2007, PloS one.

Association of HLA-DRB1-restricted CD4+ T cell responses with HIV immune control

M. Carrington, B. Walker, Y. Qi, 2013, Nature Medicine.

Adjuvanted multi-epitope vaccines protect HLA-A*11:01 transgenic mice against Toxoplasma gondii.

J. Sidney, A. Sette, K. El Bissati, 2016, JCI insight.

Impact of SARS-CoV-2 variants on the total CD4+ and CD8+ T cell reactivity in infected or vaccinated individuals

R. Scheuermann, Bjoern Peters, J. Sidney, 2021, Cell Reports Medicine.

Generation of a Novel SARS-CoV-2 Sub-genomic RNA Due to the R203K/G204R Variant in Nucleocapsid: Homologous Recombination has Potential to Change SARS-CoV-2 at Both Protein and RNA Level

M. John, I. James, S. Mallal, 2021, Pathogens & immunity.

Generation of a novel SARS-CoV-2 sub-genomic RNA due to the R203K/G204R variant in nucleocapsid: homologous recombination has potential to change SARS-CoV-2 at both protein and RNA level

M. John, I. James, S. Mallal, 2020, bioRxiv.

Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules

John Sidney, Kiyoko F. Aoki-Kinoshita, Hiroshi Mamitsuka, 2006, Bioinform..

Degenerate cytotoxic T cell epitopes from P. falciparum restricted by multiple HLA-A and HLA-B supertype alleles.

R W Chesnut, A Sette, J Sidney, 1997, Immunity.

Widespread Tau-Specific CD4 T Cell Reactivity in the General Population

S. Mallal, Bjoern Peters, J. Sidney, 2019, The Journal of Immunology.

Two MHC Class I Molecules Associated with Elite Control of Immunodeficiency Virus Replication, Mamu-B*08 and HLA-B*2705, Bind Peptides with Sequence Similarity12

John Sidney, Alessandro Sette, Nancy A. Wilson, 2009, The Journal of Immunology.

Selective and cross-reactive SARS-CoV-2 T cell epitopes in unexposed humans

S. Mallal, J. Greenbaum, Bjoern Peters, 2020, Science.

Kinetic analysis of a complete poxvirus transcriptome reveals an immediate-early class of genes

J. Greenbaum, Bjoern Peters, V. Pasquetto, 2008, Proceedings of the National Academy of Sciences.

Differential Recognition of Mycobacterium tuberculosis‐Specific Epitopes as a Function of Tuberculosis Disease History

Bjoern Peters, J. Sidney, A. Sette, 2017, American journal of respiratory and critical care medicine.

Human Ebola virus infection results in substantial immune activation

Jay B. Varkey, J. Sidney, A. Sette, 2015, Proceedings of the National Academy of Sciences.

Identification of Protective Lassa Virus Epitopes That Are Restricted by HLA-A2

Barbara S. Stewart, Bjoern Peters, V. Pasquetto, 2006, Journal of Virology.

Analysis of cytotoxic T cell responses to dominant and subdominant epitopes during acute and chronic lymphocytic choriomeningitis virus infection.

J. Sidney, A. Sette, R. Ahmed, 1996, Journal of immunology.

Comprehensive Immunological Evaluation Reveals Surprisingly Few Differences between Elite Controller and Progressor Mamu-B*17-Positive Simian Immunodeficiency Virus-Infected Rhesus Macaques

A. Hughes, J. Sidney, A. Sette, 2008, Journal of Virology.

Reversion of CTL escape–variant immunodeficiency viruses in vivo

John Sidney, Alessandro Sette, Lara Vojnov, 2004, Nature Medicine.

Virus-specific cytotoxic T-lymphocyte responses select for amino-acid variation in simian immunodeficiency virus Env and Nef

Todd M. Allen, A. Hughes, J. Sidney, 1999, Nature Medicine.

Quantification of epitope abundance reveals the effect of direct and cross-presentation on influenza CTL responses

D. Tscharke, J. Sidney, A. Sette, 2019, Nature Communications.

Identification of broad binding class I HLA supertype epitopes to provide universal coverage of influenza A virus.

J. Sidney, A. Sette, M. Kotturi, 2010, Human immunology.

Immunomic Analysis of the Repertoire of T-Cell Specificities for Influenza A Virus in Humans

John Sidney, Huynh-Hoa Bui, Alessandro Sette, 2008, Journal of Virology.

Comprehensive analysis of T cell epitope discovery strategies using 17DD yellow fever virus structural proteins and BALB/c (H2d) mice model

J. Sidney, A. Sette, Srinivasan N. Kellathur, 2008, Virology.

Cellular immune selection with hepatitis C virus persistence in humans

J. Sidney, A. Sette, S. Ray, 2005, The Journal of experimental medicine.

Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases

S. Mallal, J. Greenbaum, Bjoern Peters, 2020, bioRxiv.

Negligible impact of SARS-CoV-2 variants on CD4+ and CD8+ T cell reactivity in COVID-19 exposed donors and vaccinees.

R. Scheuermann, Bjoern Peters, J. Sidney, 2021, bioRxiv.

Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases

S. Mallal, J. Greenbaum, Bjoern Peters, 2021, Cell Reports Medicine.

Comprehensive analysis of Tcell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases

S. Mallal, J. Greenbaum, J. Sidney, 2021 .

Immunogenicity and Cross-Reactivity of a Representative Ancestral Sequence in Hepatitis C Virus Infection

J. Sidney, A. Sette, S. Ray, 2012, The Journal of Immunology.

High-Programmed Death-1 Levels on Hepatitis C Virus-Specific T Cells during Acute Infection Are Associated with Viral Persistence and Require Preservation of Cognate Antigen during Chronic Infection1

J. Sidney, A. Sette, S. Ray, 2008, The Journal of Immunology.

Cognate Antigen during Chronic Infection Persistence and Require Preservation of Acute Infection Are Associated with Viral Hepatitis C Virus-Specific T Cells during High-Programmed Death-1 Levels on Sette

J. Sidney, A. Sette, S. Ray, 2008 .

The Majority of Currently Circulating Human Immunodeficiency Virus Type 1 Clade B Viruses Fail To Prime Cytotoxic T-Lymphocyte Responses against an Otherwise Immunodominant HLA-A2-Restricted Epitope: Implications for Vaccine Design

Todd M. Allen, E. Rosenberg, M. Altfeld, 2005, Journal of Virology.

