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CpG interval report generated on 20/05/20 with pycoMeth 0.4.6
Interval details
| pvalue rank | chromosome | start | end | length | number of samples | number of CpGs | pvalue | adjusted pvalue |
|---|---|---|---|---|---|---|---|---|
| #112 | 10 | 92690986 | 92692269 | 1283 | 3 | 38 | 4.1753e-17 | 3.70744e-15 |
Methylation log-likelihood ratio by CpG position
Distribution of CpG methylation log-likelihood ratio by sample
Closest transcripts TSS
| distance to tss | transcript id | gene id | transcript name | chromosome | start | end | strand | feature type | transcript biotype |
|---|---|---|---|---|---|---|---|---|---|
| 0 | enst00000492654 | sg00000152804 | hhex-203 | 10 | 92692032 | 92694788 | + | mRNA | protein_coding |
| 0 | enst00000472590 | sg00000152804 | hhex-202 | 10 | 92691820 | 92695641 | + | mRNA | protein_coding |
| -1031 | enst00000551454 | sg00000152804 | hhex-204 | 10 | 92689955 | 92692483 | + | lnc_RNA | retained_intron |
| -1031 | enst00000282728 | sg00000152804 | hhex-201 | 10 | 92689955 | 92695647 | + | mRNA | protein_coding |
| 18339 | enst00000364542 | sg00000201412 | al590080.1-201 | 10 | 92710499 | 92710608 | - | ncRNA | misc_rna |
| -21243 | enst00000428356 | sg00000236493 | eif2s2p3-201 | 10 | 92668745 | 92669743 | - | pseudogenic_transcript | processed_pseudogene |
| -31942 | enst00000577919 | sg00000264313 | rn7sl644p-201 | 10 | 92659044 | 92659302 | + | ncRNA | misc_rna |
| -93699 | enst00000332269 | sg00000184111 | rpl11p4-201 | 10 | 92596852 | 92597287 | - | pseudogenic_transcript | processed_pseudogene |
| -97856 | enst00000260731 | sg00000138160 | kif11-201 | 10 | 92593130 | 92655395 | + | mRNA | protein_coding |
| -116893 | enst00000265986 | sg00000119912 | ide-201 | 10 | 92451684 | 92574093 | - | mRNA | protein_coding |
| -116910 | enst00000650060 | sg00000119912 | ide-209 | 10 | 92451684 | 92574076 | - | mRNA | protein_coding |
| -116919 | enst00000478361 | sg00000119912 | ide-206 | 10 | 92474472 | 92574067 | - | mRNA | nonsense_mediated_decay |
| 134562 | enst00000671701 | sg00000138190 | exoc6-208 | 10 | 92826831 | 93059493 | + | mRNA | protein_coding |
| 138909 | enst00000672817 | sg00000138190 | exoc6-209 | 10 | 92831178 | 93058590 | + | mRNA | protein_coding |
| 142444 | enst00000371552 | sg00000138190 | exoc6-203 | 10 | 92834713 | 93059493 | + | mRNA | protein_coding |
| -149633 | enst00000436178 | sg00000119912 | ide-203 | 10 | 92510133 | 92541353 | - | mRNA | protein_coding |
| 156199 | enst00000443748 | sg00000138190 | exoc6-204 | 10 | 92848468 | 93059493 | + | mRNA | protein_coding |
| 156216 | enst00000371543 | sg00000138190 | exoc6-202 | 10 | 92848485 | 92901851 | + | mRNA | protein_coding |
| 156251 | enst00000260762 | sg00000138190 | exoc6-201 | 10 | 92848520 | 93059490 | + | mRNA | protein_coding |
| 186020 | enst00000447000 | sg00000225118 | al392103.1-201 | 10 | 92878092 | 92878289 | - | pseudogenic_transcript | processed_pseudogene |
| -193225 | enst00000371581 | sg00000119912 | ide-202 | 10 | 92451684 | 92497761 | - | mRNA | protein_coding |
| -193237 | enst00000492362 | sg00000119912 | ide-207 | 10 | 92480557 | 92497749 | - | lnc_RNA | retained_intron |
| -193253 | enst00000496903 | sg00000119912 | ide-208 | 10 | 92454269 | 92497733 | - | lnc_RNA | processed_transcript |
| -211251 | enst00000462988 | sg00000119912 | ide-204 | 10 | 92475972 | 92479735 | - | lnc_RNA | retained_intron |
| -211399 | enst00000463640 | sg00000119912 | ide-205 | 10 | 92475945 | 92479587 | - | lnc_RNA | retained_intron |
