InstaNexus

post-processor · Sequence assembly

InstaNexus: post-processor · Sequence assembly. End-to-end workflow for reference-free sequencing of full-length protein therapeutics. Multi-protease digestion yields overlapping peptides, InstaNovo sequences them de…

End-to-end workflow for reference-free sequencing of full-length protein therapeutics. Multi-protease digestion yields overlapping peptides, InstaNovo sequences them de novo and Winnow rescores, then greedy overlap or de Bruijn graph assembly (default k=7, min overlap 3) reconstructs contigs ranked by a composite score over coverage, N50, scaffold count and identity. Validated on nanobodies, monoclonal antibodies and de novo mini-binders.

Kind	post-processor
Family	Sequence assembly
Deep learning	no
Acquisition	DDA

Code

• https://github.com/Multiomics-Analytics-Group/InstaNexus

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Papers

• Generalizable Direct Protein Sequencing With InstaNexus (2026, Molecular & Cellular Proteomics, peer-reviewed)
• Generalizable direct protein sequencing with InstaNexus (2025, bioRxiv, preprint)

Authors (15)

Marco Reverenna, Maike Wennekers Nielsen, Darian Stephan Wolff, Elpida Lytra, Pasquale D. Colaianni, Anne Ljungars, Andreas Hougaard Laustsen, Erwin M. Schoof, Jeroen Van Goey, Timothy P. Jenkins, Marie V. Lukassen, Alberto Santos, Konstantinos Kalogeropoulos, Jemma Daniel, Suthimon Thumtecho

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