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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 |
|---|---|---|---|---|---|---|---|---|
| #110 | 10 | 75395143 | 75397856 | 2713 | 3 | 90 | 3.48651e-17 | 3.15212e-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 |
|---|---|---|---|---|---|---|---|---|---|
| 3390 | enst00000418818 | sg00000270087 | ac010997.3-201 | 10 | 75279726 | 75401246 | - | lnc_RNA | lncrna |
| 3663 | enst00000466942 | sg00000237149 | znf503-as2-202 | 10 | 75401519 | 75407941 | + | lnc_RNA | lncrna |
| 3908 | enst00000372524 | sg00000165655 | znf503-201 | 10 | 75397830 | 75401764 | - | mRNA | protein_coding |
| 5041 | enst00000486015 | sg00000237149 | znf503-as2-204 | 10 | 75402897 | 75407695 | + | lnc_RNA | lncrna |
| 5198 | enst00000425916 | sg00000237149 | znf503-as2-201 | 10 | 75403054 | 75408982 | + | lnc_RNA | lncrna |
| 5900 | enst00000491557 | sg00000237149 | znf503-as2-205 | 10 | 75403756 | 75407958 | + | lnc_RNA | lncrna |
| 6020 | enst00000484411 | sg00000237149 | znf503-as2-203 | 10 | 75403876 | 75408308 | + | lnc_RNA | lncrna |
| 6309 | enst00000527641 | sg00000237149 | znf503-as2-206 | 10 | 75404165 | 75407694 | + | lnc_RNA | lncrna |
| 11286 | enst00000609200 | sg00000272692 | ac010997.4-201 | 10 | 75409142 | 75411842 | + | lnc_RNA | lncrna |
| 11470 | enst00000609182 | sg00000273248 | ac010997.5-201 | 10 | 75408973 | 75409326 | - | lnc_RNA | lncrna |
| -12299 | enst00000416656 | sg00000236797 | spa17p1-201 | 10 | 75382393 | 75382844 | - | pseudogenic_transcript | transcribed_processed_pseudogene |
| 33732 | enst00000427610 | sg00000236842 | ac010997.2-201 | 10 | 75430571 | 75431588 | - | lnc_RNA | lncrna |
| 33768 | enst00000611255 | sg00000148655 | lrmda-215 | 10 | 75431624 | 76560168 | + | mRNA | protein_coding |
| 52225 | enst00000623230 | sg00000279814 | ac010997.6-201 | 10 | 75450081 | 75451725 | + | unconfirmed_transcript | tec |
| -52863 | enst00000661449 | sg00000226051 | znf503-as1-214 | 10 | 75342280 | 75360850 | + | lnc_RNA | lncrna |
| -52863 | enst00000663601 | sg00000226051 | znf503-as1-216 | 10 | 75342280 | 75359197 | + | lnc_RNA | lncrna |
| -52865 | enst00000670172 | sg00000226051 | znf503-as1-223 | 10 | 75342278 | 75361676 | + | lnc_RNA | lncrna |
| -52871 | enst00000656537 | sg00000226051 | znf503-as1-209 | 10 | 75342272 | 75360855 | + | lnc_RNA | lncrna |
| -52877 | enst00000668572 | sg00000226051 | znf503-as1-220 | 10 | 75342266 | 75361229 | + | lnc_RNA | lncrna |
| -52877 | enst00000660346 | sg00000226051 | znf503-as1-210 | 10 | 75342266 | 75361680 | + | lnc_RNA | lncrna |
| -52886 | enst00000661189 | sg00000226051 | znf503-as1-212 | 10 | 75342257 | 75361680 | + | lnc_RNA | lncrna |
| -52892 | enst00000649714 | sg00000226051 | znf503-as1-208 | 10 | 75342251 | 75361680 | + | lnc_RNA | lncrna |
| -98646 | enst00000533822 | sg00000226051 | znf503-as1-207 | 10 | 75296497 | 75360804 | + | lnc_RNA | lncrna |
| -98737 | enst00000661246 | sg00000226051 | znf503-as1-213 | 10 | 75296406 | 75361680 | + | lnc_RNA | lncrna |
| -98741 | enst00000668415 | sg00000226051 | znf503-as1-219 | 10 | 75296402 | 75361676 | + | lnc_RNA | lncrna |
