tag: proteoforms
3 posts, 1 project, 3 publicationsWriting about proteoforms from May 2020 to June 2026.
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ProteoForge is out in Journal of Proteome Research. What changed during review, what is still broken, and where the package is headed.
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The story behind ProteoForge, a framework for finding differential proteoforms in bottom-up proteomics data. Why protein-level averages hide biology, how missing data broke every tool we tried, and what we found when we applied it to a hypoxia dataset.
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reading
proDA
Probabilistic dropout analysis for label-free proteomics. Handles missing values by modeling dropout curves instead of imputing.