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arXiv · 2407.06052

Protein-environment-sensitive computational epitope accessibility analysis from antibody dose-response data

Dominik Tschimmel·Momina Saeed·Maria Milani·Steffen Waldherr·Tim Hucho
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Abstract

Antibodies are widely used in life-sciences and medical therapy. Yet, broadly applicable methods are missing to determine, in the biological system of choice, antibody specificity and its quantitative contribution to e.g. immunofluorescence stainings. Thereby, antibody-based data often needs to be seen with caution. Here, we present a simple-to-use approach to characterize and quantify antibody binding properties directly in the system of choice. We determine an epitope accessibility distribution in the system of interest based on a computational analysis of antibody-dilution immunofluorescence stainings. This allows the selection of specific antibodies, the choice of a dilution to maximize signal-specificity, and an improvement of signal quantification. It further expands the scope of antibody-based imaging to detect changes of the subcellular nano-environment and allows for antibody multiplexing.

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Dominik Tschimmel, Momina Saeed, Maria Milani, Steffen Waldherr, Tim Hucho. 2024-07-08. Protein-environment-sensitive computational epitope accessibility analysis from antibody dose-response data. https://arxiv.org/abs/2407.06052

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