Characterization of the peptide binding motif of a rhesus MHC class I molecule (Mamu-A*01) that binds an immunodominant CTL epitope from simian immunodeficiency virus.

Todd M. Allen, J. Sidney, A. Sette, 1998, Journal of immunology.

Lymphocyte Responses to SIV T + Not Appear to Be Involved in CD8 MHC Class I Molecule, Mamu-B*01, Does The High Frequency Indian Rhesus Macaque

J. Sidney, D. O’Connor, Wilfried Bardet, 2017 .

The role of MHC class I allele Mamu-A*07 during SIVmac239 infection

J. Sidney, A. Sette, D. Watkins, 2011, Immunogenetics.

The most common Chinese rhesus macaque MHC class I molecule shares peptide binding repertoire with the HLA-B7 supertype

Bjoern Peters, J. Sidney, A. Sette, 2010, Immunogenetics.

The High Frequency Indian Rhesus Macaque MHC Class I Molecule, Mamu-B*01, Does Not Appear to Be Involved in CD8+ T Lymphocyte Responses to SIVmac2391

Bjoern Peters, J. Sidney, A. Sette, 2005, The Journal of Immunology.

A computational resource for the prediction of peptide binding to Indian rhesus macaque MHC class I molecules.

A Sette, J Sidney, Bjoern Peters, 2005, Vaccine.

SIV T + Not Appear to Be Involved in CD 8 MHC Class I Molecule , Mamu-B * 01 , Does The High Frequency Indian Rhesus Macaque

Bjoern Peters, J. Sidney, A. Sette, 2005 .

Identification of Seventeen New Simian Immunodeficiency Virus-Derived CD8+ T Cell Epitopes Restricted by the High Frequency Molecule, Mamu-A*02, and Potential Escape from CTL Recognition1

J. Sidney, A. Sette, B. Mothé, 2004, The Journal of Immunology.

Potential Escape from CTL Recognition Frequency Molecule , Mamu-A * 02 , and Cell Epitopes Restricted by the High T + Immunodeficiency Virus-Derived CD 8 Identification of Seventeen New Simian

J. Sidney, A. Sette, B. Mothé, 2004 .

Escape in One of Two Cytotoxic T-Lymphocyte Epitopes Bound by a High-Frequency Major Histocompatibility Complex Class I Molecule, Mamu-A*02: a Paradigm for Virus Evolution and Persistence?

Todd M. Allen, A. Hughes, J. Sidney, 2002, Journal of Virology.

Molecular Determinants of Peptide Binding to Two Common Rhesus Macaque Major Histocompatibility Complex Class II Molecules

J. Sidney, A. Sette, D. Watkins, 2001, Journal of Virology.

Identification of Novel HLA-A2-Restricted Human Immunodeficiency Virus Type 1-Specific Cytotoxic T-Lymphocyte Epitopes Predicted by the HLA-A2 Supertype Peptide-Binding Motif

John Sidney, Alessandro Sette, Brian Livingston, 2001, Journal of Virology.

Cellular immune response to cryptic epitopes during therapeutic gene transfer

J. Sidney, A. Sette, R. Tisch, 2009, Proceedings of the National Academy of Sciences.

Immunology in the Clinic Review Series; focus on host responses: T cell responses to herpes simplex viruses

J. Sidney, A. Sette, D. Koelle, 2012, Clinical and experimental immunology.

Naive Precursor Frequencies and MHC Binding Rather Than the Degree of Epitope Diversity Shape CD8+ T Cell Immunodominance1

Bjoern Peters, John Sidney, Alessandro Sette, 2008, The Journal of Immunology.

Two complementary methods for predicting peptides binding major histocompatibility complex molecules.

A Sette, C DeLisi, K Gulukota, 1997, Journal of molecular biology.

Immunodominance analysis of CTL responses to influenza PR8 virus reveals two new dominant and subdominant Kb-restricted epitopes.

A. Vitiello, M. Jackson, P. A. Peterson, 1996, Journal of immunology.

Virus-Specific CTL Responses Coinfection on the Immunodominance of Affinity , Functional Avidity , and Viral Impact of HLA-B Alleles , Epitope Binding Korber

D. Heckerman, B. Walker, B. Korber, 2006 .

High-Functional-Avidity Cytotoxic T Lymphocyte Responses to HLA-B-Restricted Gag-Derived Epitopes Associated with Relative HIV Control

F. Pereyra, B. Walker, J. Sidney, 2011, Journal of Virology.

Uncovering subdominant cytotoxic T-lymphocyte responses in lymphocytic choriomeningitis virus-infected BALB/c mice

J. Sidney, A. Sette, R. Ahmed, 1997, Journal of virology.

HLA-A2-Restricted Protection against Lethal Lymphocytic Choriomeningitis

J. Sidney, H. Bui, A. Sette, 2006, Journal of Virology.

HLA Class-II Associated HIV Polymorphisms Predict Escape from CD4+ T Cell Responses

J. Sidney, J. Carlson, P. Goepfert, 2015, PLoS pathogens.

HLA Class-II Associated HIV Polymorphisms Predict Escape from CD 4 + T Cell Responses

J. Sidney, J. Carlson, P. Goepfert, 2015 .

Discovery and characterization of highly immunogenic and broadly recognized mimics of the HIV‐1 CTL epitope Gag77–85

J. Sidney, A. Sette, C. Brander, 2005, European journal of immunology.

Discovery and characterization of highly immunogenic and broadly recognized mimics of the HIV-1 CTL epitope Gag 77 – 85 C

J. Sidney, A. Sette, C. Brander, 2005 .

Simultaneous Prediction of Binding Capacity for Multiple Molecules of the HLA B44 Supertype 1

John Sidney, Alessandro Sette, Scott Southwood, 2003, The Journal of Immunology.

Identification and Antigenicity of Broadly Cross-Reactive and Conserved Human Immunodeficiency Virus Type 1-Derived Helper T-Lymphocyte Epitopes

John Sidney, Alessandro Sette, Scott Southwood, 2001, Journal of Virology.

CD8+ Lymphocytes from Simian Immunodeficiency Virus-Infected Rhesus Macaques Recognize 14 Different Epitopes Bound by the Major Histocompatibility Complex Class I Molecule Mamu-A*01: Implications for Vaccine Design and Testing

Todd M. Allen, J. Sidney, A. Sette, 2001, Journal of Virology.