| -98750 | enst00000526759 | sg00000226051 | znf503-as1-203 | 10 | 75296393 | 75361680 | + | lnc_RNA | lncrna |
| -98753 | enst00000416398 | sg00000226051 | znf503-as1-201 | 10 | 75296390 | 75361678 | + | lnc_RNA | lncrna |
| -98799 | enst00000528121 | sg00000226051 | znf503-as1-204 | 10 | 75296344 | 75362126 | + | lnc_RNA | lncrna |
| -98823 | enst00000669449 | sg00000226051 | znf503-as1-222 | 10 | 75296320 | 75361680 | + | lnc_RNA | lncrna |
| -106461 | enst00000447646 | sg00000223428 | ac010997.1-201 | 10 | 75288333 | 75288682 | - | pseudogenic_transcript | transcribed_processed_pseudogene |
| -111168 | enst00000660657 | sg00000226051 | znf503-as1-211 | 10 | 75283975 | 75361680 | + | lnc_RNA | lncrna |
| -111342 | enst00000531808 | sg00000226051 | znf503-as1-206 | 10 | 75283801 | 75373500 | + | lnc_RNA | lncrna |
| -111352 | enst00000665971 | sg00000226051 | znf503-as1-217 | 10 | 75283791 | 75361681 | + | lnc_RNA | lncrna |
| -111797 | enst00000445450 | sg00000270087 | ac010997.3-202 | 10 | 75279731 | 75283346 | - | lnc_RNA | lncrna |
| -118497 | enst00000412453 | sg00000233313 | hmga1p5-201 | 10 | 75276376 | 75276646 | - | pseudogenic_transcript | processed_pseudogene |
| -118693 | enst00000670946 | sg00000226051 | znf503-as1-224 | 10 | 75276450 | 75361676 | + | lnc_RNA | lncrna |
| -118930 | enst00000663224 | sg00000226051 | znf503-as1-215 | 10 | 75276213 | 75361676 | + | lnc_RNA | lncrna |
| -121846 | enst00000530606 | sg00000226051 | znf503-as1-205 | 10 | 75273297 | 75358608 | + | lnc_RNA | lncrna |
| -125324 | enst00000524517 | sg00000226051 | znf503-as1-202 | 10 | 75269819 | 75358707 | + | lnc_RNA | lncrna |
| -125355 | enst00000668612 | sg00000226051 | znf503-as1-221 | 10 | 75269788 | 75361680 | + | lnc_RNA | lncrna |
| -125362 | enst00000671219 | sg00000226051 | znf503-as1-225 | 10 | 75269781 | 75361677 | + | lnc_RNA | lncrna |
| -125598 | enst00000449384 | sg00000227271 | rpl39p25-201 | 10 | 75269392 | 75269545 | - | pseudogenic_transcript | processed_pseudogene |
| -151575 | enst00000666247 | sg00000226051 | znf503-as1-218 | 10 | 75243568 | 75361680 | + | lnc_RNA | lncrna |
| 154602 | enst00000384851 | sg00000207583 | mir606-201 | 10 | 75552458 | 75552553 | + | miRNA | mirna |
| -159113 | enst00000491270 | sg00000165644 | comtd1-206 | 10 | 75235315 | 75236030 | - | lnc_RNA | processed_transcript |
| -159186 | enst00000372538 | sg00000165644 | comtd1-201 | 10 | 75233641 | 75235957 | - | mRNA | protein_coding |
| -159207 | enst00000494596 | sg00000165644 | comtd1-207 | 10 | 75233978 | 75235936 | - | lnc_RNA | processed_transcript |
| -159218 | enst00000469299 | sg00000165644 | comtd1-203 | 10 | 75233984 | 75235925 | - | mRNA | protein_coding |
| -159413 | enst00000460899 | sg00000165644 | comtd1-202 | 10 | 75233971 | 75235730 | - | lnc_RNA | processed_transcript |
| -159631 | enst00000470947 | sg00000165644 | comtd1-204 | 10 | 75233984 | 75235512 | - | lnc_RNA | processed_transcript |
| -159807 | enst00000490521 | sg00000165644 | comtd1-205 | 10 | 75234426 | 75235336 | - | lnc_RNA | processed_transcript |
