Reanalysis dataset of JPST000087

Proteome analyses of human dermal fibroblasts (HDF1388) was performed using a two-meter-long monolithic silica C18 capillary columns without prefractionation by TripleTOF5600.
For this reanalysis, MS Datasets were processed for peak picking with ProteinPilot 5.0 rev.4769, and the generated peak lists were searched against human entries of UniProt/Swiss-Prot release 2018_10 using three search engines: ProteinPilot 5.0 rev.4769, X!Tandem v2015.04.01.1, and Comet 2015.02 rev. 0. The decoy database was generated by reversing sequences from the database. Then, the sum of the total number of matched b/y ions and the total number of amino acids comprising the peptide sequence tag were counted to score the reliability of peptide identification independent of these search engines. Finally, the 1% false discovery rate was controlled by the target-decoy approach with this score.