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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 |
|---|---|---|---|---|---|---|---|---|
| #24 | 4 | 80201275 | 80203807 | 2532 | 3 | 77 | 1.00667e-25 | 4.17139e-23 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -3772 | enst00000415738 | sg00000152784 | prdm8-202 | 4 | 80197503 | 80204329 | + | mRNA | protein_coding |
| -3865 | enst00000653209 | sg00000248719 | ac021127.1-201 | 4 | 80182637 | 80197410 | - | lnc_RNA | lncrna |
| -11106 | enst00000503589 | sg00000248719 | ac021127.1-202 | 4 | 80183280 | 80190169 | - | lnc_RNA | lncrna |
| -15907 | enst00000507025 | sg00000152784 | prdm8-205 | 4 | 80185368 | 80196497 | + | lnc_RNA | processed_transcript |
| -16005 | enst00000339711 | sg00000152784 | prdm8-201 | 4 | 80185270 | 80204326 | + | mRNA | protein_coding |
| -16005 | enst00000515013 | sg00000152784 | prdm8-210 | 4 | 80185270 | 80202745 | + | mRNA | protein_coding |
| -16973 | enst00000508061 | sg00000152784 | prdm8-206 | 4 | 80184302 | 80196601 | + | lnc_RNA | processed_transcript |
| -16990 | enst00000511825 | sg00000152784 | prdm8-209 | 4 | 80184285 | 80197195 | + | lnc_RNA | processed_transcript |
| -16990 | enst00000504452 | sg00000152784 | prdm8-203 | 4 | 80184285 | 80204329 | + | mRNA | protein_coding |
| -17011 | enst00000506547 | sg00000152784 | prdm8-204 | 4 | 80184264 | 80196419 | + | lnc_RNA | processed_transcript |
| -17394 | enst00000509375 | sg00000152784 | prdm8-208 | 4 | 80183881 | 80197121 | + | lnc_RNA | processed_transcript |
| -17396 | enst00000508965 | sg00000152784 | prdm8-207 | 4 | 80183879 | 80196598 | + | lnc_RNA | processed_transcript |
| -40146 | enst00000467439 | sg00000244002 | rpsap39-201 | 4 | 80161129 | 80162011 | + | pseudogenic_transcript | processed_pseudogene |
| 62792 | enst00000312465 | sg00000138675 | fgf5-201 | 4 | 80266599 | 80290194 | + | mRNA | protein_coding |
| 62832 | enst00000456523 | sg00000138675 | fgf5-203 | 4 | 80266639 | 80291017 | + | mRNA | protein_coding |
| 63018 | enst00000380628 | sg00000138675 | fgf5-202 | 4 | 80266825 | 80268518 | + | lnc_RNA | processed_transcript |
| 63135 | enst00000507780 | sg00000138675 | fgf5-205 | 4 | 80266942 | 80336680 | + | mRNA | nonsense_mediated_decay |
| 64458 | enst00000503413 | sg00000138675 | fgf5-204 | 4 | 80268265 | 80288958 | + | lnc_RNA | processed_transcript |
| -75821 | enst00000506286 | sg00000163297 | antxr2-208 | 4 | 80069436 | 80125454 | - | lnc_RNA | processed_transcript |
| -121675 | enst00000514959 | sg00000163297 | antxr2-209 | 4 | 80054281 | 80079600 | - | lnc_RNA | processed_transcript |
| -121743 | enst00000458289 | sg00000236530 | kpna2p1-201 | 4 | 80079532 | 80081122 | + | pseudogenic_transcript | processed_pseudogene |
| -127803 | enst00000404191 | sg00000163297 | antxr2-204 | 4 | 79907353 | 80073472 | - | mRNA | protein_coding |
| -128046 | enst00000403729 | sg00000163297 | antxr2-203 | 4 | 79901146 | 80073229 | - | mRNA | protein_coding |
| -128575 | enst00000346652 | sg00000163297 | antxr2-202 | 4 | 79977537 | 80072700 | - | mRNA | protein_coding |
| -128712 | enst00000307333 | sg00000163297 | antxr2-201 | 4 | 79977579 | 80072563 | - | mRNA | protein_coding |
| -129655 | enst00000449651 | sg00000163297 | antxr2-205 | 4 | 79905571 | 80071620 | - | mRNA | nonsense_mediated_decay |
| 131913 | enst00000358105 | sg00000197826 | cfap299-201 | 4 | 80335720 | 80963756 | + | mRNA | protein_coding |
| 131935 | enst00000514249 | sg00000197826 | cfap299-208 | 4 | 80335742 | 80649206 | + | mRNA | nonsense_mediated_decay |
| 131935 | enst00000512931 | sg00000197826 | cfap299-206 | 4 | 80335742 | 80649150 | + | lnc_RNA | processed_transcript |
| 131936 | enst00000502497 | sg00000197826 | cfap299-202 | 4 | 80335743 | 80790507 | + | lnc_RNA | processed_transcript |
| 131961 | enst00000513920 | sg00000197826 | cfap299-207 | 4 | 80335768 | 80873074 | + | mRNA | nonsense_mediated_decay |
| 131962 | enst00000508675 | sg00000197826 | cfap299-205 | 4 | 80335769 | 80963612 | + | mRNA | protein_coding |
| 131974 | enst00000503883 | sg00000197826 | cfap299-203 | 4 | 80335781 | 80583291 | + | lnc_RNA | processed_transcript |
| 184909 | enst00000506637 | sg00000232327 | ac105917.1-201 | 4 | 80386178 | 80388716 | - | pseudogenic_transcript | processed_pseudogene |
| -236178 | enst00000491345 | sg00000163297 | antxr2-207 | 4 | 79907170 | 79965097 | - | lnc_RNA | processed_transcript |
| -236385 | enst00000482406 | sg00000163297 | antxr2-206 | 4 | 79906762 | 79964890 | - | lnc_RNA | processed_transcript |
| -358173 | enst00000391318 | sg00000212620 | ac118141.1-201 | 4 | 79843102 | 79843228 | + | snoRNA | snorna |
| -373740 | enst00000514836 | sg00000251321 | pcat4-202 | 4 | 79827535 | 79877770 | + | lnc_RNA | lncrna |
| -373804 | enst00000504263 | sg00000251321 | pcat4-201 | 4 | 79827471 | 79863247 | + | lnc_RNA | lncrna |
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