Systems immunology: just getting started
Abstract Systems-biology approaches in immunology take various forms, but here we review
strategies for measuring a broad swath of immunological functions as a means of …
strategies for measuring a broad swath of immunological functions as a means of …
Computational strategies for dissecting the high-dimensional complexity of adaptive immune repertoires
The adaptive immune system recognizes antigens via an immense array of antigen-binding
antibodies and T-cell receptors, the immune repertoire. The interrogation of immune …
antibodies and T-cell receptors, the immune repertoire. The interrogation of immune …
Quantifiable predictive features define epitope-specific T cell receptor repertoires
T cells are defined by a heterodimeric surface receptor, the T cell receptor (TCR), that
mediates recognition of pathogen-associated epitopes through interactions with peptide and …
mediates recognition of pathogen-associated epitopes through interactions with peptide and …
NOREVA: enhanced normalization and evaluation of time-course and multi-class metabolomic data
Biological processes (like microbial growth & physiological response) are usually dynamic
and require the monitoring of metabolic variation at different time-points. Moreover, there is …
and require the monitoring of metabolic variation at different time-points. Moreover, there is …
A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding
Antibody-antigen binding relies on the specific interaction of amino acids at the paratope-
epitope interface. The predictability of antibody-antigen binding is a prerequisite for de novo …
epitope interface. The predictability of antibody-antigen binding is a prerequisite for de novo …
IgA function in relation to the intestinal microbiota
AJ Macpherson, B Yilmaz, JP Limenitakis… - Annual review of …, 2018 - annualreviews.org
IgA is the dominant immunoglobulin isotype produced in mammals, largely secreted across
the intestinal mucosal surface. Although induction of IgA has been a hallmark feature of …
the intestinal mucosal surface. Although induction of IgA has been a hallmark feature of …
Using T cell receptor repertoires to understand the principles of adaptive immune recognition
Adaptive immune recognition is mediated by antigen receptors on B and T cells generated
by somatic recombination during lineage development. The high level of diversity resulting …
by somatic recombination during lineage development. The high level of diversity resulting …
[HTML][HTML] Mining adaptive immune receptor repertoires for biological and clinical information using machine learning
The adaptive immune system stores invaluable information about current and past immune
responses and may serve as an ultrasensitive biosensor. Given the immune system's critical …
responses and may serve as an ultrasensitive biosensor. Given the immune system's critical …
Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity
WS DeWitt III, A Smith, G Schoch, JA Hansen… - Elife, 2018 - elifesciences.org
The T cell receptor (TCR) repertoire encodes immune exposure history through the dynamic
formation of immunological memory. Statistical analysis of repertoire sequencing data has …
formation of immunological memory. Statistical analysis of repertoire sequencing data has …
A transfer-learning approach to predict antigen immunogenicity and T-cell receptor specificity
Antigen immunogenicity and the specificity of binding of T-cell receptors to antigens are key
properties underlying effective immune responses. Here we propose diffRBM, an approach …
properties underlying effective immune responses. Here we propose diffRBM, an approach …