ExpoSeq: simplified analysis of high-throughput sequencing data from antibody discovery campaigns

Christoffer V Sørensen; Nils Hofmann; Puneet Rawat; Frederik V Sørensen; Anne Ljungars; Victor Greiff; Andreas H Laustsen; Timothy P Jenkins

doi:10.1093/bioadv/vbae020

ExpoSeq: simplified analysis of high-throughput sequencing data from antibody discovery campaigns

Bioinform Adv. 2024 Feb 10;4(1):vbae020. doi: 10.1093/bioadv/vbae020. eCollection 2024.

Authors

Christoffer V Sørensen¹, Nils Hofmann¹, Puneet Rawat², Frederik V Sørensen³, Anne Ljungars¹, Victor Greiff², Andreas H Laustsen¹, Timothy P Jenkins¹

Affiliations

¹ Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark.
² Department of Immunology, University of Oslo and Oslo University Hospital, NO-0316 Oslo, Norway.
³ Bornerups A/S, DK-7700 Thisted, Denmark.

Abstract

Summary: High-throughput sequencing (HTS) offers a modern, fast, and explorative solution to unveil the full potential of display techniques, like antibody phage display, in molecular biology. However, a significant challenge lies in the processing and analysis of such data. Furthermore, there is a notable absence of open-access user-friendly software tools that can be utilized by scientists lacking programming expertise. Here, we present ExpoSeq as an easy-to-use tool to explore, process, and visualize HTS data from antibody discovery campaigns like an expert while only requiring a beginner's knowledge.

Availability and implementation: The pipeline is distributed via GitHub and PyPI, and it can either be installed as a package with pip or the user can choose to clone the repository.