The paper quantifies urinary proteome differences between Black and White prostate cancer patients, finding immune pathway dysregulation and aggressive cancer features in Black patients after controlling for age, PSA, and cISUP.

JNCI Journal of the National Cancer Institute · Sep 11, 2026Peer-reviewedCancer Biology

Identification of non-canonical peptides with moPepGen

Chenghao Zhu, Lydia Liu, Annie Ha, Takafumi N. Yamaguchi, Helen He Zhu, Rupert Hugh-White, Julie M. Livingstone, Yash Patel, Thomas Kislinger, Paul Christopher Boutros

moPepGen identifies non-canonical peptides from genetic and transcriptomic data across species and technologies by generating them in linear time.

Nature Biotechnology · Jun 16, 2025Peer-reviewedBioinformatics

Parallel accumulation - serial fragmentation combined with data-independent acquisition (diaPASEF): Bottom-up proteomics with near optimal ion usage

Florian Meier, Andreas‐David Brunner, Max Frank, Annie Ha, Isabell Bludau, Eugenia Voytik, Stephanie Kaspar‐Schoenefeld, Markus Lubeck, Oliver Raether, Ruedi H. Aebersold, Ben C. Collins, Hannes Luc Röst, Matthias Mann

The paper introduces a new DIA scan mode that improves peptide precursor ion sampling and identification specificity using ion mobility, achieving high proteome coverage and accuracy.

bioRxiv · Mar 11, 2020 · PreprintSystems Biology