Public Baseline and shared response structures support the theory of antibody repertoire functional commonality

Ab-Ligity: identifying sequence-dissimilar antibodies that bind to the same epitope

(2021) Wing Ki Wong et al.   mAbs

A computational method for immune repertoire mining that identifies novel binders from different clonotypes, demonstrated by identifying anti-pertussis toxoid antibodies

(2021) Eve Richardson et al.   mAbs

Memory B Cell Activation, Broad Anti-influenza Antibodies, and Bystander Activation Revealed by Single-Cell Transcriptomics

(2020) Felix Horns et al.   Cell Reports

Structural diversity of B-cell receptor repertoires along the B-cell differentiation axis in humans and mice

(2020) Aleksandr Kovaltsuk et al.   PLoS Computational Biology

Potent neutralizing antibodies from COVID-19 patients define multiple targets of vulnerability

(2020) Philip J. M. Brouwer et al.   SCIENCE

Immunoinformatics and Structural Analysis for Identification of Immunodominant Epitopes in SARS-CoV-2 as Potential Vaccine Targets

(2020) Sumit Mukherjee et al.   Vaccines

Commonality despite exceptional diversity in the baseline human antibody repertoire

(2019) Bryan Briney et al.   NATURE

Mosaic deletion patterns of the human antibody heavy chain gene locus shown by Bayesian haplotyping

(2019) Moriah Gidoni et al.   Nature Communications

Five computational developability guidelines for therapeutic antibody profiling

(2019) Matthew I. J. Raybould et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High frequency of shared clonotypes in human B cell receptor repertoires

(2019) Cinque Soto et al.   NATURE

The Pipeline Repertoire for Ig-Seq Analysis

(2019) Laura López-Santibáñez-Jácome et al.   Frontiers in Immunology

Thera-SAbDab: the Therapeutic Structural Antibody Database

(2019) Matthew I J Raybould et al.   NUCLEIC ACIDS RESEARCH

Deep Characterization of the Human Antibody Response to Natural Infection Using Longitudinal Immune Repertoire Sequencing

(2019) Erin M. Mitsunaga et al.   MOLECULAR & CELLULAR PROTEOMICS

High-Throughput Mapping of B Cell Receptor Sequences to Antigen Specificity

(2019) Ian Setliff et al.   CELL

More than one antibody of individual B cells revealed by single-cell immune profiling

(2019) Zhan Shi et al.   Cell Discovery

What’s happened over the last five years with high-throughput protein crystallization screening?

(2018) Yibin Lin   Expert Opinion on Drug Discovery

Observed Antibody Space: A Resource for Data Mining Next-Generation Sequencing of Antibody Repertoires

(2018) Aleksandr Kovaltsuk et al.   JOURNAL OF IMMUNOLOGY

Structurally Mapping Antibody Repertoires

(2018) Konrad Krawczyk et al.   Frontiers in Immunology

Single-Cell RNA Sequencing Reveals Expanded Clones of Islet Antigen-Reactive CD4+T Cells in Peripheral Blood of Subjects with Type 1 Diabetes

(2017) Karen Cerosaletti et al.   JOURNAL OF IMMUNOLOGY

Hierarchical Clustering Can Identify B Cell Clones with High Confidence in Ig Repertoire Sequencing Data

(2017) Namita T. Gupta et al.   JOURNAL OF IMMUNOLOGY

Learning the High-Dimensional Immunogenomic Features That Predict Public and Private Antibody Repertoires

(2017) Victor Greiff et al.   JOURNAL OF IMMUNOLOGY

Systems Analysis Reveals High Genetic and Antigen-Driven Predetermination of Antibody Repertoires throughout B Cell Development

(2017) Victor Greiff et al.   Cell Reports

How B-Cell Receptor Repertoire Sequencing Can Be Enriched with Structural Antibody Data

(2017) Aleksandr Kovaltsuk et al.   Frontiers in Immunology

ABodyBuilder: Automated antibody structure prediction with data–driven accuracy estimation

(2016) Jinwoo Leem et al.   mAbs

The analysis of clonal expansions in normal and autoimmune B cell repertoires

(2015) Uri Hershberg et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Practical guidelines for B-cell receptor repertoire sequencing analysis

(2015) Gur Yaari et al.   Genome Medicine

Analysis of B Cell Repertoire Dynamics Following Hepatitis B Vaccination in Humans, and Enrichment of Vaccine-specific Antibody Sequences

(2015) Jacob D. Galson et al.   EBioMedicine

High-Throughput Sequencing of Human Immunoglobulin Variable Regions with Subtype Identification

(2014) Merle Schanz et al.   PLoS One

High-resolution antibody dynamics of vaccine-induced immune responses

(2014) Uri Laserson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-throughput sequencing of the paired human immunoglobulin heavy and light chain repertoire

(2013) Brandon J DeKosky et al.   NATURE BIOTECHNOLOGY

SAbDab: the structural antibody database

(2013) James Dunbar et al.   NUCLEIC ACIDS RESEARCH

Mining the antibodyome for HIV-1-neutralizing antibodies with next-generation sequencing and phylogenetic pairing of heavy/light chains

(2013) J. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Predicting antibody complementarity determining region structures without classification

(2011) Yoonjoo Choi et al.   Molecular BioSystems

Focused Evolution of HIV-1 Neutralizing Antibodies Revealed by Structures and Deep Sequencing

(2011) X. Wu et al.   SCIENCE

A New Clustering of Antibody CDR Loop Conformations

(2010) Benjamin North et al.   JOURNAL OF MOLECULAR BIOLOGY

FREAD revisited: Accurate loop structure prediction using a database search algorithm

(2009) Yoonjoo Choi et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Structural classification of CDR-H3 revisited: A lesson in antibody modeling

(2008) Daisuke Kuroda et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS