Garcia-Boronat, Maria, Diez-Rivero, Carmen M, Reinherz, Ellis L, Reche, Pedro A
We have developed PVS (Protein Variability Server), a web-based tool that uses several variability metrics to compute the absolute site variability in multiple protein-sequence alignments (MSAs). The...
Garcia-Boronat, Maria, Diez-Rivero, Carmen M., Reinherz, Ellis L., Reche, Pedro A.
We have developed PVS (Protein Variability Server), a web-based tool that uses several variability metrics to compute the absolute site variability in multiple protein-sequence alignments (MSAs). The...
Bmc Bioinformatics, Hong Huang Lin, Guang Lan Zhang, Songsak Tongchusak, Ellis L Reinherz, Vladimir Brusic, ...
Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research
Bmc Immunology, Hong Huang Lin, Surajit Ray, Songsak Tongchusak, Ellis L Reinherz, Vladimir Brusic, ...
© 2008 Lin et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License
Prediction of peptide-MHC binding using profiles (2007)
Reche, Pedro A, Reinherz, Ellis L
Prediction of peptide binding to major histocompatibility complex (MHC) molecules is a basis for anticipating T-cell epitopes. Peptides that bind to a given MHC molecule are related by sequence...
Definition of MHC supertypes through clustering of MHC peptide-binding repertoires (2007)
Reche, Pedro A, Reinherz, Ellis L
Identification of peptides that can bind to major histocompatibility complex (MHC) molecules is important for anticipation of T-cell epitopes and for the design of epitope-based vaccines. Population...
Reche, Pedro A, Keskin, Derin B, Hussey, Rebecca E, Ancuta, Petronela, Gabuzda, Dana, Reinherz, Ellis L
Cytotoxic T lymphocytes (CTL) protect against viruses including HIV-1. To avoid viral escape mutants that thwart immunity, we chose 25 CTL epitopes defined in the context of natural infection with...
Reche, Pedro A, Reinherz, Ellis L
Prediction of peptide binding to major histocompatibility complex (MHC) molecules is a basis for anticipating T-cell epitopes, as well as epitope discovery-driven vaccine development. In the human,...
EPIMHC: a curated database of MHC-binding peptides for customized computational vaccinology (2005)
Reche, Pedro A, Zhang, Hong, Glutting, John-Paul, Reinherz, Ellis L
SUMMARY: EPIMHC is a relational database of MHC-binding peptides and T cell epitopes that are observed in real proteins. Currently, the database contains 4867 distinct peptide sequences from various...
Yang, Hailin, Kim, Sung-Kwon, Kim, Mikyung, Reche, Pedro A, Morehead, Tiara J, Damon, Inger K, ...
The EGF-like domain of smallpox growth factor (SPGF) targets human ErbB-1, inducing tyrosine phosphorylation of certain host cellular substrates via activation of the receptor's kinase domain and...
Prediction of methylated CpGs in DNA sequences using a support vector machine (2005)
Bhasin, Manoj, Zhang, Hong, Reinherz, Ellis L, Reche, Pedro A
DNA methylation plays a key role in the regulation of gene expression. The most common type of DNA modification consists of the methylation of cytosine in the CpG dinucleotide. At the present time,...
Reche, Pedro A., Reinherz, Ellis L.
Prediction of peptide binding to major histocompatibility complex (MHC) molecules is a basis for anticipating T-cell epitopes, as well as epitope discovery-driven vaccine development. In the human,...
EPIMHC: a curated database of MHC-binding peptides for customized computational vaccinology (2005)
Reche, Pedro A., Zhang, Hong, Glutting, John-Paul, Reinherz, Ellis L.
Summary: EPIMHC is a relational database of MHC-binding peptides and T cell epitopes that are observed in real proteins. Currently, the database contains 4867 distinct peptide sequences from various...
EPIMHC: a curated database of MHC-binding peptides for customized computational vaccinology (2005)
Reche, Pedro A., Zhang, Hong, Glutting, John-Paul, Reinherz, Ellis L.