Testing Implications for Vaccine Design and Complex Class I Molecule Mamu-A * 01 : Bound by the Major Histocompatibility Macaques Recognize 14 Different Epitopes Immunodeficiency Virus-Infected Rhesus Lymphocytes from Simian + CD 8

Todd M. Allen, J. Sidney, B. Mothé, 2000 .

Identification of HLA-A3 and -B7-restricted CTL response to hepatitis C virus in patients with acute and chronic hepatitis C.

A Sette, J Sidney, J. Sidney, 1999, Journal of immunology.

Simian Immunodeficiency Virus That Binds an Immunodominant CTL Epitope a Rhesus MHC Class I Molecule ( Mamu-A * 01 ) Characterization of the Peptide Binding Motif of

Todd M. Allen, J. Sidney, A. Sette, 1998 .

Patients with Acute and Chronic Hepatitis C CTL Response to Hepatitis C Virus in Identification of HLA-A 3 and-B 7-Restricted

J. Sidney, F. Chisari, Kyong‐Mi Chang, 1998 .

An effective CTL peptide vaccine for Ebola Zaire Based on Survivors’ CD8+ targeting of a particular nucleocapsid protein epitope with potential implications for COVID-19 vaccine design

J Sidney, J. Sidney, A. Sette, 2020, bioRxiv.

The HLA-A0207 Peptide Binding Repertoire is Limited to a Subset of the A0201 Repertoire

J. Sidney, A. Sette, E. Appella, 1997 .

Specificity and degeneracy in peptide binding to HLA-B7-like class I molecules.

M F del Guercio, R W Chesnut, A Sette, 1996, Journal of immunology.

Definition of an HLA-A3-like supermotif demonstrates the overlapping peptide-binding repertoires of common HLA molecules.

M F del Guercio, R W Chesnut, A Sette, 1996, Human immunology.

Binding of a peptide antigen to multiple HLA alleles allows definition of an A2-like supertype.

G Hermanson, M F del Guercio, A Sette, 1995, Journal of immunology.

HLA-DR-Promiscuous T Cell Epitopes from Plasmodium falciparum Pre-Erythrocytic-Stage Antigens Restricted by Multiple HLA Class II Alleles1 2

John Sidney, Alessandro Sette, Scott Southwood, 2000, The Journal of Immunology.

Multiple HLA Class II Alleles Pre-Erythrocytic-Stage Antigens Restricted falciparum Plasmodium HLA-DR-Promiscuous T Cell Epitopes from and Alessandro

S. Hoffman, J. Sidney, E. Appella, 2000 .

Human leukocyte antigen B27 selects for rare escape mutations that significantly impair hepatitis C virus replication and require compensatory mutations

Todd M. Allen, J. Sidney, A. Sette, 2011, Hepatology.

The outcome of hepatitis C virus infection is predicted by escape mutations in epitopes targeted by cytotoxic T lymphocytes.

A. Hughes, J. Sidney, A. Sette, 2001, Immunity.

Implications for Vaccine Design Virus Infection Point toward New Dengue Responses in a Novel Mouse Model of Insights into HLA-Restricted T Cell

Kolla, J. Greenbaum, Bjoern Peters, 2011 .

Analysis of HLA A*02 Association with Vaccine Efficacy in the RV144 HIV-1 Vaccine Trial

Raphael Gottardo, Tomer Hertz, John Sidney, 2014, Journal of Virology.

The Nucleocapsid Protein of Rift Valley Fever Virus Is a Potent Human CD8+ T Cell Antigen and Elicits Memory Responses

J. Sidney, A. Sette, A. Sewell, 2013, PloS one.

Lymphocytic Choriomeningitis Virus Infection Yields Overlapping CD4+ and CD8+ T-Cell Responses

Bjoern Peters, J. Sidney, A. Sette, 2008, Journal of Virology.

Definition of a pool of epitopes that recapitulates the T cell reactivity against major house dust mite allergens

Bjoern Peters, J. Sidney, A. Sette, 2015, Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology.

Cutting Edge: Murine Cytomegalovirus Induces a Polyfunctional CD4 T Cell Response1

Bjoern Peters, J. Sidney, A. Sette, 2008, The Journal of Immunology.

A survey of known immune epitopes in the enteroviruses strains associated with acute flaccid myelitis.

R. Scheuermann, Bjoern Peters, J. Sidney, 2019, Human immunology.

A Protective Role for Dengue Virus-Specific CD8+ T Cells 1

Bjoern Peters, J. Sidney, A. Sette, 2009, The Journal of Immunology.

Immunogenic HLA-B7-restricted peptides of hTRT.

J. Sidney, A. Sette, F. Lemonnier, 2006, International immunology.

Characterization of the peptide binding specificity of the HLA class I alleles B*38:01 and B*39:06

John Sidney, Alessandro Sette, Carrie Moore, 2016, Immunogenetics.

Intestinal T Cell Responses to Gluten Peptides Are Largely Heterogeneous: Implications for a Peptide-Based Therapy in Celiac Disease1

J. Sidney, A. Sette, S. Costantini, 2009, The Journal of Immunology.

Definition of a DQ3.1-specific binding motif.

M F del Guercio, C Oseroff, A Sette, 1994, Journal of immunology.

Epitope-specific immunotherapy targeting CD4-positive T cells in coeliac disease: two randomised, double-blind, placebo-controlled phase 1 studies.

R. Xavier, J. Sidney, A. Sette, 2017, The lancet. Gastroenterology & hepatology.

HLA shared epitope and ACPA: just a marker or an active player?

J. Sidney, A. Sette, P. Migliorini, 2013, Autoimmunity reviews.

Celiac Disease Implications for a Peptide-Based Therapy in Peptides Are Largely Heterogeneous : Intestinal T Cell Responses to Gluten

J. Sidney, A. Sette, S. Costantini, 2009 .

Examining the independent binding assumption for binding of peptide epitopes to MHC-I molecules

John Sidney, Alessandro Sette, Zhiping Weng, 2003, Bioinform..

