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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 |
|---|---|---|---|---|---|---|---|---|
| #75 | 10 | 93059948 | 93061756 | 1808 | 3 | 53 | 2.02832e-19 | 2.65417e-17 |
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 | enst00000624358 | sg00000187553 | cyp26c1-201 | 10 | 93060808 | 93069536 | + | mRNA | nonsense_mediated_decay |
| 0 | enst00000651965 | sg00000187553 | cyp26c1-202 | 10 | 93060798 | 93069540 | + | mRNA | protein_coding |
| 0 | enst00000444965 | sg00000226425 | al358613.1-201 | 10 | 93059663 | 93060426 | - | lnc_RNA | lncrna |
| 1890 | enst00000648258 | sg00000285846 | al358613.3-201 | 10 | 93063646 | 93077424 | + | lnc_RNA | lncrna |
| 10216 | enst00000624651 | sg00000279607 | al358613.2-201 | 10 | 93071972 | 93073466 | + | lnc_RNA | lncrna |
| 11719 | enst00000371531 | sg00000095596 | cyp26a1-202 | 10 | 93073475 | 93077884 | + | mRNA | protein_coding |
| 12137 | enst00000224356 | sg00000095596 | cyp26a1-201 | 10 | 93073893 | 93077885 | + | mRNA | protein_coding |
| 12322 | enst00000622925 | sg00000095596 | cyp26a1-203 | 10 | 93074078 | 93075275 | + | lnc_RNA | retained_intron |
| 12556 | enst00000624589 | sg00000095596 | cyp26a1-205 | 10 | 93074312 | 93077479 | + | mRNA | nonsense_mediated_decay |
| 13873 | enst00000623162 | sg00000095596 | cyp26a1-204 | 10 | 93075629 | 93077319 | + | lnc_RNA | retained_intron |
| 14577 | enst00000625202 | sg00000095596 | cyp26a1-206 | 10 | 93076333 | 93077082 | + | lnc_RNA | retained_intron |
| 45627 | enst00000433227 | sg00000232805 | nip7p1-201 | 10 | 93106872 | 93107383 | - | pseudogenic_transcript | processed_pseudogene |
| -62474 | enst00000458552 | sg00000138190 | exoc6-205 | 10 | 92997474 | 93014267 | + | mRNA | protein_coding |
| -131574 | enst00000495132 | sg00000138190 | exoc6-206 | 10 | 92928374 | 93058524 | + | mRNA | nonsense_mediated_decay |
| 147871 | enst00000420392 | sg00000237417 | xrcc6p1-201 | 10 | 93206857 | 93209627 | - | pseudogenic_transcript | processed_pseudogene |
| -150464 | enst00000497262 | sg00000138190 | exoc6-207 | 10 | 92909484 | 92916030 | + | lnc_RNA | processed_transcript |
| -181659 | enst00000447000 | sg00000225118 | al392103.1-201 | 10 | 92878092 | 92878289 | - | pseudogenic_transcript | processed_pseudogene |
| -211428 | enst00000260762 | sg00000138190 | exoc6-201 | 10 | 92848520 | 93059490 | + | mRNA | protein_coding |
| -211463 | enst00000371543 | sg00000138190 | exoc6-202 | 10 | 92848485 | 92901851 | + | mRNA | protein_coding |
| -211480 | enst00000443748 | sg00000138190 | exoc6-204 | 10 | 92848468 | 93059493 | + | mRNA | protein_coding |
| 222802 | enst00000394133 | sg00000213432 | rpl17p34-201 | 10 | 93284004 | 93284558 | - | pseudogenic_transcript | processed_pseudogene |
| -225235 | enst00000371552 | sg00000138190 | exoc6-203 | 10 | 92834713 | 93059493 | + | mRNA | protein_coding |
| -228770 | enst00000672817 | sg00000138190 | exoc6-209 | 10 | 92831178 | 93058590 | + | mRNA | protein_coding |
