Author details

Full Name

Jason A Greenbaum

Affiliation

ORCID

Career Start Year

2003

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36806329	IEDB-3D 2.0: Structural data analysis within the Immune Epitope Database.	Protein Sci	2023
37655661	Linked CD4+/CD8+ T cell neoantigen vaccination overcomes immune checkpoint blockade resistance and enables tumor regression.	J Clin Invest	2023
37693565	A systems vaccinology resource to develop and test computational models of immunity.	bioRxiv	2023
36713080	Estimating tissue-specific peptide abundance from public RNA-Seq data.	Front Genet	2023
36512410	Tumor cells fail to present MHC-II-restricted epitopes derived from oncogenes to CD4+ T cells.	JCI Insight	2023
37205330	Linked CD4 <sup>+</sup> /CD8 <sup>+</sup> T cell neoantigen vaccination overcomes immune checkpoint blockade resistance and enables tumor regression.	bioRxiv	2023
36763096	Coronavirus Immunotherapeutic Consortium Database.	Database (Oxford)	2023
35128348	Combined assessment of MHC binding and antigen abundance improves T cell epitope predictions.	iScience	2022
35847273	Predicting the Success of Fmoc-Based Peptide Synthesis.	ACS Omega	2022
35594038	Distinguishing cell-cell complexes from dual lineage cells using single-cell transcriptomics is not trivial.	Cytometry A	2022
35455361	Transcriptomics of Acute DENV-Specific CD8+ T Cells Does Not Support Qualitative Differences as Drivers of Disease Severity.	Vaccines (Basel)	2022
35794711	A comprehensive analysis of the IEDB MHC class-I automated benchmark.	Brief Bioinform	2022
35361728	Targeting the tumor mutanome for personalized vaccination in a TMB low non-small cell lung cancer.	J Immunother Cancer	2022
35239442	Developmentally distinct CD4 T lineages shape the CD8 T cell response to acute infection.	Proceedings of the National Academy of Sciences of the United States of America	2022
35213211	Single-cell eQTL analysis of activated T cell subsets reveals activation and cell type-dependent effects of disease-risk variants.	Sci Immunol	2022
33664261	Transcriptome and chromatin landscape of iNKT cells are shaped by subset differentiation and antigen exposure.	Nature Communications	2021
33521695	Comprehensive analysis of TÂ cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases.	Cell Rep Med	2021
33777034	TCRMatch: Predicting T-Cell Receptor Specificity Based on Sequence Similarity to Previously Characterized Receptors.	Front Immunol	2021
33330869	Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases.	bioRxiv	2020
32268093	TLR9 Sensing of Self-DNA Controls Cell-Mediated Immunity to Listeria Infection via Rapid Conversion of Conventional CD4 T Cells to T.	Cell Reports	2020
32473127	Targets of T Cell Responses to SARS-CoV-2 Coronavirus in Humans with COVID-19 Disease and Unexposed Individuals.	Cell	2020
32753554	Selective and cross-reactive SARS-CoV-2 T cell epitopes in unexposed humans.	Science	2020
33010815	Antigen-Specific Adaptive Immunity to SARS-CoV-2 in Acute COVID-19 and Associations with Age and Disease Severity.	Cell	2020
32615639	A behind-the-scenes tour of the IEDB curation process: an optimized process empirically integrating automation and human curation efforts.	Immunology	2020
31114900	IEDB-AR: immune epitope database-analysis resource in 2019.	Nucleic Acids Res	2019
31704962	Identifying inaccuracies in gene expression estimates from unstranded RNA-seq data.	Sci Rep	2019
31237234	Circulating T cell-monocyte complexes are markers of immune perturbations.	Elife	2019
29315598	Improved methods for predicting peptide binding affinity to MHC class II molecules.	Immunology	2018
29887596	YAP and MRTF-A, transcriptional co-activators of RhoA-mediated gene expression, are critical for glioblastoma tumorigenicity.	Oncogene	2018
30449622	Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression.	Cell	2018
30377561	Predicting T cell recognition of MHC class I restricted neoepitopes.	Oncoimmunology	2018
29431692	Development of Asthma in Inner-City Children: Possible Roles of MAIT Cells and Variation in the Home Environment.	J Immunol	2018
29602771	Transcriptomic Analysis of CD4<sup>+</sup> T Cells Reveals Novel Immune Signatures of Latent Tuberculosis.	J Immunol	2018
29735642	Response to Comment on "Development of Asthma in Inner-City Children: Possible Roles of MAIT Cells and Variation in the Home Environment".	Journal of Immunology	2018
29281002	An automated benchmarking platform for MHC class II binding prediction methods.	Bioinformatics	2018
27684489	Immunoproteomic analysis of house dust mite antigens reveals distinct classes of dominant T cell antigens according to function and serological reactivity.	Clin Exp Allergy	2017
29133794	Unique phenotypes and clonal expansions of human CD4 effector memory T cells re-expressing CD45RA.	Nat Commun	2017
29117564	An IRF-3-, IRF-5-, and IRF-7-Independent Pathway of Dengue Viral Resistance Utilizes IRF-1 to Stimulate Type I and II Interferon Responses.	Cell Rep	2017
27979027	Immunodominance in allergic T-cell reactivity to Japanese cedar in different geographic cohorts.	Ann Allergy Asthma Immunol	2016
26883464	T-cell epitope conservation across allergen species is a major determinant of immunogenicity.	J Allergy Clin Immunol	2016
26789414	T-cell recognition is shaped by epitope sequence conservation in the host proteome and microbiome.	Immunology	2016
27359111	Sequence conservation predicts T cell reactivity against ragweed allergens.	Clin Exp Allergy	2016
26662458	Lack of allergy to timothy grass pollen is not a passive phenomenon but associated with the allergen-specific modulation of immune reactivity.	Clin Exp Allergy	2016
26027778	Development and validation of a sample sparing strategy for HLA typing utilizing next generation sequencing.	Hum Immunol	2015
25548174	Immunological consequences of intragenus conservation of Mycobacterium tuberculosis T-cell epitopes.	Proc Natl Acad Sci U S A	2015
25300482	The immune epitope database (IEDB) 3.0.	Nucleic Acids Res	2015
25762732	Dengue Virus Evolution under a Host-Targeted Antiviral.	J Virol	2015
25959063	IL-10-producing intestinal macrophages prevent excessive antibacterial innate immunity by limiting IL-23 synthesis.	Nat Commun	2015
25717196	Automated benchmarking of peptide-MHC class I binding predictions.	Bioinformatics	2015
25042980	Association between specific timothy grass antigens and changes in TH1- and TH2-cell responses following specific immunotherapy.	J Allergy Clin Immunol	2014