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. Author manuscript; available in PMC: 2021 Feb 10.
Published in final edited form as: J Proteomics. 2019 Nov 21;212:103595. doi: 10.1016/j.jprot.2019.103595

Table 1.

Comparison of large-scale AP-MS C. trachomatis L2 studies

Experimental
procedure		 Source of data used in this
study		 Statistical test
used for data
analysis		 Statistical
significance
cut-off
reported		 Statistically
significant
proteins#
Strep-Tag® AP-MSa Table S1; "prey.entry.name" column CompPASS and MiST Top 1% ComPASS; MiST ≥ 0.7 335 (N=3)
Inclusion-MSb Table S1; “Protein ID” column SILAC/Two-sided Wilcoxon test with Benjamini-Hochberg p≤ 0.05 352 (N=3)
IncB-APEX2 c S1 Table; Complete proteomic data G-test and T-test p≤ 0.05 399 (N=6)
IncF-APEX2, IncA-APEX2, IncATM-APEX2d Table 1, Table S1. Significant C. trachomatis L2 proteins; Table S2. statistically significant eukaryotic proteins Significance Analysis of INTeractome (SAINT) BFDR ≤ 0.05 199 (N=5)
#

The statistically significant proteins at 24 hpi for all but the Strep-tag experiments by Mirrashidi et al. which transiently transfected (uninfected) HEK293T cells

a

Mirrashidi et al.; 331 protein entries reported by Mirrashidi et al. mapped to 335 proteins (Uniprot)

b

Aeberhard et al.; 350 protein entries reported by Aeberhard et al. mapped to 352 proteins (Uniprot)

c

Dickinson et al.; 396 protein entries reported by Dickinson et al. mapped to 399 proteins (Uniprot)

d

Olson et al.; 199 unique protein entries combined using each IncF-APEX2, IncA-APEX2, and IncATM-APEX2