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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 |
|---|---|---|---|---|---|---|---|---|
| #6 | 14 | 69571220 | 69573973 | 2753 | 3 | 86 | 2.64685e-31 | 4.38715e-28 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 898 | enst00000599174 | sg00000267909 | ccdc177-201 | 14 | 69569799 | 69574871 | - | mRNA | protein_coding |
| -9750 | enst00000467051 | sg00000244237 | al133445.1-201 | 14 | 69561019 | 69561470 | - | pseudogenic_transcript | processed_pseudogene |
| 10973 | enst00000656285 | sg00000287310 | al133445.3-201 | 14 | 69582916 | 69584946 | - | lnc_RNA | lncrna |
| 37623 | enst00000342745 | sg00000100647 | susd6-201 | 14 | 69611596 | 69715144 | + | mRNA | protein_coding |
| 37665 | enst00000553497 | sg00000100647 | susd6-202 | 14 | 69611638 | 69615751 | + | lnc_RNA | processed_transcript |
| 43149 | enst00000611191 | sg00000273797 | al133445.2-201 | 14 | 69617122 | 69617648 | + | lnc_RNA | lncrna |
| 84537 | enst00000556993 | sg00000100647 | susd6-203 | 14 | 69658510 | 69703798 | + | lnc_RNA | retained_intron |
| -86492 | enst00000322564 | sg00000175985 | plekhd1-201 | 14 | 69484728 | 69531551 | + | mRNA | protein_coding |
| -86528 | enst00000556123 | sg00000175985 | plekhd1-202 | 14 | 69484692 | 69503690 | + | lnc_RNA | retained_intron |
| -87506 | enst00000668822 | sg00000286424 | al157996.2-201 | 14 | 69479057 | 69483714 | - | lnc_RNA | lncrna |
| -116519 | enst00000554023 | sg00000029364 | slc39a9-204 | 14 | 69454701 | 69458543 | + | lnc_RNA | retained_intron |
| 152927 | enst00000553521 | sg00000100650 | srsf5-203 | 14 | 69726900 | 69772004 | + | mRNA | protein_coding |
| -171850 | enst00000557046 | sg00000029364 | slc39a9-210 | 14 | 69399370 | 69458593 | + | mRNA | protein_coding |
| -172482 | enst00000555840 | sg00000029364 | slc39a9-207 | 14 | 69398738 | 69462381 | + | mRNA | nonsense_mediated_decay |
| -172512 | enst00000554059 | sg00000029364 | slc39a9-205 | 14 | 69398708 | 69429457 | + | lnc_RNA | retained_intron |
| -172528 | enst00000336643 | sg00000029364 | slc39a9-202 | 14 | 69398692 | 69462390 | + | mRNA | protein_coding |
| -172528 | enst00000031146 | sg00000029364 | slc39a9-201 | 14 | 69398692 | 69462381 | + | mRNA | protein_coding |
| -172528 | enst00000628474 | sg00000029364 | slc39a9-211 | 14 | 69398692 | 69460551 | + | mRNA | nonsense_mediated_decay |
| -172530 | enst00000556605 | sg00000029364 | slc39a9-209 | 14 | 69398690 | 69462388 | + | mRNA | protein_coding |
| -172830 | enst00000538956 | sg00000029364 | slc39a9-203 | 14 | 69398390 | 69458827 | + | lnc_RNA | retained_intron |
| -172834 | enst00000555245 | sg00000029364 | slc39a9-206 | 14 | 69398386 | 69459078 | + | lnc_RNA | processed_transcript |
| -172921 | enst00000557016 | sg00000100632 | erh-203 | 14 | 69380128 | 69398299 | - | mRNA | protein_coding |
| -172921 | enst00000555373 | sg00000100632 | erh-202 | 14 | 69386655 | 69398299 | - | mRNA | protein_coding |
| -172949 | enst00000216520 | sg00000100632 | erh-201 | 14 | 69380135 | 69398271 | - | lnc_RNA | processed_transcript |
| -173205 | enst00000556125 | sg00000029364 | slc39a9-208 | 14 | 69398015 | 69453300 | + | lnc_RNA | processed_transcript |
| -176294 | enst00000557697 | sg00000100632 | erh-204 | 14 | 69380576 | 69394926 | - | lnc_RNA | processed_transcript |
| 193120 | enst00000394366 | sg00000100650 | srsf5-201 | 14 | 69767093 | 69771973 | + | mRNA | protein_coding |
| 193120 | enst00000554465 | sg00000100650 | srsf5-207 | 14 | 69767093 | 69772004 | + | lnc_RNA | retained_intron |
| 193139 | enst00000553548 | sg00000100650 | srsf5-204 | 14 | 69767112 | 69769189 | + | mRNA | protein_coding |
| 193139 | enst00000553369 | sg00000100650 | srsf5-202 | 14 | 69767112 | 69769594 | + | mRNA | protein_coding |