Vaccine-Induced HIV-Specific CD8+ T Cells Utilize Preferential HLA Alleles and Target-Specific Regions of HIV-1

J. Sidney, M. McElrath, Yunda Huang, 2011, Journal of acquired immune deficiency syndromes.

Comprehensive Analysis of Human Immunodeficiency Virus Type 1-Specific CD4 Responses Reveals Marked Immunodominance of gag and nef and the Presence of Broadly Recognized Peptides

E. Rosenberg, M. Altfeld, B. Walker, 2004, Journal of Virology.

Erratum: T cells from patients with Parkinson’s disease recognize α-synuclein peptides

S. Mallal, L. Cote, Bjoern Peters, 2017, Nature.

T cells of Parkinson’s disease patients recognize α–synuclein peptides

S. Mallal, L. Cote, Bjoern Peters, 2017, Nature.

Immunological Interaction of HLA-DPB1 and Proteinase 3 in ANCA Vasculitis is Associated with Clinical Disease Activity

S. Mallal, Bjoern Peters, J. Sidney, 2022, Journal of the American Society of Nephrology : JASN.

Generation of robust CD8+ T‐cell responses against subdominant epitopes in conserved regions of HIV‐1 by repertoire mining with mimotopes

F. Marincola, J. Sidney, A. Sette, 2010, European journal of immunology.

Quantitating T Cell Cross-Reactivity for Unrelated Peptide Antigens1

Bjoern Peters, John Sidney, Alessandro Sette, 2009, The Journal of Immunology.

Atheroprotective Vaccination with MHC-II Restricted Peptides from ApoB-100

J. Sidney, A. Sette, K. Ley, 2013, Front. Immunol..

Class I molecules with similar peptide-binding specificities are the result of both common ancestry and convergent evolution

John Sidney, Alessandro Sette, Scott Southwood, 2003, Immunogenetics.

DRB1*0301 molecules recognize a structural motif distinct from the one recognized by most DR beta 1 alleles.

J. Sidney, A. Sette, F. Koning, 1992, Journal of immunology.

An ontology for immune epitopes: application to the design of a broad scope database of immune reactivities

Bjoern Peters, John Sidney, Huynh-Hoa Bui, 2005, Immunome research.

Peptide-binding motifs associated with MHC molecules common in Chinese rhesus macaques are analogous to those of human HLA supertypes and include HLA-B27-like alleles

J. Sidney, A. Sette, B. Mothé, 2013, Immunogenetics.

A strategy to determine HLA class II restriction broadly covering the DR, DP, and DQ allelic variants most commonly expressed in the general population

Bjoern Peters, J. Sidney, A. Sette, 2013, Immunogenetics.

Toxoplasma gondii HLA-B*0702-restricted GRA7(20-28) peptide with adjuvants and a universal helper T cell epitope elicits CD8(+) T cells producing interferon-γ and reduces parasite burden in HLA-B*0702 mice.

J. Sidney, A. Sette, W. Witola, 2012, Human immunology.

Molecular Determinants of T Cell Epitope Recognition to the Common Timothy Grass Allergen

Bjoern Peters, John Sidney, Alessandro Sette, 2010, The Journal of Immunology.

Poxvirus CD8+ T-Cell Determinants and Cross-Reactivity in BALB/c Mice

D. Tscharke, J. Sidney, A. Sette, 2006, Journal of Virology.

HLA-A*0201, HLA-A*1101, and HLA-B*0702 Transgenic Mice Recognize Numerous Poxvirus Determinants from a Wide Variety of Viral Gene Products1

Bjoern Peters, John Sidney, Huynh-Hoa Bui, 2005, The Journal of Immunology.

Classification of A1- and A24-supertype molecules by analysis of their MHC-peptide binding repertoires

John Sidney, Alessandro Sette, Scott Southwood, 2005, Immunogenetics.

MAGE-6 encodes HLA-DRbeta1*0401-presented epitopes recognized by CD4+ T cells from patients with melanoma or renal cell carcinoma.

Vladimir Brusic, John Sidney, Alessandro Sette, 2003, Clinical cancer research : an official journal of the American Association for Cancer Research.

Low HLA binding of diabetes-associated CD8+ T-cell epitopes is increased by post translational modifications

Ravi V. Kolla, J. Sidney, A. Sette, 2018, BMC Immunology.

Role of HLA-A motifs in identification of potential CTL epitopes in human papillomavirus type 16 E6 and E7 proteins.

A Sette, J Sidney, J. Sidney, 1994, Journal of immunology.

Melan-A/MART-151–73 represents an immunogenic HLA-DR4-restricted epitope recognized by melanoma-reactive CD4+ T cells

V. Brusic, J. Sidney, A. Sette, 2000 .

Naturally processed peptides longer than nine amino acid residues bind to the class I MHC molecule HLA-A2.1 with high affinity and in different conformations.

A Sette, J Sidney, J. Sidney, 1994, Journal of immunology.

Prominent roles of secondary anchor residues in peptide binding to HLA-A24 human class I molecules.

M F del Guercio, R W Chesnut, A Sette, 1995, Journal of immunology.

A Single Minor Histocompatibility Antigen Encoded by UGT2B17 and Presented by Human Leukocyte Antigen-A*2902 and -B*4403

T. Naoe, J. Sidney, A. Sette, 2007, Transplantation.

HLA Class I-T Cell Epitopes from trans-Sialidase Proteins Reveal Functionally Distinct Subsets of CD8+ T Cells in Chronic Chagas Disease

J. Sidney, A. Sette, D. B. Weatherly, 2008, PLoS neglected tropical diseases.

Backbone Modifications of HLA-A2-Restricted Antigens Induce Diverse Binding and T Cell Activation Outcomes.

J. Sidney, A. Sette, S. Gellman, 2021, Journal of the American Chemical Society.

Conserved MHC Class I Peptide Binding Motif Between Humans and Rhesus Macaques1

J. Sidney, A. Sette, D. Watkins, 2000, The Journal of Immunology.

Melan-A/MART-1(51-73) represents an immunogenic HLA-DR4-restricted epitope recognized by melanoma-reactive CD4(+) T cells.

V. Brusic, J. Sidney, A. Sette, 2000, Proceedings of the National Academy of Sciences of the United States of America.

MacaquesBetween Humans and Rhesus Conserved MHC Class I Peptide Binding

John Sidney, Alessandro Sette, David I. Watkins, 2013 .

Definition of epitopes and antigens recognized by vaccinia specific immune responses: their conservation in variola virus sequences, and use as a model system to study complex pathogens.