| -165833 | enst00000460044 | sg00000165637 | vdac2-207 | 10 | 75229310 | 75231275 | + | lnc_RNA | retained_intron |
| -183687 | enst00000413289 | sg00000165637 | vdac2-205 | 10 | 75211456 | 75219196 | + | mRNA | protein_coding |
| -184109 | enst00000447677 | sg00000165637 | vdac2-206 | 10 | 75211034 | 75222280 | + | mRNA | protein_coding |
| -184279 | enst00000468285 | sg00000165637 | vdac2-208 | 10 | 75210864 | 75221032 | + | lnc_RNA | processed_transcript |
| -184287 | enst00000498394 | sg00000165637 | vdac2-213 | 10 | 75210856 | 75222259 | + | lnc_RNA | processed_transcript |
| -184295 | enst00000313132 | sg00000165637 | vdac2-202 | 10 | 75210848 | 75231277 | + | mRNA | protein_coding |
| -184329 | enst00000481876 | sg00000165637 | vdac2-212 | 10 | 75210814 | 75220970 | + | lnc_RNA | retained_intron |
| -184330 | enst00000475142 | sg00000165637 | vdac2-211 | 10 | 75210813 | 75220862 | + | lnc_RNA | retained_intron |
| -184339 | enst00000470745 | sg00000165637 | vdac2-209 | 10 | 75210804 | 75218238 | + | lnc_RNA | retained_intron |
| -184368 | enst00000472137 | sg00000165637 | vdac2-210 | 10 | 75210775 | 75222278 | + | lnc_RNA | processed_transcript |
| -184392 | enst00000332211 | sg00000165637 | vdac2-203 | 10 | 75210751 | 75231448 | + | mRNA | protein_coding |
| -184498 | enst00000344036 | sg00000165637 | vdac2-204 | 10 | 75210645 | 75220970 | + | mRNA | protein_coding |
| -184989 | enst00000543351 | sg00000165637 | vdac2-214 | 10 | 75210154 | 75231444 | + | mRNA | protein_coding |
| -184989 | enst00000298468 | sg00000165637 | vdac2-201 | 10 | 75210154 | 75230951 | + | mRNA | protein_coding |
| 194788 | enst00000670381 | sg00000286715 | al589863.2-201 | 10 | 75592644 | 75628120 | + | lnc_RNA | lncrna |
| 203384 | enst00000593817 | sg00000148655 | lrmda-210 | 10 | 75601240 | 76036136 | + | lnc_RNA | processed_transcript |
| 244620 | enst00000595383 | sg00000268659 | al589863.1-201 | 10 | 75642476 | 75643106 | + | lnc_RNA | lncrna |
| 249653 | enst00000593699 | sg00000148655 | lrmda-209 | 10 | 75647509 | 76557377 | + | lnc_RNA | processed_transcript |
| -269926 | enst00000413485 | sg00000232437 | rps26p42-201 | 10 | 75125217 | 75125862 | + | pseudogenic_transcript | processed_pseudogene |
| -283434 | enst00000372687 | sg00000156671 | samd8-201 | 10 | 75111709 | 75182123 | + | mRNA | protein_coding |
| -283451 | enst00000649316 | sg00000156671 | samd8-204 | 10 | 75111692 | 75179923 | + | mRNA | nonsense_mediated_decay |
| -283487 | enst00000542569 | sg00000156671 | samd8-203 | 10 | 75111656 | 75182123 | + | mRNA | protein_coding |
| -283508 | enst00000671800 | sg00000156671 | samd8-206 | 10 | 75111635 | 75182123 | + | mRNA | protein_coding |
| -283632 | enst00000671730 | sg00000156671 | samd8-205 | 10 | 75111511 | 75182123 | + | mRNA | protein_coding |
| -285922 | enst00000372702 | sg00000079393 | dusp13-203 | 10 | 75094434 | 75109221 | - | mRNA | protein_coding |
| -285925 | enst00000494588 | sg00000079393 | dusp13-211 | 10 | 75094664 | 75109218 | - | mRNA | nonsense_mediated_decay |
| -285931 | enst00000491677 | sg00000079393 | dusp13-210 | 10 | 75094433 | 75109212 | - | mRNA | protein_coding |
