The Crux Toolkit for Analysis of Bottom-Up Tandem Mass Spectrometry Proteomics Data.
Publication Title
Journal of proteome research
Document Type
Article
Publication Date
2-3-2023
Keywords
washington; isb; Software; Tandem Mass Spectrometry; Proteomics; Databases, Protein; Algorithms
Abstract
The Crux tandem mass spectrometry data analysis toolkit provides a collection of algorithms for analyzing bottom-up proteomics tandem mass spectrometry data. Many publications have described various individual components of Crux, but a comprehensive summary has not been published since 2014. The goal of this work is to summarize the functionality of Crux, focusing on developments since 2014. We begin with empirical results demonstrating our recently implemented speedups to the Tide search engine. Other new features include a new score function in Tide, two new confidence estimation procedures, as well as three new tools
Specialty/Research Institute
Institute for Systems Biology
DOI
10.1021/acs.jproteome.2c00615
