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  4. High-throughput cell-free profiling of SARS-CoV-2 RBD variants enables rapid and quantitative in vitro affinity landscape mapping
 
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High-throughput cell-free profiling of SARS-CoV-2 RBD variants enables rapid and quantitative in vitro affinity landscape mapping

Grasemann, Laura  
•
Han, Jiami
•
Tischler, Julia  
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September 23, 2025

SARS-CoV-2 variants continue to threaten public health, necessitating the study of cumulative and epistatic effects of receptor-binding domain (RBD) mutations on antibody evasion. We present a high-throughput platform combining cell-free protein synthesis and microfluidics to quantify the affinity of a large number of RBD triplet mutants covering the evolutionary space between wild-type and Omicron against two therapeutic antibodies and one engineered binder. Using rapid in vitro gene assembly and cell-free synthesis, we expressed 518 RBD variants and obtained 31,740 quantitative affinity measurements to generate three comprehensive binding energy landscapes. This approach enables rapid and large-scale in vitro affinity profiling and machine learning-based predictions, providing a valuable tool for studying emerging variants.

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Name

10.1101_2025.09.23.678000.pdf

Type

Main Document

Version

Submitted version (Preprint)

Access type

openaccess

License Condition

CC BY

Size

2.4 MB

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Adobe PDF

Checksum (MD5)

c9e6479be54f58a8143f176d2d2a0f69

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