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ALL Methylation Supplementary Table 5B

Correlation between upregulated and hypermethylated genes.

The first 8 data rows of the table represent data for genes downregulated in each subgroup of ALL (e.g. CRLF2, ETV6-RUNX1 etc) compared to the comparison group (e.g. non-CRLF2r B-ALL, or non-ETV6-RUNX1 ALL).

The second 8 rows show data for genes upregulated in the comparison group compared to each specific subtype. Significant Fisher P values are highlighted in pink.

Upregulated, hypermethylated (A) Upregulated FDR<0.1 and hypermethylated FDR<0.1 (B) Upregulated FDR>0.1 and hypermethylated FDR<0.1 (C) Upregulated FDR<0.1 and hypermethylated FDR>0.1 (D) Upregulated FDR>0.1 and hypermethylated FDR>0.1 Fisher P Fraction of all hypermethylated genes that are upregulated (A/A+B) Fraction of all upregulated genes that are hypermethylated (A/A+C)
CRLF2r vs nonCRLF2r_B 0 52 15 12857 1 0 0
ETV6 vs nonETV6_B 209 1359 1771 9585 0.02 0.13 0.11
Hyper vs nonHyper_B 817 5692 1062 5353 1.14E-10 0.13 0.43
MLLr vs nonMLLr_B 222 1710 1369 9623 0.24 0.11 0.14
ERGr vs nonERGr_B 130 1275 1150 10369 0.42 0.09 0.1
BCRABL1 vs nonBCRABL1_B 141 1742 965 10076 0.07 0.07 0.13
TCF3 vs nonTCF3_B 28 234 1361 11301 1 0.11 0.02
T-ALL v B-ALL 490 2329 2063 8042 0.003 0.17 0.19
               
nonCRLF2r_B vs CRLF2r 0 58 17 12849 1 0 0
nonETV6_B vs ETV6 397 2649 1398 8480 0.12 0.13 0.22
nonHyper_B vs Hyper 455 2361 1876 8232 0.003 0.16 0.2
nonMLLr_B vs MLLr 291 3140 866 8627 0.26 0.08 0.25
nonERGr_B vs ERGr 116 1185 1117 10506 0.46 0.09 0.09
nonBCRABL1_B vs BCRABL1 243 2480 921 9280 0.88 0.09 0.21
nonTCF3_B vs TCF3 37 150 2049 10688 0.19 0.2 0.02
B-ALL v T-ALL 530 4351 1347 6696 8.81E-21 0.11 0.28