Jonas Giese

Jul 31, 2023 | onlinelibrary.wiley.com | Jonas Giese |Dirk M Walther |Youjun Zhang |Jürgen Eirich

MS data analysis MS raw data were analyzed using MaxQuant (MQ) software package (v 1.6.3.4, www.maxquant.org) (Tyanova, Temu, & Cox, 2016), and searched against the Araport11 database (v2016/06, www.bar.utoronto.ca/thalemine) and a list of common contaminants and a reverse decoy database was included. All raw files from the dimethyl-labeling experiment including proteome, acetylome, and phosphoproteome were searched within one run using different parameter groups and separated fractions.