Biology subjects

Kang, U.-B.

Publications and source records attributed to Kang, U.-B..

2 recordsLinked to original sources

bioRxiv2026

msmu: a Python toolkit for modular and traceable LC-MS proteomics data analysis based on MuData

Computational workflows for MS-based proteomics remain comparatively fragmented, with heterogeneous data formats and analysis pipelines that hinder their reproducibility, interoperability, and reuse of processed data. We present msmu, an open-source Python package that implements a flexible and reproducible end-to-end pipeline for post-search data preprocessing and statistical analysis. At its core, msmu leverages the highly structured MuData format, empowering comprehensive data provenance, transparency in data sharing and reuse, and interoperability with broader Python ecosystem. Together, msmu represents a unique and significant step toward realizing the FAIR (Findable, Accessible, Interoperable, and Reusable) principles in computational proteomics.

bioinformatics↗

bioRxiv2026

DelPi Learns Generalizable Peptide-Signal Correspondence for Mass Spectrometry-Based Proteomics

Peptide identification in mass spectrometry-based proteomics has traditionally relied on handcrafted features or simplified probabilistic approaches that limit the interpretation of structured peptide evidence. We present DelPi, an open-source peptide identification framework that learns generalizable peptide-signal correspondence from raw spectra through self-supervised pre-training followed by task-specific fine-tuning. With model distillation enabling practical deployment, DelPi expands the interpretation of peptide evidence across data-independent and data-dependent acquisition while maintaining robust false discovery control.

bioinformatics↗