A5063725110- vaccines and immunoinformatics approaches
- Immunotherapy and Immune Responses
- Immune Cell Function and Interaction
- T-cell and B-cell Immunology
- Monoclonal and Polyclonal Antibodies Research
- Allergic Rhinitis and Sensitization
- Food Allergy and Anaphylaxis Research
- Asthma and respiratory diseases
- Cancer Immunotherapy and Biomarkers
- Mosquito-borne diseases and control
- SARS-CoV-2 and COVID-19 Research
- Tuberculosis Research and Epidemiology
- Dermatology and Skin Diseases
- IL-33, ST2, and ILC Pathways
- Single-cell and spatial transcriptomics
- Influenza Virus Research Studies
- RNA and protein synthesis mechanisms
- HIV Research and Treatment
- Bacterial Infections and Vaccines
- Malaria Research and Control
- CAR-T cell therapy research
- Mycobacterium research and diagnosis
- Bacteriophages and microbial interactions
- Genomics and Phylogenetic Studies
- Biomedical Text Mining and Ontologies
La Jolla Institute for Immunology
2016-2025
University of California, San Diego
2019
Moores Cancer Center
2019
National University of General San Martín
2015
Technical University of Denmark
2015
Wayne State University
2008
Boston University
2007
Rockefeller University
2003
Limited knowledge is available on the relationship between antigen-specific immune responses and COVID-19 disease severity. We completed a combined examination of all three branches adaptive immunity at level SARS-CoV-2-specific CD4
Many unknowns exist about human immune responses to the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus. SARS-CoV-2-reactive CD4
The IEDB, www.iedb.org, contains information on immune epitopes--the molecular targets of adaptive responses--curated from the published literature and submitted by National Institutes Health funded epitope discovery efforts. From 2004 to 2012 IEDB curation journal articles since 1960 has caught up present day, with >95% relevant manually curated amounting more than 15,000 704,000 experiments date. revised target been make recent research findings quickly available in thereby ensure that it...
T-cells have to recognize peptides presented on MHC molecules be activated and elicit their effector functions. Several studies demonstrate that some are more immunogenic than others therefore likely T-cell epitopes. We set out determine which properties cause such differences in immunogenicity. To this end, we collected analyzed a large of data describing the immunogenicity various MHC-I molecules. Two main conclusions could drawn from analysis: First, line with previous observations,...
Major histocompatibility complex class II (MHC-II) molecules are expressed on the surface of professional antigen-presenting cells where they display peptides to T helper cells, which orchestrate onset and outcome many host immune responses. Understanding will be presented by MHC-II molecule is therefore important for understanding activation can used identify T-cell epitopes. We here present updated versions two MHC-II-peptide binding affinity prediction methods, NetMHCII NetMHCIIpan. These...
The Immune Epitope Database (IEDB, www.iedb.org) provides a catalog of experimentally characterized B and T cell epitopes, as well data on Major Histocompatibility Complex (MHC) binding MHC ligand elution experiments. database represents the molecular structures recognized by adaptive immune receptors experimental contexts in which these molecules were determined to be epitopes. Epitopes humans, nonhuman primates, rodents, pigs, cats all other tested species are included. Both positive...
The immune epitope database analysis resource (IEDB-AR: http://tools.iedb.org) is a collection of tools for prediction and molecular targets T- B-cell responses (i.e. epitopes). Since its last publication in the NAR webserver issue 2008, new generation peptide:MHC binding T-cell predictive have been added. As validated by different labs first international competition predicting peptide:MHC-I binding, their performances improved considerably. In addition, tool was added, homology mapping...
We present a new release of the immune epitope database analysis resource (IEDB-AR, http://tools.immuneepitope.org ), repository web-based tools for prediction and epitopes. New functionalities have been added to most previously implemented tools, total eight were added, including two B-cell four T-cell tools.
Abstract The Immune Epitope Database Analysis Resource (IEDB-AR, http://tools.iedb.org/) is a companion website to the IEDB that provides computational tools focused on prediction and analysis of B T cell epitopes. All are freely available through public many also REST API and/or downloadable command-line tool. A virtual machine image entire site for non-commercial use contains most site. Here, we describe functionalities in IEDB-AR, focusing 10 new have been added since last report 2012 NAR...
A major concern about the ongoing swine-origin H1N1 influenza virus (S-OIV) outbreak is that may be so different from seasonal little immune protection exists in human population. In this study, we examined molecular basis for pre-existing immunity against S-OIV, namely recognition of viral epitopes by T cells or B cells/antibodies have been previously primed circulating strains. Using data Immune Epitope Database, found only 31% (8/26) B-cell present recently strains are conserved with 17%...
An understanding of the immunological footprint Mycobacterium tuberculosis (MTB) CD4 T cell recognition is still incomplete. Here we report that human Th1 cells specific for MTB are largely contained in a CXCR3(+)CCR6(+) memory subset and highly focused on three broadly immunodominant antigenic islands, all related to bacterial secretion systems. Our results refute notion secreted antigens act as decoy, since both proteins comprising system itself targeted by fully functional response. In...
Abstract The expression of CD45RA is generally associated with naive T cells. However, a subset effector memory cells re-expresses (termed TEMRA) after antigenic stimulation unknown molecular characteristics and functions. CD4 TEMRA have been implicated in protective immunity against pathogens such as dengue virus (DENV). Here we show that not only the frequency but also phenotype are heterogeneous between individuals. These can be subdivided into two major subsets based on adhesion G...
Follicular helper CD4 T (Tfh) cells are a distinct type of differentiated uniquely specialized for B cell help. In this study, we examined Tfh fate commitment, including distinguishing features versus Th1 proliferation and survival. Using transfer approaches at early time points after an acute viral infection, demonstrate that already strongly committed by day 3. Nevertheless, was tightly regulated in TCR-dependent manner. The still depend on extrinsic cues from their physiological vivo...
The adaptive immune system in vertebrates has evolved to recognize non-self antigens, such as proteins expressed by infectious agents and mutated cancer cells. T cells play an important role antigen recognition expressing a diverse repertoire of antigen-specific receptors, which bind epitopes mount targeted responses. Recent advances high-throughput sequencing have enabled the routine generation T-cell receptor (TCR) data. Identifying specific different TCRs these data would be valuable. To...
Many problems in biology require looking for a "needle haystack," corresponding to binary classification where there are few positives within much larger set of negatives, which is referred as class imbalance. The receiver operating characteristic (ROC) curve and the associated area under (AUC) have been reported ill-suited evaluate prediction performance on imbalanced more interest positive minority class, while precision-recall (PR) preferable. We show via simulation real case study that...
Bromodomain-containing proteins bind acetylated lysine residues on histone tails and are involved in the recruitment of additional factors that mediate modifications enable transcription. A compound, I-BET-762, inhibits binding an peptide to bromodomain extra-terminal domain (BET) family, was previously shown suppress production proinflammatory by macrophages block acute inflammation mice. Here, we investigated effect short-term treatment with I-BET-762 T-cell function. Treatment naïve CD4 +...