Ravi V. Kolla, J. Greenbaum, Magdalini Moutaftsi, 2009, Vaccine.

T Cells + CD 8 A Protective Role for Dengue Virus-Specific

Bjoern Peters, J. Sidney, R. Zellweger, 2009 .

Heterogeneous Immunogenicity Restricted Peptide Ligands with - Class II Structure-Based Design of Altered MHC

J. Sidney, A. Sette, J. Shabanowitz, 2014 .

Structure-Based Design of Altered MHC Class II–Restricted Peptide Ligands with Heterogeneous Immunogenicity

Suzanne, J. Sidney, A. Sette, 2013, The Journal of Immunology.

Analysis of T Cell Responses to the Major Allergens from German Cockroach: Epitope Specificity and Relationship to IgE Production

Ravi V. Kolla, J. Greenbaum, Bjoern Peters, 2012, The Journal of Immunology.

Dissociation between Epitope Hierarchy and Immunoprevalence in CD8 Responses to Vaccinia Virus Western Reserve1

Magdalini Moutaftsi, Bjoern Peters, V. Pasquetto, 2008, The Journal of Immunology.

HLA-A*0201, HLA-A*1101, and HLA-B*0702 transgenic mice recognize numerous poxvirus determinants from a wide variety of viral gene products.

Bjoern Peters, V. Pasquetto, D. Tscharke, 2005, The Journal of Immunology.

Correlates of protection efficacy induced by vaccinia virus‐specific CD8+ T‐cell epitopes in the murine intranasal challenge model

Magdalini Moutaftsi, Bjoern Peters, J. Sidney, 2009, European journal of immunology.

Characterization of Magnitude and Antigen Specificity of HLA-DP, DQ, and DRB3/4/5 Restricted DENV-Specific CD4+ T Cell Responses

S. Mallal, Bjoern Peters, J. Sidney, 2019, Front. Immunol..

Global Assessment of Dengue Virus-Specific CD4+ T Cell Responses in Dengue-Endemic Areas

S. Mallal, Bjoern Peters, J. Sidney, 2017, Front. Immunol..

Prior Dengue Virus Exposure Shapes T Cell Immunity to Zika Virus in Humans

P. J. Norris, S. Mallal, Bjoern Peters, 2017, Journal of Virology.

Human CD4+ T Cell Responses to an Attenuated Tetravalent Dengue Vaccine Parallel Those Induced by Natural Infection in Magnitude, HLA Restriction, and Antigen Specificity

S. Mallal, Bjoern Peters, J. Sidney, 2016, Journal of Virology.

HLA-DRB1 Alleles Are Associated With Different Magnitudes of Dengue Virus-Specific CD4+ T-Cell Responses.

S. Mallal, Bjoern Peters, J. Sidney, 2016, The Journal of infectious diseases.

Candidate targets for immune responses to 2019-Novel Coronavirus (nCoV): sequence homology- and bioinformatic-based predictions

R. Scheuermann, J. Sidney, A. Sette, 2020, bioRxiv.

Candidate targets for immune responses to 2019-Novel Coronavirus (nCoV): sequence homology- and bioinformatic-based predictions

John Sidney, Alessandro Sette, Richard H Scheuermann, 2020, medRxiv.

Peptide-binding motifs of two common equine class I MHC molecules in Thoroughbred horses

Bjoern Peters, J. Sidney, A. Sette, 2017, Immunogenetics.

Beyond HLA-A*0201: New HLA-Transgenic Nonobese Diabetic Mouse Models of Type 1 Diabetes Identify the Insulin C-Peptide as a Rich Source of CD8+ T Cell Epitopes

J. Sidney, A. Sette, Irene Jarchum, 2012, The Journal of Immunology.

T Cell Epitopes + Rich Source of CD8 Diabetes Identify the Insulin C-Peptide as a Nonobese Diabetic Mouse Models of Type 1 Beyond HLA-A*0201: New HLA-Transgenic

J. Sidney, A. Sette, Irene Jarchum, 2012 .

The Immune Epitope Database and Analysis Resource

Philip E. Bourne, John Sidney, Huynh-Hoa Bui, 2006, PRIB.

Degenerate and promiscuous recognition by CTL of peptides presented by the MHC class I A3-like superfamily: implications for vaccine development.

B. Walker, J. Sidney, A. Sette, 1997, Journal of immunology.

The HLA-A*0207 peptide binding repertoire is limited to a subset of the A*0201 repertoire.

J. Sidney, A. Sette, E. Appella, 1997, Human immunology.

Development and validation of a broad scheme for prediction of HLA class II restricted T cell epitopes

John Sidney, Alessandro Sette, Björn Peters, 2014, BCB.

The Effect of a Tropical Climate on Available Nutrient Resources to Springs in Ophiolite-Hosted, Deep Biosphere Ecosystems in the Philippines

Morten Nielsen, Bjoern Peters, John Sidney, 2017, Front. Microbiol..

CD4 T Cells Specific for a Latency-Associated γ-Herpesvirus Epitope Are Polyfunctional and Cytotoxic

Bjoern Peters, J. Sidney, A. Sette, 2014, The Journal of Immunology.

Identification and Characterization of CD4+ T Cell Epitopes after Shingrix Vaccination

S. Mallal, J. Sidney, A. Sette, 2020, Journal of Virology.

Different Bla‐g T cell antigens dominate responses in asthma versus rhinitis subjects

Bjoern Peters, J. Sidney, A. Sette, 2015, Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology.

Previously undescribed grass pollen antigens are the major inducers of T helper 2 cytokine-producing T cells in allergic individuals

Ravi V. Kolla, J. Greenbaum, Bjoern Peters, 2013, Proceedings of the National Academy of Sciences.

T Cell Responses to Known Allergen Proteins Are Differently Polarized and Account for a Variable Fraction of Total Response to Allergen Extracts

Ravi V. Kolla, J. Greenbaum, Bjoern Peters, 2012, The Journal of Immunology.

Derivation of HLA-A11/Kb transgenic mice: functional CTL repertoire and recognition of human A11-restricted CTL epitopes.

J. Sidney, H. Grey, A. Sette, 1997, Journal of immunology.

Differences and similarities in the A2.1‐restricted cytotoxic T cell repertoire in humans and human leukocyte antigen‐transgenic mice

A. Vitiello, J. Sidney, H. Grey, 1996, European journal of immunology.

Peptide combinations and use thereof in treating cedar pollen allergy

C. Lundegaard, Bjoern Peters, J. Sidney, 2016 .

A side-by-side comparison of T cell reactivity to fifty-nine Mycobacterium tuberculosis antigens in diverse populations from five continents.