| -233117 | enst00000671701 | sg00000138190 | exoc6-208 | 10 | 92826831 | 93059493 | + | mRNA | protein_coding |
| 261919 | enst00000474161 | sg00000138119 | myof-206 | 10 | 93323118 | 93323675 | - | lnc_RNA | retained_intron |
| 268017 | enst00000485212 | sg00000138119 | myof-208 | 10 | 93324270 | 93329773 | - | lnc_RNA | processed_transcript |
| 278493 | enst00000475358 | sg00000138119 | myof-207 | 10 | 93337528 | 93340249 | - | lnc_RNA | processed_transcript |
| 318231 | enst00000463743 | sg00000138119 | myof-205 | 10 | 93306429 | 93379987 | - | mRNA | nonsense_mediated_decay |
| -349340 | enst00000364542 | sg00000201412 | al590080.1-201 | 10 | 92710499 | 92710608 | - | ncRNA | misc_rna |
| -367916 | enst00000492654 | sg00000152804 | hhex-203 | 10 | 92692032 | 92694788 | + | mRNA | protein_coding |
| -368128 | enst00000472590 | sg00000152804 | hhex-202 | 10 | 92691820 | 92695641 | + | mRNA | protein_coding |
| -369993 | enst00000551454 | sg00000152804 | hhex-204 | 10 | 92689955 | 92692483 | + | lnc_RNA | retained_intron |
| -369993 | enst00000282728 | sg00000152804 | hhex-201 | 10 | 92689955 | 92695647 | + | mRNA | protein_coding |
| -390205 | enst00000428356 | sg00000236493 | eif2s2p3-201 | 10 | 92668745 | 92669743 | - | pseudogenic_transcript | processed_pseudogene |
| -400904 | enst00000577919 | sg00000264313 | rn7sl644p-201 | 10 | 92659044 | 92659302 | + | ncRNA | misc_rna |
| 420438 | enst00000371488 | sg00000138119 | myof-203 | 10 | 93425741 | 93482194 | - | mRNA | protein_coding |
| 420438 | enst00000358334 | sg00000138119 | myof-201 | 10 | 93306430 | 93482194 | - | mRNA | protein_coding |
| 420438 | enst00000488645 | sg00000138119 | myof-209 | 10 | 93426071 | 93482194 | - | lnc_RNA | processed_transcript |
| 420561 | enst00000371489 | sg00000138119 | myof-204 | 10 | 93397185 | 93482317 | - | mRNA | protein_coding |
| 420578 | enst00000359263 | sg00000138119 | myof-202 | 10 | 93306429 | 93482334 | - | mRNA | protein_coding |
| 434856 | enst00000371485 | sg00000138180 | cep55-201 | 10 | 93496612 | 93529092 | + | mRNA | protein_coding |
| 445254 | enst00000445435 | sg00000138180 | cep55-202 | 10 | 93507010 | 93519111 | + | mRNA | protein_coding |
| 448924 | enst00000391094 | sg00000212396 | rna5sp323-201 | 10 | 93510548 | 93510680 | - | pseudogenic_transcript | rrna_pseudogene |
| 455451 | enst00000496302 | sg00000138180 | cep55-203 | 10 | 93517207 | 93520277 | + | lnc_RNA | processed_transcript |
| -462661 | enst00000332269 | sg00000184111 | rpl11p4-201 | 10 | 92596852 | 92597287 | - | pseudogenic_transcript | processed_pseudogene |
| -466818 | enst00000260731 | sg00000138160 | kif11-201 | 10 | 92593130 | 92655395 | + | mRNA | protein_coding |
| -485855 | enst00000265986 | sg00000119912 | ide-201 | 10 | 92451684 | 92574093 | - | mRNA | protein_coding |
| -485872 | enst00000650060 | sg00000119912 | ide-209 | 10 | 92451684 | 92574076 | - | mRNA | protein_coding |
| -485881 | enst00000478361 | sg00000119912 | ide-206 | 10 | 92474472 | 92574067 | - | mRNA | nonsense_mediated_decay |
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