Fig. 3: Benchmarking the linker reagents DSSO, DSBU, CDI and DSBSO. | Nature Communications

Fig. 3: Benchmarking the linker reagents DSSO, DSBU, CDI and DSBSO.

From: Mimicked synthetic ribosomal protein complex for benchmarking crosslinking mass spectrometry workflows

Fig. 3: Benchmarking the linker reagents DSSO, DSBU, CDI and DSBSO.

Average number of unique crosslink IDs after acquisition using a stepped HCD MS2 strategy and maximal theoretical number of true link combinations when applying the indicated crosslinkers to the main library (A) or the enrichable library (C) and data analysis using MS Annika at 1% estimated FDR. The experimentally validated FDR is shown as callout, error-bars indicate standard deviations of average values, n = 3 independent samples acquired on different days, unpaired Student’s t test, two tailed, α = 0.05, * P < 0.05, n.s. = not significant. Obtained P values: DSSO vs DSBSO: 0.1947, DSBSO vs CDI: < 0.0001, DSSO vs DSBSO: 0.2149 (B and D) Overlap of identified links from one representative replicate of (A) (in B) or (C) (in D) respectively. Source data are provided as a Source Data file.

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