Ravi V. Kolla, J. Sidney, A. Sette, 2015, Tuberculosis.

Dengue virus infection elicits highly polarized CX3CR1+ cytotoxic CD4+ T cells associated with protective immunity

Ravi V. Kolla, Bjoern Peters, J. Sidney, 2015, Proceedings of the National Academy of Sciences.

Association between specific timothy grass antigens and changes in TH1- and TH2-cell responses following specific immunotherapy.

J. Greenbaum, Bjoern Peters, J. Sidney, 2014, The Journal of allergy and clinical immunology.

T-Cell Memory Responses Elicited by Yellow Fever Vaccine are Targeted to Overlapping Epitopes Containing Multiple HLA-I and -II Binding Motifs

J. Sidney, A. Sette, U. Braga-Neto, 2013, PLoS neglected tropical diseases.

A Side-by-side Comparison of T cell Reactivity to Fifty-nine M . tuberculosis Antigens in Diverse Populations from five Continents

Ravi V. Kolla, J. Sidney, A. Sette, 2022 .

J. Sidney, A. Sette, O. Acuto, 1995, Journal of immunology.

Preventing tumor escape by targeting a post-proteasomal trimming independent epitope

D. Busch, P. Kloetzel, J. Sidney, 2016, The Journal of experimental medicine.

Human class I supertypes and CTL repertoires extend to chimpanzees.

A Sette, J Sidney, M. Shapiro, 1998, Journal of immunology.

CD4+ T cells from HIV‐1‐infected patients recognize wild‐type and mutant human immunodeficiency virus‐1 protease epitopes

J. Sidney, A. Sette, J. Kalil, 2011, Clinical and experimental immunology.

Identification of novel consensus CD4 T-cell epitopes from clade B HIV-1 whole genome that are frequently recognized by HIV-1 infected patients

John Sidney, Alessandro Sette, Jorge Kalil, 2006, AIDS.

Profiling Human Cytomegalovirus-Specific T Cell Responses Reveals Novel Immunogenic Open Reading Frames

Sandeep Kumar Dhanda, J. Sidney, A. Sette, 2021, Journal of virology.

Profiling Human Cytomegalovirus-Specific T Cell Responses Reveals Novel Immunogenic Open Reading Frames

Sandeep Kumar Dhanda, J. Sidney, A. Sette, 2021, bioRxiv.

Characterization of the peptide-binding specificity of the chimpanzee class I alleles A*0301 and A*0401 using a combinatorial peptide library

Clemencia Pinilla, Bjoern Peters, John Sidney, 2007, Immunogenetics.

Two distinct HLA-A*0101-specific submotifs illustrate alternative peptide binding modes

John Sidney, Scott Southwood, Akihiro Kondo, 1997, Immunogenetics.

CD8+ T Cells Specific to Apoptosis-Associated Antigens Predict the Response to Tumor Necrosis Factor Inhibitor Therapy in Rheumatoid Arthritis

J. Sidney, A. Sette, C. Martire, 2015, PloS one.

Polyfunctional Type-1, -2, and -17 CD8+ T Cell Responses to Apoptotic Self-Antigens Correlate with the Chronic Evolution of Hepatitis C Virus Infection

J. Sidney, A. Sette, D. Accapezzato, 2012, PLoS pathogens.

Cross-presentation of caspase-cleaved apoptotic self antigens in HIV infection

John Sidney, Alessandro Sette, Francesca Meloni, 2007, Nature Medicine.

Fine specificities of natural regulatory T cells after IVIG therapy in patients with Kawasaki disease

J. Sidney, A. Sette, J. Burns, 2015, Autoimmunity.

An in silico—in vitro Pipeline Identifying an HLA-A*02:01+ KRAS G12V+ Spliced Epitope Candidate for a Broad Tumor-Immune Response in Cancer Patients

J. Sidney, A. Sette, H. Urlaub, 2019, Front. Immunol..

Sequence conservation predicts T cell reactivity against ragweed allergens

S. Mallal, J. Greenbaum, Bjoern Peters, 2016, Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology.

Immunodominance in allergic T-cell reactivity to Japanese cedar in different geographic cohorts.

J. Greenbaum, Bjoern Peters, J. Sidney, 2016, Annals of allergy, asthma & immunology : official publication of the American College of Allergy, Asthma, & Immunology.

Allergy-associated T cell epitope repertoires are surprisingly diverse and include non-IgE reactive antigens

Bjoern Peters, John Sidney, Alessandro Sette, 2014, The World Allergy Organization journal.

Broadly Reactive Human CD8 T Cells that Recognize an Epitope Conserved between VZV, HSV and EBV

M. Carrington, B. Pulendran, Bjoern Peters, 2014, PLoS pathogens.

IMMUNOCAT—A Data Management System for Epitope Mapping Studies

Bjoern Peters, John Sidney, Alessandro Sette, 2010, Journal of biomedicine & biotechnology.

Identification of Db- and Kb-restricted subdominant cytotoxic T-cell responses in lymphocytic choriomeningitis virus-infected mice.

C Oseroff, J Alexander, R W Chesnut, 1998, Virology.

Detection of a Broad Range of Low-Level Major Histocompatibility Complex Class II–Restricted, Hepatitis Delta Virus (HDV)–Specific T-Cell Responses Regardless of Clinical Status

J. Sidney, A. Sette, A. Lohse, 2018, The Journal of infectious diseases.

Experimental validation of the RATE tool for inferring HLA restrictions of T cell epitopes

Bjoern Peters, J. Sidney, A. Sette, 2017, BMC Immunology.

HLA-A*01-Restricted Cytotoxic T-Lymphocyte Epitope from the Plasmodium falciparum Circumsporozoite Protein

J. Sidney, A. Sette, S. Hoffman, 2001, Infection and Immunity.

Derivation of HLA-B*0702 transgenic mice: functional CTL repertoire and recognition of human B*0702-restricted CTL epitopes.