| 193143 | enst00000557435 | sg00000100650 | srsf5-218 | 14 | 69767116 | 69768619 | + | lnc_RNA | retained_intron |
| 193169 | enst00000557154 | sg00000100650 | srsf5-217 | 14 | 69767142 | 69772005 | + | mRNA | protein_coding |
| 193184 | enst00000553635 | sg00000100650 | srsf5-205 | 14 | 69767157 | 69771949 | + | mRNA | protein_coding |
| 193199 | enst00000556184 | sg00000100650 | srsf5-212 | 14 | 69767172 | 69771642 | + | lnc_RNA | retained_intron |
| 193202 | enst00000557460 | sg00000100650 | srsf5-219 | 14 | 69767175 | 69771108 | + | lnc_RNA | retained_intron |
| 193209 | enst00000556587 | sg00000100650 | srsf5-215 | 14 | 69767182 | 69772005 | + | lnc_RNA | processed_transcript |
| 193213 | enst00000555547 | sg00000100650 | srsf5-211 | 14 | 69767186 | 69771654 | + | mRNA | nonsense_mediated_decay |
| 193267 | enst00000556436 | sg00000100650 | srsf5-214 | 14 | 69767240 | 69768928 | + | lnc_RNA | retained_intron |
| 193810 | enst00000555412 | sg00000100650 | srsf5-210 | 14 | 69767783 | 69768675 | + | lnc_RNA | retained_intron |
| 193967 | enst00000555349 | sg00000100650 | srsf5-209 | 14 | 69767940 | 69769383 | + | mRNA | protein_coding |
| 193967 | enst00000554021 | sg00000100650 | srsf5-206 | 14 | 69767940 | 69769644 | + | mRNA | protein_coding |
| 195773 | enst00000556330 | sg00000100650 | srsf5-213 | 14 | 69769746 | 69771257 | + | lnc_RNA | retained_intron |
| 196475 | enst00000556647 | sg00000100650 | srsf5-216 | 14 | 69770448 | 69772005 | + | lnc_RNA | processed_transcript |
| 196908 | enst00000554929 | sg00000100650 | srsf5-208 | 14 | 69770881 | 69771915 | + | lnc_RNA | retained_intron |
| -214210 | enst00000624684 | sg00000280073 | al157996.1-201 | 14 | 69357010 | 69359308 | + | unconfirmed_transcript | tec |
| -219191 | enst00000556829 | sg00000100626 | galnt16-210 | 14 | 69352029 | 69353968 | + | lnc_RNA | processed_transcript |
| 223268 | enst00000216540 | sg00000100652 | slc10a1-201 | 14 | 69775416 | 69797241 | - | mRNA | protein_coding |
| 230358 | enst00000408133 | sg00000221060 | al157789.1-201 | 14 | 69804203 | 69804331 | - | snoRNA | snorna |
| -238698 | enst00000556677 | sg00000100626 | galnt16-209 | 14 | 69332522 | 69339623 | + | lnc_RNA | processed_transcript |
| -272679 | enst00000553740 | sg00000100626 | galnt16-205 | 14 | 69298541 | 69326025 | + | lnc_RNA | processed_transcript |
| 280158 | enst00000555917 | sg00000198732 | smoc1-204 | 14 | 69854131 | 69952303 | + | lnc_RNA | processed_transcript |
| 305443 | enst00000361956 | sg00000198732 | smoc1-201 | 14 | 69879416 | 70030727 | + | mRNA | protein_coding |
| 305453 | enst00000381280 | sg00000198732 | smoc1-202 | 14 | 69879426 | 70032366 | + | mRNA | protein_coding |
| -310653 | enst00000556316 | sg00000258520 | al359317.1-201 | 14 | 69239166 | 69260567 | - | lnc_RNA | lncrna |
| -310929 | enst00000553669 | sg00000100626 | galnt16-204 | 14 | 69260291 | 69348092 | + | mRNA | protein_coding |
| -311046 | enst00000553471 | sg00000100626 | galnt16-203 | 14 | 69260174 | 69354466 | + | mRNA | nonsense_mediated_decay |
| -311062 | enst00000448469 | sg00000100626 | galnt16-202 | 14 | 69260158 | 69354466 | + | mRNA | protein_coding |
| -311256 | enst00000337827 | sg00000100626 | galnt16-201 | 14 | 69259964 | 69357033 | + | mRNA | protein_coding |
| -311578 | enst00000554317 | sg00000100626 | galnt16-206 | 14 | 69259642 | 69320843 | + | lnc_RNA | processed_transcript |
| -311578 | enst00000555920 | sg00000100626 | galnt16-208 | 14 | 69259642 | 69324742 | + | lnc_RNA | processed_transcript |
| -311943 | enst00000554858 | sg00000100626 | galnt16-207 | 14 | 69259277 | 69260337 | + | lnc_RNA | processed_transcript |
| 312167 | enst00000477943 | sg00000242071 | rpl7ap6-201 | 14 | 69885340 | 69886140 | - | pseudogenic_transcript | processed_pseudogene |
