Spectronaut 20: DIA Proteomics Analysis Software

Spectronaut 20 is Biognosys' flagship software for data-independent acquisition (DIA) proteomics analysis, launched at ASMS 2025 . It features the new Kuiper search engine for unspecific searches and delivers up to 80% more peptide identifications in immunopeptidomics workflows .

Key New Features in Version 20

Kuiper Search Engine

• Novel Search Engine: Tailor-made for unspecific search spaces in proteomics, particularly immunopeptidomics

• Up to 80% more identifications: For HLA class I workflows compared to previous versions

• 70% faster search time: For unspecific searches while maintaining accuracy

Performance Improvements

• directDIA Runtime Improvements: Accelerated library-free DIA processing

• Enhanced timsTOF Accuracy: Ion-mobility sensitive algorithms for better quantitative precision

• Improved Protein Identification: +4% average increase across timsTOF and Orbitrap Astral datasets (v20.2)

Expanded Capabilities

• Linux & Cloud Support: Full compatibility for HPC and cloud environments

• Bruker ProteoScape Integration: Available on ProteoScape platform

• New Modifications: Added Lactylation to modification repository (v20.3)

FDR & Quality Control

• Expanded FDR Options: Improved run-level protein FDR control in mixed workflows

• Enhanced QC Tools: Better traceability and validation options

Immunopeptidomics Focus

• Class I & Class II peptides: ~75% more class I identifications, ~20% more class II identifications

• No HLA prior knowledge required: Novel library-free DIA pipeline works without HLA allele information

• High biological relevance: >90% identified peptides predicted as strong binders