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Rapid Determination of Drug-to-Antibody Ratios in Antibody Drug Conjugates Using Ultrafast Microdroplet Digestion Technology

Accurate determination of drug to antibody ratios (DARs) is essential for the development, quality control, and performance evaluation of antibody drug conjugates (ADCs); yet conventional analytical approaches often require extensive sample preparation, long analysis time, and substantial sample consumption. The peak distribution of intact ADCs is highly complex due to inherent glycosylation heterogeneity and variable drug conjugation. By applying enzymatic digestion, ADC can be converted...

bioRxiv 5d ago

Antibody maturation increases rigidity in protein-contacting regions and flexibility at glycan interfaces

Antibody design is a challenging task that could be improved by understanding the conformational changes accompanying affinity maturation. Antibody maturation is a critical immune system process by which antibodies gain mutations that improve affinity and specificity for antigen targets. However, how these mutations change antibody dynamics, specifically whether antibodies become more rigid as they mature, remains a contested topic.

bioRxiv 10d ago

How the body creates reliable antibodies out of biological chaos

How the body creates reliable antibodies out of biological chaos Sadie Harley Scientific Editor Robert Egan Associate Editor A new study tracking thousands of B cells across more than 100 germinal centers in mice reveals how the system consistently produces highly effective antibodies. The findings overturn longstanding ideas about how germinal centers function, revealing that they are far more selective than once thought, and challenges the idea that antibody improvement is driven mainly by...

Phys.org 5d ago

EpiFormer: Learning Antigen-Antibody Interactions for Epitope Prediction via Geometric Deep Learning

arXiv:2606.04154v1 Announce Type: cross Abstract: Antibodies neutralize foreign antigens by binding to specific surface regions called epitopes. Computational epitope prediction is critical for understanding immune recognition and guiding antibody engineering. However, existing methods face three fundamental challenges: antibody-aware models encode each chain independently and combine them only at a late stage, failing to capture co-dependent structural features that define binding...

arXiv CS 6d ago

How much of Thermo Fisher's antibody data has been manipulated?

[ TL;DR: As of 3 June 2026, we have identified more than 450 images bearing signs of manipulation in verification data advertised by Thermo Fisher Scientific in its online primary antibodies catalog (+1 by Abcam). See the full repository of problematic images, curated by myself and Sholto David, here: Zenodo – Problematic images in vendor antibody verification data You are welcome to contribute new findings at this Google form.

Hacker News 2d ago

Exploring diverse routes to high-affinity-antibody variable domains through deep-sequencing-informed machine learning

The integration of in vitro selection, deep sequencing, and machine learning (ML) has recently been developed as a powerful strategy for discovering functional antibodies. However, how training data composition and ML search space design influence the identification of high-affinity variants remains unclear. Here, we aimed to optimize ML-integrated directed evolution for functional antibody discovery by selecting training data from deep sequencing analysis.

bioRxiv 9d ago

Characterization of expression elements for an AAV delivered antibody in nonhuman primates when co-delivered with PD-L1

Successful AAV-expressed antibody therapy for HIV-1 requires broadly neutralizing antibody (bNAbs) concentrations and reduced immune responses to sustain viral suppression without ART. We have previously demonstrated that co-delivery of AAV-expressed PD-L1 reduces immune responses against HIV-1 bNAbs in rhesus macaques. Here we systematically evaluated six AAV9 transgene cassettes encoding 10-1074 with different promoter/intron combinations (CMV, CMV/R, CBA, CASI, CB7, EF1a) across in vitro...

bioRxiv 11d ago

Anti-Melanoma Differentiation-Associated protein 5 Auto-Antibodies Promote a Profibrotic Phenotype in a Human Lung Fibroblast Cell Line

Anti-melanoma differentiation-associated protein 5 (anti-MDA5) autoantibodies identify a distinct dermatomyositis subset frequently associated with rapidly progressive interstitial lung disease (RP-ILD). While these antibodies are established disease markers, their direct contribution to pulmonary fibrosis is poorly defined. This study investigated the pathogenic effects of patient-derived polyclonal anti-MDA5 antibodies on IMR-90 human lung fibroblasts.

bioRxiv 9d ago

A phage display library to dissect antibody responses to human coronavirus spike proteins

Coronaviruses are widespread human pathogens with demonstrated pandemic potential. We developed a phage immunoprecipitation sequencing (PhIP-Seq) library, C-Spike, enabling the profiling of serum antibody responses to coronavirus spike proteins. The C-Spike library includes peptides from 49 Alpha- and Betacoronavirus spike proteins, including pandemic coronaviruses (SARS-CoV-1, SARS-CoV-2, MERS-CoV), seasonal coronaviruses (HKU1, OC43, 229E, NL63), and selected animal coronaviruses of...

bioRxiv 5d ago

CHIMERA-Bench: A Benchmark Dataset for Epitope-Specific Antibody Design

arXiv:2603.13431v3 Announce Type: replace Abstract: Computational antibody design has seen rapid methodological progress, with dozens of deep generative methods proposed in the past three years, yet the field lacks a standardized benchmark for fair comparison and model development. These methods are evaluated on different SAbDab snapshots, non-overlapping test sets, and incompatible metrics, and the literature fragments the design problem into numerous sub-tasks with no common definition. We...

arXiv CS 1d ago