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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 |
|---|---|---|---|---|---|---|---|---|
| #33 | 15 | 52794405 | 52796114 | 1709 | 3 | 56 | 2.33709e-24 | 7.12404e-22 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -3327 | enst00000561401 | sg00000169856 | onecut1-203 | 15 | 52757315 | 52791078 | - | lnc_RNA | processed_transcript |
| -4069 | enst00000305901 | sg00000169856 | onecut1-201 | 15 | 52755053 | 52790336 | - | mRNA | protein_coding |
| -5009 | enst00000570208 | sg00000169856 | onecut1-204 | 15 | 52785725 | 52789396 | - | mRNA | nonsense_mediated_decay |
| 8499 | enst00000654059 | sg00000259203 | ac016044.1-205 | 15 | 52800168 | 52804613 | - | lnc_RNA | lncrna |
| 8828 | enst00000560818 | sg00000259203 | ac016044.1-201 | 15 | 52801614 | 52804942 | - | lnc_RNA | lncrna |
| 9137 | enst00000660503 | sg00000259203 | ac016044.1-203 | 15 | 52802565 | 52805251 | - | lnc_RNA | lncrna |
| 9631 | enst00000656588 | sg00000259203 | ac016044.1-202 | 15 | 52803206 | 52805745 | - | lnc_RNA | lncrna |
| 9858 | enst00000671573 | sg00000259203 | ac016044.1-204 | 15 | 52803556 | 52805972 | - | lnc_RNA | lncrna |
| -13222 | enst00000560699 | sg00000169856 | onecut1-202 | 15 | 52757440 | 52781183 | - | mRNA | protein_coding |
| -84588 | enst00000561490 | sg00000047346 | fam214a-205 | 15 | 52611625 | 52709817 | - | mRNA | protein_coding |
| 89481 | enst00000477347 | sg00000214896 | rpsap55-201 | 15 | 52885595 | 52886470 | + | pseudogenic_transcript | processed_pseudogene |
| -114931 | enst00000653440 | sg00000287500 | ac009754.2-201 | 15 | 52679474 | 52690077 | + | lnc_RNA | lncrna |
| -115033 | enst00000561543 | sg00000047346 | fam214a-206 | 15 | 52611694 | 52679372 | - | mRNA | protein_coding |
| -115033 | enst00000566768 | sg00000047346 | fam214a-209 | 15 | 52611601 | 52679372 | - | mRNA | protein_coding |
| -115646 | enst00000534964 | sg00000047346 | fam214a-203 | 15 | 52581321 | 52678759 | - | mRNA | nonsense_mediated_decay |
| -115649 | enst00000562135 | sg00000047346 | fam214a-207 | 15 | 52611233 | 52678756 | - | mRNA | protein_coding |
| -115649 | enst00000399202 | sg00000047346 | fam214a-202 | 15 | 52584743 | 52678756 | - | mRNA | protein_coding |
| -115782 | enst00000261844 | sg00000047346 | fam214a-201 | 15 | 52581321 | 52678623 | - | mRNA | protein_coding |
| -115845 | enst00000562351 | sg00000047346 | fam214a-208 | 15 | 52656053 | 52678560 | - | mRNA | protein_coding |
| -116184 | enst00000568863 | sg00000047346 | fam214a-213 | 15 | 52611711 | 52678221 | - | mRNA | protein_coding |
| -116289 | enst00000619572 | sg00000047346 | fam214a-216 | 15 | 52581932 | 52678116 | - | mRNA | protein_coding |
| -142355 | enst00000546305 | sg00000047346 | fam214a-204 | 15 | 52581853 | 52652050 | - | mRNA | protein_coding |
| 142404 | enst00000559385 | sg00000259612 | eef1a1p22-201 | 15 | 52937139 | 52938518 | - | pseudogenic_transcript | processed_pseudogene |
| -144539 | enst00000566282 | sg00000259935 | ac009754.1-201 | 15 | 52648634 | 52649866 | - | lnc_RNA | lncrna |
| -185809 | enst00000566948 | sg00000047346 | fam214a-210 | 15 | 52586022 | 52608596 | - | lnc_RNA | retained_intron |
| -189214 | enst00000568668 | sg00000047346 | fam214a-212 | 15 | 52593417 | 52605191 | - | lnc_RNA | retained_intron |
| -189228 | enst00000570204 | sg00000047346 | fam214a-215 | 15 | 52584905 | 52605177 | - | mRNA | nonsense_mediated_decay |
| -193241 | enst00000568637 | sg00000047346 | fam214a-211 | 15 | 52582188 | 52601164 | - | mRNA | protein_coding |
| -209082 | enst00000568871 | sg00000047346 | fam214a-214 | 15 | 52581317 | 52585323 | - | lnc_RNA | retained_intron |
| -209498 | enst00000566344 | sg00000260618 | ac025917.1-202 | 15 | 52584907 | 52587652 | + | lnc_RNA | lncrna |
| -216563 | enst00000562062 | sg00000260618 | ac025917.1-201 | 15 | 52577842 | 52598709 | + | lnc_RNA | lncrna |
