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. Author manuscript; available in PMC: 2021 Apr 3.
Published in final edited form as: J Proteome Res. 2020 Feb 27;19(4):1635–1646. doi: 10.1021/acs.jproteome.9b00840

Table 2.

Number of SAAVs Identified Using Three Different Searching Algorithmsa

SEQUEST algorithm against Swiss-CanSAAVs database MetaMorpheus against RNA-seq database Mascot algorithm and SAVControl
samples proteins with SAAVs peptides with SAAVs proteins with SAAVs peptides with SAAVs proteins with SAAVs peptides with SAAVs
sets 1–5 293 326 171 190 158 172
sets 6–7 118 123 58 64 14 15
sets 8–13 113 123 71 77 50 53
total 382 197 165
percentage of all SAAVs (%) 78.1 40.9 34.2
a

SEQUEST algorithm in software Proteome Discoverer (PD) 1.4 against Swiss-CanSAAVs database, MetaMorpheus against the customized RNA-seq database, and Mascot algorithm coupled with SAVControl quality control.