| -335608 | enst00000465286 | sg00000081177 | exd2-209 | 14 | 69235612 | 69236543 | + | lnc_RNA | retained_intron |
| -343270 | enst00000494629 | sg00000081177 | exd2-213 | 14 | 69227950 | 69234745 | + | lnc_RNA | processed_transcript |
| -347090 | enst00000489133 | sg00000081177 | exd2-211 | 14 | 69224130 | 69230585 | + | lnc_RNA | processed_transcript |
| -357128 | enst00000554898 | sg00000258957 | al359317.2-201 | 14 | 69183020 | 69214092 | - | lnc_RNA | lncrna |
| 378164 | enst00000553839 | sg00000198732 | smoc1-203 | 14 | 69952137 | 69978088 | + | lnc_RNA | retained_intron |
| -379128 | enst00000557409 | sg00000258957 | al359317.2-203 | 14 | 69190878 | 69192092 | - | lnc_RNA | lncrna |
| -379385 | enst00000413191 | sg00000081177 | exd2-207 | 14 | 69191835 | 69230598 | + | mRNA | protein_coding |
| -379407 | enst00000461908 | sg00000081177 | exd2-208 | 14 | 69191813 | 69209438 | + | lnc_RNA | processed_transcript |
| -379414 | enst00000409242 | sg00000081177 | exd2-204 | 14 | 69191806 | 69241449 | + | mRNA | protein_coding |
| -379454 | enst00000409949 | sg00000081177 | exd2-206 | 14 | 69191766 | 69241517 | + | mRNA | protein_coding |
| -379454 | enst00000312994 | sg00000081177 | exd2-201 | 14 | 69191766 | 69244020 | + | mRNA | protein_coding |
| -379665 | enst00000409675 | sg00000081177 | exd2-205 | 14 | 69191555 | 69242358 | + | mRNA | protein_coding |
| -379687 | enst00000487724 | sg00000081177 | exd2-210 | 14 | 69191533 | 69209571 | + | lnc_RNA | processed_transcript |
| -379689 | enst00000409014 | sg00000081177 | exd2-202 | 14 | 69191531 | 69242356 | + | mRNA | protein_coding |
| -379691 | enst00000492815 | sg00000081177 | exd2-212 | 14 | 69191529 | 69242357 | + | lnc_RNA | processed_transcript |
| -379709 | enst00000409018 | sg00000081177 | exd2-203 | 14 | 69191511 | 69242358 | + | mRNA | protein_coding |
| -379790 | enst00000653782 | sg00000258957 | al359317.2-204 | 14 | 69183017 | 69191430 | - | lnc_RNA | lncrna |
| -379800 | enst00000556182 | sg00000258957 | al359317.2-202 | 14 | 69184074 | 69191420 | - | lnc_RNA | lncrna |
| -416909 | enst00000622466 | sg00000276063 | al391262.2-201 | 14 | 69154311 | 69154804 | + | lnc_RNA | lncrna |
| -418070 | enst00000553943 | sg00000139990 | dcaf5-204 | 14 | 69119098 | 69153150 | - | lnc_RNA | retained_intron |
| -418101 | enst00000341516 | sg00000139990 | dcaf5-201 | 14 | 69050881 | 69153119 | - | mRNA | protein_coding |
| -418180 | enst00000554681 | sg00000139990 | dcaf5-206 | 14 | 69091674 | 69153040 | - | mRNA | protein_coding |
| -418217 | enst00000557386 | sg00000139990 | dcaf5-209 | 14 | 69053825 | 69153003 | - | mRNA | protein_coding |
| -418221 | enst00000556111 | sg00000139990 | dcaf5-207 | 14 | 69062428 | 69152999 | - | mRNA | nonsense_mediated_decay |
| -418237 | enst00000389997 | sg00000139990 | dcaf5-202 | 14 | 69089204 | 69152983 | - | mRNA | protein_coding |
| -418611 | enst00000556847 | sg00000139990 | dcaf5-208 | 14 | 69053802 | 69152609 | - | mRNA | protein_coding |
| -418621 | enst00000554215 | sg00000139990 | dcaf5-205 | 14 | 69051855 | 69152599 | - | mRNA | protein_coding |
| 420266 | enst00000557483 | sg00000198732 | smoc1-205 | 14 | 69994239 | 70011568 | + | lnc_RNA | retained_intron |
| -427267 | enst00000384041 | sg00000206768 | al391262.1-201 | 14 | 69143852 | 69143953 | - | ncRNA | misc_rna |
| -453026 | enst00000553293 | sg00000139990 | dcaf5-203 | 14 | 69055210 | 69118194 | - | lnc_RNA | processed_transcript |
| 486966 | enst00000533899 | sg00000100678 | slc8a3-209 | 14 | 70059106 | 70060939 | - | lnc_RNA | processed_transcript |
| -487822 | enst00000556558 | sg00000259165 | ddx18p1-201 | 14 | 69083398 | 69085389 | + | pseudogenic_transcript | processed_pseudogene |
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