Summary: EPIMHC is a relational database of MHC-binding peptides and T cell epitopes that are observed in real proteins. Currently the database contains 4867 distinct peptide sequences from various...
Fridkis-Hareli, Masha, Reche, Pedro A, Reinherz, Ellis L
During development, thymocytes carrying TCRs mediating low-affinity interactions with MHC-bound self-peptides are positively selected for export into the mature peripheral T lymphocyte pool. Thus,...
Kim, Mikyung, Yang, Hailin, Kim, Sung-Kwon, Reche, Pedro A, Tirabassi, Rebecca S, Hussey, Rebecca E, ...
Variola, the causative agent of smallpox, is a highly infectious double-stranded DNA virus of the orthopox genus that replicates within the cytoplasm of infected cells. For unknown reasons prominent...
Reche, Pedro A, Glutting, John-Paul, Zhang, Hong, Reinherz, Ellis L
We introduced previously an on-line resource, RANKPEP that uses position specific scoring matrices (PSSMs) or profiles for the prediction of peptide-MHC class I (MHCI) binding as a basis for CD8...
Zhong, Weimin, Reinherz, Ellis L.
Little is known about the mechanisms governing TCR repertoire selection in response to foreign antigens. Here, we evaluate the molecular features of the murine C57BL/6 (B6) TCR Vβ repertoire...
Genome-wide characterization of a viral cytotoxic T lymphocyte epitope repertoire (2003)
Zhong, Weimin, Reche, Pedro A, Lai, Char-Chang, Reinhold, Bruce, Reinherz, Ellis L
A genome-wide search using major histocompatibility complex (MHC) class I binding and proteosome cleavage site algorithms identified 101 influenza A PR8 virus-derived peptides as potential epitopes...
Reche, Pedro A, Reinherz, Ellis L
Major histocompatibility complex class I (MHCI) and class II (MHCII) molecules display peptides on antigen-presenting cell surfaces for subsequent T-cell recognition. Within the human population,...
Gene expression analysis of thymocyte selection in vivo (2003)
Schmitz, Ingo, Clayton, Linda K., Reinherz, Ellis L.
Self versus non‐self discrimination is a key feature of immunorecognition. Through TCR‐activated apoptotic mechanisms, autoreactive thymocytes are purged at the CD4+CD8+...
Prediction of MHC class I binding peptides using profile motifs (2002)
Reche, Pedro A, Glutting, John-Paul, Reinherz, Ellis L
Peptides that bind to a given major histocompatibility complex (MHC) molecule share sequence similarity. Therefore, a position specific scoring matrix (PSSM) or profile derived from a set of peptides...
King, Philip D., Sadra, Ali, Han, Arnold, Liu, Xiao-Ron, Sunder-Plassmann, Raute, Reinherz, Ellis L., ...
Ligation of the CD2 cell surface glycoprotein expressed on T lymphocytes and NK cells induces protein tyrosine phosphorylation and activation of the Src kinases, LCK and FYN. We show here that in...
Characterization of Fc{varepsilon}RI{gamma} in human natural killer cells (1992)
Moingeon, Philippe, Lucich, Jeanne L., Reinherz, Ellis L.
We report the characterization of the FcϵRIγ chain which associates with the transmembrane form of CD16 to form the low affinity receptor for IgG (FcγRIII) expressed on human natural killer...
Virgin and memory T cells have different requirements for activation via the CD2 molecule (1989)
Byrne, Jacquelyn A., Butler, Joseph L., Reinherz, Ellis L., Cooper, Max D., Okumura, K
T cells can be divided into unprimed virgin (T°) and primed memory (T') subpopulations by their expression of different isoforms of the leukocyte common antigen. We have separated the CD4+ T...
Recognition and classification of histones using support vector machine
Bhasin, Manoj, Reinherz, Ellis L, Reche, Pedro A
Histones are DNA-binding proteins found in the chromatin of all eukaryotic cells. They are highly conserved and can be grouped into five major classes: H1/H5, H2A, H2B, H3, and H4. Two copies of H2A,...