DIALib-QC an assessment tool for spectral libraries in data-independent acquisition proteomics.

Publication Title

Nat Commun

Authors

Mukul K Midha, Institute for Systems Biology , Seattle , Washington 98008 , United StatesFollow
David S Campbell, Institute for Systems Biology, Seattle, Washington 98109, USA.Follow
Charu Kapil, Institute for Systems Biology, Seattle, WA, 98109, USA.
Ulrike Kusebauch, Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA.Follow
Michael R Hoopmann, Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA.Follow
Samuel L Bader, Institute for Systems Biology, Seattle, WA, 98109, USA.
Robert L Moritz, Institute for Systems Biology, Seattle, Washington, United States of America.Follow

Document Type

Article

Publication Date

10-16-2020

Abstract

Data-independent acquisition (DIA) mass spectrometry, also known as Sequential Window Acquisition of all Theoretical Mass Spectra (SWATH), is a popular label-free proteomics strategy to comprehensively quantify peptides/proteins utilizing mass spectral libraries to decipher inherently multiplexed spectra collected linearly across a mass range. Although there are many spectral libraries produced worldwide, the quality control of these libraries is lacking. We present the DIALib-QC (DIA library quality control) software tool for the systematic evaluation of a library's characteristics, completeness and correctness across 62 parameters of compliance, and further provide the option to improve its quality. We demonstrate its utility in assessing and repairing spectral libraries for correctness, accuracy and sensitivity.

Specialty/Research Institute

Institute for Systems Biology