Koos Boeve

159 Methylation biomarkers for the detection of tumor DNA in saliva SUPPLEMENTARY DATA Supplementary data 1. OSCC hypermethylation markers selected with MethylCap-Seq data. All 335 Methylation Cores (MCs) with a p-value < 0.05 between the 5000 highest ranked MCs in OSCC compared to the 2276 MCs available in the MethylCap-Seq data of the two leukocyte pools by Mann- Whitney-U using R and the wilcox.test function. The final seven MCs representing six genes with a 100% positive and negative predictive value defined by ≤2 reads in both leukocytes pools as well as ≥3 reads in all 12 OSCC are highlighted in bold and underlined. Gene name Chromosome locus Gene regio start (GSE42409) Gene regio end (GSE42409) p-value (Mann- Whitney U test) Number of reads OSCC patient 1 OSCC patient 2 OSCC patient 3 OSCC patient 4 OSCC patient 5 OSCC patient 6 OSCC patient 7 OSCC patient 8 OSCC patient 9 OSCC patient 10 OSCC patient 11 OSCC patient 12 Leukocyte pool 1 Leukocyte pool 2 NUDT14 14 105649604 105650313 0.000 7 9 10 8 8 5 6 9 11 6 10 9 14 14 AC012074.3 2 25595094 25595647 0.000 9 9 9 5 9 10 6 13 9 8 10 10 14 14 PIGQ 16 614601 615239 0.000 5 9 9 11 2 4 8 5 9 9 14 7 15 15 AC021021.1 2 6635378 6635815 0.000 8 6 7 8 6 6 14 9 10 9 12 8 14 14 KCNA5 12 5153088 5153505 0.000 6 4 11 6 5 10 12 11 7 6 10 3 1 1 RAPSN 11 47470539 47471210 0.000 7 7 8 12 7 10 8 14 7 10 11 8 14 14 RP11-56M3.1 10 92913015 92913355 0.000 9 10 7 10 5 7 7 13 9 8 10 9 13 13 KIF22 16 29800874 29801501 0.000 3 8 5 8 6 9 11 5 6 10 9 7 12 12 AC007272.7 2 201963822 201964264 0.000 4 7 7 6 6 4 7 9 6 6 10 6 10 10 AL359844.1 10 70782804 70783197 0.000 5 12 10 6 4 6 9 13 9 6 11 8 14 14 NAT12 14 57855731 57856072 0.000 8 9 9 6 5 6 7 12 8 10 8 6 4 4 EIF2S2 20 32702015 32702335 0.000 6 10 8 6 9 9 14 15 8 9 11 4 3 3 ACTBP11 1 224052444 224052660 0.000 6 10 9 4 5 11 9 13 12 4 14 1 17 16 PTPRS 19 5341427 5341949 0.000 7 9 5 7 5 5 14 5 7 7 8 8 12 12 AC017104.4 2 232254143 232254467 0.000 5 12 9 10 3 11 12 11 10 5 13 7 15 15 TBX4 17 59531961 59532563 0.000 5 13 7 5 4 9 13 9 11 4 12 4 1 0 PABPCP2 2 147344801 147345449 0.000 8 13 9 10 9 4 13 15 8 9 10 7 15 15 AC113607.1 2 905373 905826 0.000 3 10 17 10 10 5 11 18 16 3 10 10 20 19 TH 11 2192576 2193202 0.000 5 11 6 12 8 2 7 15 4 5 13 5 15 15 SIPA1 11 65408027 65408751 0.000 6 9 13 7 4 10 16 9 14 3 9 7 2 1 GPR39 2 133174634 133175088 0.000 9 14 8 5 4 5 17 5 9 4 17 5 17 17 ING5 2 242665670 242666172 0.000 3 10 2 9 6 8 13 9 7 5 13 5 14 15 C11orf85 11 64739412 64739716 0.000 9 8 9 6 4 7 15 11 8 4 11 3 2 2 AC011530.1 19 46318069 46318747 0.000 6 10 12 9 9 3 13 11 10 3 11 5 3 3 AL139130.1 1 156357691 156358065 0.000 11 8 8 3 1 8 16 10 13 4 8 4 1 0 MUC2 11 1075204 1076015 0.000 4 13 7 7 7 10 8 17 7 8 17 10 16 16 SLC22A20 11 64981227 64981938 0.000 4 8 10 9 8 9 17 12 7 5 13 4 3 3 AP001476.3 21 47457079 47457365 0.000 3 10 6 9 5 7 13 11 7 6 16 4 14 15 C3orf24 3 10149532 10150224 0.000 5 10 7 8 6 11 10 10 15 6 10 7 13 13 AL031296.2 1 12587915 12588225 0.000 7 11 7 5 5 5 12 11 4 3 11 6 12 12 CENPB 20 3765976 3766968 0.000 5 13 7 12 5 12 6 14 9 9 15 4 15 15 CMTM2 16 66613072 66613394 0.000 6 12 5 3 4 10 13 8 10 4 12 4 1 2 ODF3 11 195013 195431 0.000 5 12 8 7 7 7 10 9 9 7 10 6 11 11