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 …

Progress and challenges for the machine learning-based design of fit-for-purpose monoclonal antibodies

R Akbar, H Bashour, P Rawat, PA Robert, E Smorodina… - MAbs, 2022 - Taylor & Francis
Although the therapeutic efficacy and commercial success of monoclonal antibodies (mAbs)
are tremendous, the design and discovery of new candidates remain a time and cost …

Mpox vaccine and infection-driven human immune signatures: an immunological analysis of an observational study

H Cohn, N Bloom, GY Cai, JJ Clark, A Tarke… - The Lancet Infectious …, 2023 - thelancet.com
Background Monkeypox virus has recently infected more than 88 000 people, raising
concerns about our preparedness against this emerging viral pathogen. Licensed and …

Computational approaches to therapeutic antibody design: established methods and emerging trends

RA Norman, F Ambrosetti, AMJJ Bonvin… - Briefings in …, 2020 - academic.oup.com
Antibodies are proteins that recognize the molecular surfaces of potentially noxious
molecules to mount an adaptive immune response or, in the case of autoimmune diseases …

Observed antibody space: a resource for data mining next-generation sequencing of antibody repertoires

A Kovaltsuk, J Leem, S Kelm, J Snowden… - The Journal of …, 2018 - journals.aai.org
Abs are immune system proteins that recognize noxious molecules for elimination. Their
sequence diversity and binding versatility have made Abs the primary class of …

Computational strategies for dissecting the high-dimensional complexity of adaptive immune repertoires

E Miho, A Yermanos, CR Weber, CT Berger… - Frontiers in …, 2018 - frontiersin.org
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 …

Large-scale sequence and structural comparisons of human naive and antigen-experienced antibody repertoires

BJ DeKosky, OI Lungu, D Park, EL Johnson… - Proceedings of the …, 2016 - pnas.org
Elucidating how antigen exposure and selection shape the human antibody repertoire is
fundamental to our understanding of B-cell immunity. We sequenced the paired heavy-and …

Analyzing immunoglobulin repertoires

N Chaudhary, DR Wesemann - Frontiers in immunology, 2018 - frontiersin.org
Somatic assembly of T cell receptor and B cell receptor (BCR) genes produces a vast
diversity of lymphocyte antigen recognition capacity. The advent of efficient high-throughput …

How repertoire data are changing antibody science

C Marks, CM Deane - Journal of Biological Chemistry, 2020 - jbc.org
Antibodies are vital proteins of the immune system that recognize potentially harmful
molecules and initiate their removal. Mammals can efficiently create vast numbers of …

Advanced model systems and tools for basic and translational human immunology

LE Wagar, RM DiFazio, MM Davis - Genome medicine, 2018 - Springer
There are fundamental differences between humans and the animals we typically use to
study the immune system. We have learned much from genetically manipulated and inbred …