J. Sidney, A. Sette, C. Oseroff, 2003, Human immunology.

A shared MHC supertype motif emerges by convergent evolution in macaques and mice, but is totally absent in human MHC molecules

J. Sidney, A. Sette, B. Mothé, 2012, Immunogenetics.

An automatic computational pipeline to display MHC binding motifs

John Sidney, Alessandro Sette, Peng Wang, 2010, BCB '10.

Rationally engineered proteins or antibodies with absent or reduced immunogenicity.

J. Sidney, A. Sette, S. Tangri, 2002, Current medicinal chemistry.

Increased CD8+ T cell responses to apoptotic T cell-associated antigens in multiple sclerosis

J. Sidney, A. Sette, V. Barnaba, 2013, Journal of Neuroinflammation.

Characterization of the peptide binding specificity of the HLA class I alleles B*38:01 and B*39:06

J. Sidney, A. Sette, J. Shabanowitz, 2016, Immunogenetics.

Towards an immunosense vaccine to prevent toxoplasmosis: protective Toxoplasma gondii epitopes restricted by HLA-A*0201.

J. Sidney, A. Sette, W. Witola, 2011, Vaccine.

Immunogenicity of a recombinant protein containing the Plasmodium vivax vaccine candidate MSP1(19) and two human CD4+ T-cell epitopes administered to non-human primates (Callithrix jacchus jacchus).

J. Sidney, A. Sette, F. Tzelepis, 2006, Microbes and infection.

Identification of Conserved HIV-1-Derived Helper T Lymphocyte Epitopes Using Synthetic Peptides and High Throughput Binding Assays

J. Sidney, A. Sette, E. Appella, 2001 .

Herpes simplex virus type 2 tegument proteins contain subdominant T-cell epitopes detectable in BALB/c mice after DNA immunization and infection.

J. Sidney, A. Sette, D. Kaslow, 2009, The Journal of general virology.

Correction: Broadly directed SARS-CoV-2-specific CD4+ T cell response includes frequently detected peptide specificities within the membrane and nucleoprotein in patients with acute and resolved COVID-19

J. Sidney, A. Sette, W. Kwok, 2022, PLoS pathogens.

T cell neoepitope discovery in colorectal cancer by high throughput profiling of somatic mutations in expressed genes

M. Severgnini, M. Braga, J. Sidney, 2015, Gut.

Chronic Ethanol Ingestion in Rats Decreases Granulocyte-Macrophage Colony-Stimulating Factor Receptor Expression and Downstream Signaling in the Alveolar Macrophage1

Bjoern Peters, V. Pasquetto, D. Tscharke, 1997, The Journal of Immunology.

Protective Role of Cross-Reactive CD8 T Cells Against Dengue Virus Infection

J. Sidney, A. Sette, D. Weiskopf, 2016, EBioMedicine.

CD8+ T-Cell Epitope Mapping for Pneumonia Virus of Mice in H-2b Mice

J. Sidney, A. Sette, M. Oldstone, 2013, Journal of Virology.

T-Cell Epitope Mapping for Pneumonia Virus of Mice in H-2 b Mice

J. Sidney, A. Sette, M. Welch, 2013 .

The adjacent amino acid polymorphisms in the nucleocapsid (R203K/G204R) of SARS-

M. John, I. James, S. Mallal, 2021 .

CellsPD-1 Expression in Virus-Specific CD8 T Reinforces a Poised Epigenetic Program for Cutting Edge: Prolonged Exposure to HIV

T. Miura, B. Walker, J. Sidney, 2013 .

Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions

M. Nielsen, Bjoern Peters, J. Sidney, 2014, BMC Bioinformatics.

T Cell Responses to SARS-CoV-2.

J. Sidney, A. Sette, S. Crotty, 2022, Annual review of immunology.

Reply to Satheshkumar and Moss: Poxvirus transcriptome analysis

J. Greenbaum, Bjoern Peters, V. Pasquetto, 2008, Proceedings of the National Academy of Sciences.

Genome-wide characterization of T cell responses to Bordetella pertussis reveals broad reactivity and similar polarization irrespective of childhood vaccination profiles

Sandeep Kumar Dhanda, Bjoern Peters, J. Sidney, 2023, bioRxiv.

Evidence for broad cross-reactivity of the SARS-CoV-2 NSP12-directed CD4+ T-cell response with pre-primed responses directed against common cold coronaviruses

J. Sidney, A. Sette, M. Addo, 2023, Frontiers in Immunology.

The Influence of MHC Class II Molecules Containing the Rheumatoid Arthritis Shared Epitope on the Immune Response to Aggrecan G1 and Its Peptides

J. Sidney, A. Sette, A. Jevnikar, 2007, Scandinavian journal of immunology.

Patterns of Cellular Immunity Associated with Experimental Infection with rDEN2Δ30 (Tonga/74) Support Its Suitability as a Human Dengue Virus Challenge Strain

S. Mallal, Bjoern Peters, J. Sidney, 2017, Journal of Virology.

T cell deletional tolerance restricts AQP4 but not MOG CNS autoimmunity

Mark S. Anderson, J. Sidney, A. Sette, 2023, Proceedings of the National Academy of Sciences of the United States of America.

Chronic ethanol ingestion in rats decreases granulocyte-macrophage colony-stimulating factor receptor expression and downstream signaling in the alveolar macrophage.

Bjoern Peters, V. Pasquetto, D. Tscharke, 1997, The Journal of Immunology.

An ontology for major histocompatibility restriction

John Sidney, Alessandro Sette, James A. Overton, 2016, Journal of Biomedical Semantics.

Class I MHC-peptide interaction: structural and functional aspects.

J. Sidney, H. Grey, A. Sette, 1994, Behring Institute Mitteilungen.

The Immune Epitope Database and Analysis Resource: From Vision to Blueprint

O. Lund, Bjoern Peters, J. Sidney, 2005, PLoS biology.

Erratum: T cells from patients with Parkinson’s disease recognize α-synuclein peptides

S. Mallal, L. Cote, Bjoern Peters, 2017, Nature.

T cell reactivity to Bordetella pertussis is highly diverse regardless of childhood vaccination.

Sandeep Kumar Dhanda, Bjoern Peters, J. Sidney, 2023, Cell host & microbe.

Systematic identification of personal tumor-specific neoantigens in chronic lymphocytic leukemia.

K. Cibulskis, S. Gabriel, N. Hacohen, 2014, Blood.

A side-by-side comparison of T cell reactivity to fifty-nine Mycobacterium tuberculosis antigens in diverse populations from five continents.

