There is a typographical error in Table 2. Table 2 reports averaged values of multiple CpG sites in the reported gene regions instead of the average of the single CpG site corresponding to the validated cg-probes. For instance, for cg19754622 in the STK32C gene region (S1 Dataset), the authors reported the average of the 6 CpG sites that were analyzed along with the CpG-site of interest (cg19754622 = CpG1). A similar switch of data for the other two gene regions is also present.
Table 2. Comparison of methylation differences between RA cases and controls in PBMC and saliva as assessed by Illumina 450K bead chips and bisulfite pyrosequencing.
| Assay | cg-probe | gene | Blood PBMC | Saliva | ||||
|---|---|---|---|---|---|---|---|---|
| Mean β (%) ±SD | Δβ (%) | Mean β (%) ±SD | Δβ (%) | |||||
| RA cases | Controls | RA cases | Controls | |||||
| 450K1 | cg19754622 | STK32C | 52.39 ± 5.3 | 72.17 ± 21.0 | -19.78* | 30.62 ± 13.0 | 64.82 ± 28.5 | -34.21* |
| cg08899523 | FGFR2 | 45.15 ± 10.5 | 58.47 ± 9.5 | -13.32* | 39.52 ± 15.2 | 59.81 ± 9.5 | -20.30* | |
| cg11965913 | PM20D1 | 55.24 ± 36.6 | 18.65 ± 17.6 | 36.58* | 62.63 ± 33.7 | 21.69 ± 20.4 | 40.94* | |
| pyroseq.2 | cg19754622 | STK32C | 52.00 ± 9.8 | 72.00 ± 18.6 | -20.00 | 25.20 ± 14.6 | 61.20 ± 27.8 | -36.00* |
| cg08899523 | FGFR2 | 39.80 ± 9.0 | 53.27 ± 11.4 | -13.47 | 31.20 ± 14.9 | 51.60 ± 13.2 | -20.40^ | |
| cg11965913 | PM20D1 | 59.00 ± 32.6 | 25.20 ± 24.3 | 33.80 | 64.70 ± 33.9 | 24.80 ± 21.5 | 39.90* | |
Statistics were performed: 1using M-values with Limma package, or 2Mann-Witney U test to study differences between RA cases and controls (*P≤0.05; ^P<0.1).
The statistical analyses were performed with the correct values, so this error does not affect the results or conclusions of this study. Please see the corrected Table 2 here.
Supporting information
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Reference
- 1.Langie SAS, Szarc vel Szic K, Declerck K, Traen S, Koppen G, Van Camp G, et al. (2016) Whole-Genome Saliva and Blood DNA Methylation Profiling in Individuals with a Respiratory Allergy. PLoS ONE 11(3): e0151109 doi:10.1371/journal.pone.0151109 [DOI] [PMC free article] [PubMed] [Google Scholar]
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