| -224522 | enst00000561971 | sg00000128989 | arpp19-203 | 15 | 52551809 | 52569883 | - | mRNA | protein_coding |
| -225166 | enst00000566423 | sg00000128989 | arpp19-208 | 15 | 52547045 | 52569239 | - | mRNA | protein_coding |
| -225196 | enst00000563277 | sg00000128989 | arpp19-204 | 15 | 52551367 | 52569209 | - | mRNA | protein_coding |
| -225238 | enst00000567830 | sg00000128989 | arpp19-210 | 15 | 52552009 | 52569167 | - | mRNA | protein_coding |
| -225238 | enst00000563566 | sg00000128989 | arpp19-205 | 15 | 52551769 | 52569167 | - | mRNA | protein_coding |
| -225238 | enst00000569281 | sg00000128989 | arpp19-212 | 15 | 52551672 | 52569167 | - | mRNA | protein_coding |
| -225238 | enst00000567669 | sg00000128989 | arpp19-209 | 15 | 52551594 | 52569167 | - | mRNA | protein_coding |
| -225241 | enst00000249822 | sg00000128989 | arpp19-201 | 15 | 52547244 | 52569164 | - | mRNA | protein_coding |
| -225251 | enst00000569723 | sg00000128989 | arpp19-213 | 15 | 52551649 | 52569154 | - | mRNA | protein_coding |
| -225390 | enst00000564163 | sg00000128989 | arpp19-206 | 15 | 52551735 | 52569015 | - | mRNA | protein_coding |
| -225573 | enst00000561650 | sg00000128989 | arpp19-202 | 15 | 52549527 | 52568832 | - | mRNA | protein_coding |
| -236661 | enst00000568196 | sg00000128989 | arpp19-211 | 15 | 52551261 | 52557744 | - | mRNA | protein_coding |
| -237352 | enst00000565288 | sg00000128989 | arpp19-207 | 15 | 52551920 | 52557053 | - | lnc_RNA | processed_transcript |
| -265355 | enst00000613858 | sg00000197535 | myo5a-213 | 15 | 52307288 | 52529050 | - | mRNA | protein_coding |
| -265355 | enst00000399233 | sg00000197535 | myo5a-206 | 15 | 52307288 | 52529050 | - | mRNA | protein_coding |
| -265355 | enst00000358212 | sg00000197535 | myo5a-202 | 15 | 52307288 | 52529050 | - | mRNA | protein_coding |
| -265355 | enst00000399231 | sg00000197535 | myo5a-205 | 15 | 52307283 | 52529050 | - | mRNA | protein_coding |
| -265525 | enst00000356338 | sg00000197535 | myo5a-201 | 15 | 52307286 | 52528880 | - | mRNA | protein_coding |
| -265525 | enst00000556196 | sg00000197535 | myo5a-210 | 15 | 52367085 | 52528880 | - | mRNA | nonsense_mediated_decay |
| -265564 | enst00000553916 | sg00000197535 | myo5a-209 | 15 | 52313304 | 52528841 | - | mRNA | protein_coding |
| -289214 | enst00000567221 | sg00000231169 | eef1b2p1-201 | 15 | 52505191 | 52505862 | + | pseudogenic_transcript | processed_pseudogene |
| 320251 | enst00000559915 | sg00000259237 | linc02490-201 | 15 | 53116365 | 53129698 | + | lnc_RNA | lncrna |
| -368438 | enst00000561810 | sg00000197535 | myo5a-211 | 15 | 52416005 | 52425967 | - | lnc_RNA | retained_intron |
| -398020 | enst00000469611 | sg00000197535 | myo5a-208 | 15 | 52387750 | 52396385 | - | lnc_RNA | retained_intron |
| -442924 | enst00000568914 | sg00000197535 | myo5a-212 | 15 | 52337810 | 52351481 | - | mRNA | protein_coding |
| -442924 | enst00000399228 | sg00000197535 | myo5a-203 | 15 | 52337810 | 52351481 | - | mRNA | protein_coding |
| -443023 | enst00000399229 | sg00000197535 | myo5a-204 | 15 | 52313696 | 52351382 | - | mRNA | protein_coding |
| -470509 | enst00000465290 | sg00000197535 | myo5a-207 | 15 | 52321469 | 52323896 | - | lnc_RNA | retained_intron |
| -498601 | enst00000261839 | sg00000128833 | myo5c-201 | 15 | 52192322 | 52295804 | - | mRNA | protein_coding |
| -498632 | enst00000558479 | sg00000128833 | myo5c-204 | 15 | 52272689 | 52295773 | - | mRNA | protein_coding |
| -498636 | enst00000558902 | sg00000128833 | myo5c-205 | 15 | 52229230 | 52295769 | - | mRNA | nonsense_mediated_decay |
| -498637 | enst00000541028 | sg00000128833 | myo5c-202 | 15 | 52261007 | 52295768 | - | lnc_RNA | processed_transcript |
| -498661 | enst00000559459 | sg00000128833 | myo5c-207 | 15 | 52250991 | 52295744 | - | mRNA | nonsense_mediated_decay |
| -498749 | enst00000560809 | sg00000128833 | myo5c-209 | 15 | 52192659 | 52295656 | - | 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