Ravi V. Kolla, J. Sidney, A. Sette, 2015, Tuberculosis.

HLA class I supertypes: a revised and updated classification

Bjoern Peters, J. Sidney, A. Sette, 2008, BMC Immunology.

J. Sidney, A. Sette, Arif A. Khan, 2013, The Journal of Immunology.

Regulatory CD4+ T Cells Recognize Major Histocompatibility Complex Class II Molecule-Restricted Peptide Epitopes of Apolipoprotein B.

J. Sidney, A. Sette, S. Gange, 2018, Circulation.

A computational pipeline to generate MHC binding motifs

Bjoern Peters, J. Sidney, A. Sette, 2011, Immunome research.

Immunomic Analysis of the Repertoire of T-Cell Specificities for Influenza A Virus in Humans

J. Sidney, H. Bui, H. Grey, 2008, Journal of Virology.

Random association between the peptide repertoire of A2.1 class I and several different DR class II molecules.

A Sette, J Sidney, A. Vitiello, 1991, Journal of immunology.

Quantitating T Cell Cross-Reactivity for Unrelated Peptide Antigens1

Lili X. Peng, Bjoern Peters, V. Pasquetto, 2009, The Journal of Immunology.

Immunology in the Clinic Review Series; focus on host responses: T cell responses to herpes simplex viruses

J. Sidney, A. Sette, D. Koelle, 2012, Clinical and Experimental Immunology.

Mutated BCR-ABL Generates Immunogenic T-cell Epitopes in CML Patients

D. DeLuca, D. Neuberg, D. Keskin, 2012, Clinical Cancer Research.

Chronic Ethanol Ingestion in Rats Decreases Granulocyte-Macrophage Colony-Stimulating Factor Receptor Expression and Downstream Signaling in the Alveolar Macrophage1

Bjoern Peters, D. Tscharke, J. Sidney, 2005, Journal of Immunology.

Chronic Ethanol Ingestion in Rats Decreases Granulocyte-Macrophage Colony-Stimulating Factor Receptor Expression and Downstream Signaling in the Alveolar Macrophage1

Bjoern Peters, D. Tscharke, J. Sidney, 2005, The Journal of Immunology.

Chronic ethanol ingestion in rats decreases granulocyte-macrophage colony-stimulating factor receptor expression and downstream signaling in the alveolar macrophage.

Bjoern Peters, V. Pasquetto, D. Tscharke, 1997, Journal of Immunology.

T Cell Responses to Known Allergen Proteins Are Differently Polarized and Account for a Variable Fraction of Total Response to Allergen Extracts

Ravi V. Kolla, J. Greenbaum, Bjoern Peters, 2012, The Journal of Immunology.

31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part two

Charles J. Vaske, Joe Y. Chang, Scott R. Presnell, 2016, Journal for ImmunoTherapy of Cancer.

Correlative CD4 and CD8 T-cell immunodominance in humans and mice: Implications for preclinical testing

J. Sidney, A. Grifoni, Alessandro Sette, 2023, Cellular & Molecular Immunology.

CD4+ T Cell Responses to Toxoplasma gondii Are a Double-Edged Sword

J. Sidney, K. El Bissati, J. Lykins, 2023, Vaccines.

Kinetic analysis of a complete poxvirus transcriptome reveals an immediate-early class of genes

J. Greenbaum, Bjoern Peters, V. Pasquetto, 2008, Proceedings of the National Academy of Sciences.

Identification of poxvirus CD8+ T cell determinants to enable rational design and characterization of smallpox vaccines

D. Tscharke, J. Sidney, A. Sette, 2005, The Journal of experimental medicine.

Molecular Determinants of T Cell Epitope Recognition to the Common Timothy Grass Allergen

Ravi V. Kolla, Bjoern Peters, J. Sidney, 2010, The Journal of Immunology.

The Effect of a Tropical Climate on Available Nutrient Resources to Springs in Ophiolite-Hosted, Deep Biosphere Ecosystems in the Philippines

M. Nielsen, Bjoern Peters, J. Sidney, 2017, Front. Microbiol..

Human histocompatibility leukocyte antigen-binding supermotifs predict broadly cross-reactive cytotoxic T lymphocyte responses in patients with acute hepatitis.

J. Sidney, A. Sette, F. Chisari, 1997, The Journal of clinical investigation.

signaling in the alveolar macrophage. factor receptor expression and downstream granulocyte-macrophage colony-stimulating Chronic ethanol ingestion in rats decreases

D. Tscharke, J. Sidney, H. Bui, 2005 .

Structural Features of Peptide Analogs of Human Histocompatibility Leukocyte Antigen Class I Epitopes That Are More Potent and Immunogenic than Wild-Type Peptide

J. Sidney, A. Sette, S. Southwood, 2001, The Journal of experimental medicine.

Cellular immune selection with hepatitis C virus persistence in humans

J. Sidney, A. Sette, S. Ray, 2005, The Journal of experimental medicine.

Immune response in Parkinson’s disease driven by HLA display of α-synuclein peptides

S. Mallal, L. Cote, Bjoern Peters, 2017, The Journal of Immunology.

Immunodominant MHC-II (Major Histocompatibility Complex II) Restricted Epitopes in Human Apolipoprotein B

S. Mallal, Bjoern Peters, J. Sidney, 2022, Circulation research.

The MegaPool Approach to Characterize Adaptive CD4+ and CD8+ T Cell Responses

J. Sidney, D. Weiskopf, A. Grifoni, 2023, Current protocols.

A strategy to determine HLA class II restriction broadly covering the DR, DP, and DQ allelic variants most commonly expressed in the general population

Bjoern Peters, J. Sidney, A. Sette, 2013, Immunogenetics.

Association of HLA-DRB1-restricted CD4+ T cell responses with HIV immune control

M. Carrington, B. Walker, Y. Qi, 2013, Nature Medicine.

PINK1 is a target of T cell responses in Parkinson’s disease

J. Sidney, C. L. Lindestam Arlehamn, A. Frazier, 2024, bioRxiv.

Pre-existing SARS-2-specific T cells are predicted to cross-recognize BA.2.86.

J. Sidney, A. Grifoni, Alessandro Sette, 2023, Cell host & microbe.

Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules

Kiyoko F. Aoki-Kinoshita, Hiroshi Mamitsuka, J. Sidney, 2006, Bioinform..