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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 |
|---|---|---|---|---|---|---|---|---|
| #89 | 16 | 54281497 | 54282666 | 1169 | 3 | 41 | 2.90162e-18 | 3.24231e-16 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 2938 | enst00000637770 | sg00000283689 | ac018553.2-201 | 16 | 54285604 | 54289568 | + | lnc_RNA | lncrna |
| 3189 | enst00000558054 | sg00000177508 | irx3-202 | 16 | 54283436 | 54285855 | - | mRNA | protein_coding |
| 4058 | enst00000558180 | sg00000177508 | irx3-203 | 16 | 54284120 | 54286724 | - | lnc_RNA | retained_intron |
| 4121 | enst00000329734 | sg00000177508 | irx3-201 | 16 | 54283304 | 54286787 | - | mRNA | protein_coding |
| 8299 | enst00000616682 | sg00000277559 | ac018553.1-201 | 16 | 54290965 | 54292422 | + | lnc_RNA | lncrna |
| -10618 | enst00000649252 | sg00000259517 | linc02169-202 | 16 | 54245544 | 54270879 | - | lnc_RNA | lncrna |
| -10751 | enst00000561336 | sg00000259517 | linc02169-201 | 16 | 54245618 | 54270746 | - | lnc_RNA | lncrna |
| -41804 | enst00000557953 | sg00000259759 | ac007907.1-201 | 16 | 54239693 | 54240654 | + | lnc_RNA | lncrna |
| 87598 | enst00000660155 | sg00000261803 | linc02140-203 | 16 | 54365996 | 54370264 | - | lnc_RNA | lncrna |
| 87599 | enst00000663832 | sg00000287885 | ac018553.3-201 | 16 | 54370265 | 54374728 | + | lnc_RNA | lncrna |
| 87775 | enst00000668085 | sg00000261803 | linc02140-205 | 16 | 54365996 | 54370441 | - | lnc_RNA | lncrna |
| 87794 | enst00000669832 | sg00000261803 | linc02140-206 | 16 | 54366001 | 54370460 | - | lnc_RNA | lncrna |
| 87999 | enst00000566649 | sg00000261803 | linc02140-202 | 16 | 54366007 | 54370665 | - | lnc_RNA | lncrna |
| 88033 | enst00000562614 | sg00000261803 | linc02140-201 | 16 | 54367367 | 54370699 | - | lnc_RNA | lncrna |
| 88128 | enst00000661222 | sg00000261803 | linc02140-204 | 16 | 54365996 | 54370794 | - | lnc_RNA | lncrna |
| -131807 | enst00000637049 | sg00000140718 | fto-218 | 16 | 54149690 | 54158512 | + | mRNA | nonsense_mediated_decay |
| -166619 | enst00000623044 | sg00000280454 | ac007347.2-201 | 16 | 54114697 | 54114878 | - | pseudogenic_transcript | pseudogene |
| 208730 | enst00000660981 | sg00000286845 | ac007343.1-201 | 16 | 54490281 | 54491396 | - | lnc_RNA | lncrna |
| -211601 | enst00000636091 | sg00000140718 | fto-213 | 16 | 54069896 | 54114439 | + | lnc_RNA | processed_transcript |
| -217860 | enst00000472835 | sg00000140718 | fto-207 | 16 | 54063637 | 54112302 | + | lnc_RNA | processed_transcript |
| -226914 | enst00000563879 | sg00000261049 | ac007347.1-201 | 16 | 54033997 | 54054583 | - | lnc_RNA | lncrna |
| 276434 | enst00000637822 | sg00000283304 | linc02183-201 | 16 | 54542808 | 54559100 | - | lnc_RNA | lncrna |
| -281528 | enst00000565641 | sg00000260194 | ac007496.1-201 | 16 | 53998313 | 53999969 | - | lnc_RNA | lncrna |
| -290485 | enst00000624987 | sg00000280392 | ac007496.3-201 | 16 | 53991012 | 53994454 | + | unconfirmed_transcript | tec |
| -299585 | enst00000564801 | sg00000261630 | ac007496.2-201 | 16 | 53981229 | 53981912 | - | lnc_RNA | lncrna |
| -347467 | enst00000268349 | sg00000140718 | fto-201 | 16 | 53934030 | 54114463 | + | mRNA | protein_coding |
| 351671 | enst00000637961 | sg00000283258 | ac007491.1-202 | 16 | 54631754 | 54634337 | - | lnc_RNA | lncrna |
| -358441 | enst00000635892 | sg00000140718 | fto-211 | 16 | 53923056 | 54112632 | + | lnc_RNA | processed_transcript |
| -370241 | enst00000463855 | sg00000140718 | fto-204 | 16 | 53911256 | 54114463 | + | mRNA | protein_coding |
| 374996 | enst00000637560 | sg00000283258 | ac007491.1-201 | 16 | 54628963 | 54657662 | - | lnc_RNA | lncrna |
| -392603 | enst00000637062 | sg00000140718 | fto-219 | 16 | 53888894 | 53935847 | + | mRNA | protein_coding |
| -394567 | enst00000460382 | sg00000140718 | fto-203 | 16 | 53886930 | 54112987 | + | mRNA | protein_coding |
| -394580 | enst00000431610 | sg00000140718 | fto-202 | 16 | 53886917 | 54112138 | + | mRNA | protein_coding |
| -401653 | enst00000612285 | sg00000140718 | fto-210 | 16 | 53879844 | 54153448 | + | mRNA | protein_coding |
| -455136 | enst00000563011 | sg00000140718 | fto-208 | 16 | 53826361 | 54040726 | + | mRNA | protein_coding |
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