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Table 3 DMRs identified after cell type correction

From: High-specificity bioinformatics framework for epigenomic profiling of discordant twins reveals specific and shared markers for ACPA and ACPA-positive rheumatoid arthritis

DMR name Chromosome Start End nprobes FWER average FWER maximum FWER area Permuted p value Type
DMR1 Chr5 140582954 140584018 31 <0.01 <0.05 <0.005 0.06 TS1
DMR2 Chr11 74630937 74631216 7 <0.05 <0.01 <0.1 0. 03 TS1
DMR3 ChrX 51087402 51089195 32 <0.1 <0.1 <0.01 0. 03 TS1
DMR4 Chr14 54101669 54102157 6 <0.1 <0.1   0.03 TS1
DMR5 Chr2 85215637 85215811 6 <0.1    0.06 TS1
DMR6 Chr14 96038274 96038760 11   <0.01   0.06 TS1
DMR7 Chr9 4731364 4731640 6   <0.05   0.03 TS1
DMR8 Chr1 198645284 198645642 7   <0.1   0.03 TS1
DMR9 Chr1 116184060 116185215 33    <0.05 0.06 TS1
DMR10 Chr15 75897924 75898101 6   <0.05   0.01 TS1
DMR11 Chr2 171280327 171280711 10 <0.1    0.03 TS1
DMR12 Chr16 66835947 66836364 12   <0.05   0.09 TS1
DMR13 Chr13 113192663 113193262 8   <0.1   0.06 TS1
DMR14 Chr22 19603181 19604444 33    <0.1 0.06 TS1
DMR15 Chr17 41620864 41621503 16    <0.1 0.06 TS1
DMR16 Chr8 61353541 61354034 15    <0.1 0.06 TS1
DMR17 ChrX 113720992 113721797 22    <0.1 0.06 TS1
DMR18 Chr10 99200020 99200806 23 <0.05 <0.05 <0.005 <0.01 TS2
  1. DMRs (differentially methylated probes) identified after cell type correction in TS1 and TS2; the double criteria for selection is first a FWER <0.20 in at least one of the three statistics (italics) and secondly a permuted p value <0.1. “Start” and “End” denote the start and end location of the DMR in the chromosome. “nprobes” denotes the number of probes in the DMR. “FWER average”, “FWER maximum”, and “FWER area” denote the FWER associated with each one of the statistics used (see “Methods”). “Permuted p value” denotes the p value computed for each DMR locally, comparing each DMR statistic to random permutations of the samples. “Type” denotes if the DMR is associated with TS1 (ACPA/healthy discordant) or TS2 (ACPA-positive RA/healthy discordant). Bold highlights DMRs whose FWER was <0.005. Chromosomal locations are based on the hg18 build