Comprehensive identification of peptides in tandem mass spectra using an efficient open search engine

By Hao Chi, Chao Liu, Hao Yang, Wen-feng Zeng, Long Wu, Wen-Jing Zhou, Rui-Min Wang, X. Niu, Yue-He Ding, Yao Zhang and 9 more. Nature Biotechnology, 2018

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We present a sequence-tag-based search engine, Open-pFind, to identify peptides in an ultra-large search space that includes coeluting peptides, unexpected modifications and digestions. Our method detects peptides with higher precision and speed than seven other search engines. Open-pFind identified 70–85% of the tandem mass spectra in four large-scale datasets and 14,064 proteins, each supported by at least two protein-unique peptides, in a human proteome dataset.

Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/0d46a55fecc90dd174df2482167243333c3258ad