| 217215 | enst00000497262 | sg00000138190 | exoc6-207 | 10 | 92909484 | 92916030 | + | lnc_RNA | processed_transcript |
| 236105 | enst00000495132 | sg00000138190 | exoc6-206 | 10 | 92928374 | 93058524 | + | mRNA | nonsense_mediated_decay |
| -267600 | enst00000656662 | sg00000286795 | al161652.1-201 | 10 | 92423386 | 92427620 | + | lnc_RNA | lncrna |
| -272319 | enst00000430958 | sg00000232709 | mark2p9-201 | 10 | 92418667 | 92420875 | + | pseudogenic_transcript | processed_pseudogene |
| 305205 | enst00000458552 | sg00000138190 | exoc6-205 | 10 | 92997474 | 93014267 | + | mRNA | protein_coding |
| -341505 | enst00000492319 | sg00000198060 | marchf5-204 | 10 | 92349481 | 92350298 | + | lnc_RNA | processed_transcript |
| -356523 | enst00000365427 | sg00000202297 | rny3p12-201 | 10 | 92334463 | 92334564 | + | ncRNA | misc_rna |
| -357479 | enst00000462465 | sg00000198060 | marchf5-202 | 10 | 92333507 | 92349423 | + | lnc_RNA | processed_transcript |
| 368157 | enst00000444965 | sg00000226425 | al358613.1-201 | 10 | 93059663 | 93060426 | - | lnc_RNA | lncrna |
| 368529 | enst00000651965 | sg00000187553 | cyp26c1-202 | 10 | 93060798 | 93069540 | + | mRNA | protein_coding |
| 368539 | enst00000624358 | sg00000187553 | cyp26c1-201 | 10 | 93060808 | 93069536 | + | mRNA | nonsense_mediated_decay |
| 371377 | enst00000648258 | sg00000285846 | al358613.3-201 | 10 | 93063646 | 93077424 | + | lnc_RNA | lncrna |
| 379703 | enst00000624651 | sg00000279607 | al358613.2-201 | 10 | 93071972 | 93073466 | + | lnc_RNA | lncrna |
| 381206 | enst00000371531 | sg00000095596 | cyp26a1-202 | 10 | 93073475 | 93077884 | + | mRNA | protein_coding |
| 381624 | enst00000224356 | sg00000095596 | cyp26a1-201 | 10 | 93073893 | 93077885 | + | mRNA | protein_coding |
| 381809 | enst00000622925 | sg00000095596 | cyp26a1-203 | 10 | 93074078 | 93075275 | + | lnc_RNA | retained_intron |
| 382043 | enst00000624589 | sg00000095596 | cyp26a1-205 | 10 | 93074312 | 93077479 | + | mRNA | nonsense_mediated_decay |
| -382508 | enst00000467521 | sg00000198060 | marchf5-203 | 10 | 92308478 | 92349775 | + | lnc_RNA | processed_transcript |
| 383360 | enst00000623162 | sg00000095596 | cyp26a1-204 | 10 | 93075629 | 93077319 | + | lnc_RNA | retained_intron |
| 384064 | enst00000625202 | sg00000095596 | cyp26a1-206 | 10 | 93076333 | 93077082 | + | lnc_RNA | retained_intron |
| -399819 | enst00000358935 | sg00000198060 | marchf5-201 | 10 | 92291167 | 92353964 | + | mRNA | protein_coding |
| -399908 | enst00000265997 | sg00000107864 | cpeb3-201 | 10 | 92046692 | 92291078 | - | mRNA | protein_coding |
| 415114 | enst00000433227 | sg00000232805 | nip7p1-201 | 10 | 93106872 | 93107383 | - | pseudogenic_transcript | processed_pseudogene |
| -418736 | enst00000363011 | sg00000199881 | al158040.1-201 | 10 | 92272147 | 92272250 | - | ncRNA | misc_rna |
| -447707 | enst00000614585 | sg00000107864 | cpeb3-203 | 10 | 92048642 | 92243279 | - | mRNA | protein_coding |
| -447740 | enst00000412050 | sg00000107864 | cpeb3-202 | 10 | 92046692 | 92243246 | - | mRNA | protein_coding |
| -474654 | enst00000335274 | sg00000105988 | nhp2p1-201 | 10 | 92216332 | 92216793 | + | pseudogenic_transcript | processed_pseudogene |
| -486680 | enst00000408115 | sg00000221042 | al158040.2-201 | 10 | 92204229 | 92204306 | - | lnc_RNA | ribozyme |
Source file: /hps/research1/birney/users/adrien/analyses/cancer_DNA_promethion/run_1_2_3_4/DNA_pipeline_2/results/methylation/pycometh_meth_comp_CGI_3/out.tsv.gz
MD5 hash: 9aa0e3f69cb4e12345c3758eb68a5efc