Adaptive immune receptor repertoire analysis

V Mhanna, H Bashour, K Lê Quý, P Barennes… - Nature Reviews …, 2024 - nature.com
B cell and T cell receptor repertoires compose the adaptive immune receptor repertoire
(AIRR) of an individual. The AIRR is a unique collection of antigen-specific receptors that …

[HTML][HTML] Practical guidelines for B-cell receptor repertoire sequencing analysis

G Yaari, SH Kleinstein - Genome medicine, 2015 - Springer
High-throughput sequencing of B-cell immunoglobulin repertoires is increasingly being
applied to gain insights into the adaptive immune response in healthy individuals and in …

Quantifiable predictive features define epitope-specific T cell receptor repertoires

P Dash, AJ Fiore-Gartland, T Hertz, GC Wang… - Nature, 2017 - nature.com
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 …

[HTML][HTML] High-throughput mapping of B cell receptor sequences to antigen specificity

I Setliff, AR Shiakolas, KA Pilewski, AA Murji… - Cell, 2019 - cell.com
B cell receptor (BCR) sequencing is a powerful tool for interrogating immune responses to
infection and vaccination, but it provides limited information about the antigen specificity of …

[HTML][HTML] VDJtools: unifying post-analysis of T cell receptor repertoires

M Shugay, DV Bagaev, MA Turchaninova… - PLoS computational …, 2015 - journals.plos.org
Despite the growing number of immune repertoire sequencing studies, the field still lacks
software for analysis and comprehension of this high-dimensional data. Here we report …

IgBLAST: an immunoglobulin variable domain sequence analysis tool

J Ye, N Ma, TL Madden, JM Ostell - Nucleic acids research, 2013 - academic.oup.com
The variable domain of an immunoglobulin (IG) sequence is encoded by multiple genes,
including the variable (V) gene, the diversity (D) gene and the joining (J) gene. Analysis of …

IMGT®, the international ImMunoGeneTics information system® 25 years on

MP Lefranc, V Giudicelli, P Duroux… - Nucleic acids …, 2015 - academic.oup.com
IMGT®, the international ImMunoGeneTics information system®(http://www. imgt. org) is the
global reference in immunogenetics and immunoinformatics. By its creation in 1989 by …

[HTML][HTML] Long-lived plasma cells are contained within the CD19− CD38hiCD138+ subset in human bone marrow

JL Halliley, CM Tipton, J Liesveld, AF Rosenberg… - Immunity, 2015 - cell.com
Antibody responses to viral infections are sustained for decades by long-lived plasma cells
(LLPCs). However, LLPCs have yet to be characterized in humans. Here we used CD19 …

[HTML][HTML] Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies

NA Doria-Rose, CA Schramm, J Gorman, PL Moore… - Nature, 2014 - nature.com
Antibodies capable of neutralizing HIV-1 often target variable regions 1 and 2 (V1V2) of the
HIV-1 envelope, but the mechanism of their elicitation has been unclear. Here we define the …

Focused specificity of intestinal TH17 cells towards commensal bacterial antigens

Y Yang, MB Torchinsky, M Gobert, H Xiong, M Xu… - Nature, 2014 - nature.com
Abstract T-helper-17 (TH17) cells have critical roles in mucosal defence and in autoimmune
disease pathogenesis,,. They are most abundant in the small intestine lamina propria, where …