| -285931 | enst00000479884 | sg00000079393 | dusp13-209 | 10 | 75094439 | 75109212 | - | mRNA | nonsense_mediated_decay |
| -285937 | enst00000473072 | sg00000079393 | dusp13-207 | 10 | 75101944 | 75109206 | - | mRNA | protein_coding |
| -285952 | enst00000607009 | sg00000079393 | dusp13-213 | 10 | 75097743 | 75109191 | - | lnc_RNA | processed_transcript |
| -285952 | enst00000372700 | sg00000079393 | dusp13-202 | 10 | 75094676 | 75109191 | - | mRNA | protein_coding |
| -285953 | enst00000394707 | sg00000079393 | dusp13-204 | 10 | 75094626 | 75109190 | - | mRNA | nonsense_mediated_decay |
| -285958 | enst00000308475 | sg00000079393 | dusp13-201 | 10 | 75094436 | 75109185 | - | mRNA | nonsense_mediated_decay |
| -286010 | enst00000607487 | sg00000079393 | dusp13-215 | 10 | 75095723 | 75109133 | - | mRNA | protein_coding |
| -286044 | enst00000607131 | sg00000079393 | dusp13-214 | 10 | 75094441 | 75109099 | - | mRNA | protein_coding |
| -295557 | enst00000447533 | sg00000156671 | samd8-202 | 10 | 75099586 | 75168627 | + | mRNA | protein_coding |
| -295616 | enst00000478873 | sg00000079393 | dusp13-208 | 10 | 75094436 | 75099527 | - | mRNA | protein_coding |
| -295628 | enst00000605915 | sg00000079393 | dusp13-212 | 10 | 75094436 | 75099515 | - | mRNA | protein_coding |
| -295637 | enst00000472493 | sg00000079393 | dusp13-206 | 10 | 75094432 | 75099506 | - | mRNA | protein_coding |
| -297259 | enst00000464872 | sg00000079393 | dusp13-205 | 10 | 75094436 | 75097884 | - | mRNA | protein_coding |
| -305418 | enst00000434706 | sg00000237882 | ppiap13-201 | 10 | 75089248 | 75089725 | - | pseudogenic_transcript | processed_pseudogene |
| -336629 | enst00000338487 | sg00000188716 | dupd1-201 | 10 | 75037836 | 75058514 | - | mRNA | protein_coding |
| 344884 | enst00000445111 | sg00000228280 | al731568.1-201 | 10 | 75742740 | 75743755 | + | lnc_RNA | lncrna |
| -353267 | enst00000649504 | sg00000285810 | ac018511.5-201 | 10 | 75041876 | 75055754 | + | lnc_RNA | lncrna |
| -369969 | enst00000413431 | sg00000234149 | ac018511.2-201 | 10 | 75003055 | 75025174 | - | lnc_RNA | lncrna |
| -370892 | enst00000436608 | sg00000227186 | ac018511.1-201 | 10 | 75023475 | 75024251 | - | lnc_RNA | lncrna |
| -375505 | enst00000649305 | sg00000156650 | kat6b-229 | 10 | 75019638 | 75024138 | + | lnc_RNA | retained_intron |
| -375640 | enst00000650610 | sg00000156650 | kat6b-241 | 10 | 75019503 | 75024232 | + | lnc_RNA | retained_intron |
| -377668 | enst00000648793 | sg00000156650 | kat6b-223 | 10 | 75017475 | 75026127 | + | lnc_RNA | retained_intron |
| 384905 | enst00000372499 | sg00000148655 | lrmda-201 | 10 | 75782761 | 76557375 | + | mRNA | protein_coding |
| -409814 | enst00000647891 | sg00000156650 | kat6b-213 | 10 | 74985329 | 75021954 | + | lnc_RNA | retained_intron |
| -418622 | enst00000490365 | sg00000156650 | kat6b-206 | 10 | 74976521 | 75026164 | + | lnc_RNA | retained_intron |
| -419197 | enst00000648696 | sg00000156650 | kat6b-221 | 10 | 74975946 | 74989096 | + | 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