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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 |
|---|---|---|---|---|---|---|---|---|
| #51 | 10 | 99521271 | 99522611 | 1340 | 3 | 47 | 3.64859e-21 | 7.11476e-19 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 4337 | enst00000452494 | sg00000228778 | al513542.1-201 | 10 | 99526948 | 99528467 | + | lnc_RNA | lncrna |
| 4832 | enst00000552096 | sg00000257582 | linc01475-202 | 10 | 99526350 | 99527443 | - | lnc_RNA | lncrna |
| 8566 | enst00000548010 | sg00000257582 | linc01475-201 | 10 | 99526350 | 99531177 | - | lnc_RNA | lncrna |
| 10331 | enst00000344586 | sg00000119919 | nkx2-3-201 | 10 | 99532942 | 99536524 | + | mRNA | protein_coding |
| 10342 | enst00000622383 | sg00000119919 | nkx2-3-202 | 10 | 99532953 | 99536521 | + | mRNA | protein_coding |
| -87726 | enst00000641293 | sg00000224934 | al391684.1-203 | 10 | 99433545 | 99461743 | + | lnc_RNA | lncrna |
| -88756 | enst00000659667 | sg00000224934 | al391684.1-209 | 10 | 99432515 | 99436221 | + | lnc_RNA | lncrna |
| -89638 | enst00000652903 | sg00000224934 | al391684.1-208 | 10 | 99431633 | 99436232 | + | lnc_RNA | lncrna |
| -90080 | enst00000416191 | sg00000224934 | al391684.1-202 | 10 | 99431191 | 99438117 | + | lnc_RNA | lncrna |
| -90133 | enst00000669986 | sg00000224934 | al391684.1-207 | 10 | 99431138 | 99463259 | + | lnc_RNA | lncrna |
| -90335 | enst00000668010 | sg00000224934 | al391684.1-206 | 10 | 99430936 | 99436183 | + | lnc_RNA | lncrna |
| -90341 | enst00000657109 | sg00000224934 | al391684.1-205 | 10 | 99430930 | 99438065 | + | lnc_RNA | lncrna |
| -90341 | enst00000662162 | sg00000224934 | al391684.1-204 | 10 | 99430930 | 99463038 | + | lnc_RNA | lncrna |
| -90352 | enst00000647895 | sg00000224934 | al391684.1-201 | 10 | 99430919 | 99438098 | + | lnc_RNA | lncrna |
| -90647 | enst00000471741 | sg00000120053 | got1-202 | 10 | 99420267 | 99430624 | - | lnc_RNA | processed_transcript |
| -90647 | enst00000370508 | sg00000120053 | got1-201 | 10 | 99396870 | 99430624 | - | mRNA | protein_coding |
| 97536 | enst00000434701 | sg00000155287 | slc25a28-202 | 10 | 99610522 | 99620147 | - | mRNA | protein_coding |
| 97558 | enst00000479722 | sg00000155287 | slc25a28-203 | 10 | 99613469 | 99620169 | - | lnc_RNA | retained_intron |
| 97828 | enst00000370495 | sg00000155287 | slc25a28-201 | 10 | 99610522 | 99620439 | - | mRNA | protein_coding |
| 97998 | enst00000496035 | sg00000155287 | slc25a28-204 | 10 | 99610986 | 99620609 | - | lnc_RNA | processed_transcript |
| 98444 | enst00000566847 | sg00000260475 | al353719.1-201 | 10 | 99621055 | 99621918 | + | lnc_RNA | lncrna |
| -117522 | enst00000489349 | sg00000120053 | got1-203 | 10 | 99397465 | 99403749 | - | lnc_RNA | processed_transcript |
| 136673 | enst00000452391 | sg00000229278 | al133353.1-201 | 10 | 99651595 | 99659284 | - | lnc_RNA | lncrna |
| 136898 | enst00000370489 | sg00000198018 | entpd7-201 | 10 | 99659509 | 99711241 | + | mRNA | protein_coding |
| -152934 | enst00000488090 | sg00000119946 | cnnm1-202 | 10 | 99368337 | 99377328 | + | lnc_RNA | processed_transcript |
| 175338 | enst00000418955 | sg00000233690 | ebag9p1-201 | 10 | 99697407 | 99697949 | - | pseudogenic_transcript | processed_pseudogene |
| 176055 | enst00000472998 | sg00000198018 | entpd7-202 | 10 | 99698666 | 99702674 | + | mRNA | nonsense_mediated_decay |
| 179947 | enst00000493385 | sg00000119929 | cutc-204 | 10 | 99702558 | 99743323 | + | lnc_RNA | processed_transcript |
| -191915 | enst00000356713 | sg00000119946 | cnnm1-201 | 10 | 99329356 | 99394330 | + | mRNA | protein_coding |
| 194035 | enst00000497381 | sg00000014919 | cox15-203 | 10 | 99714652 | 99716646 | - | lnc_RNA | retained_intron |
| 209489 | enst00000016171 | sg00000014919 | cox15-201 | 10 | 99713515 | 99732100 | - | mRNA | protein_coding |
| 209489 | enst00000370483 | sg00000014919 | cox15-202 | 10 | 99711844 | 99732100 | - | mRNA | protein_coding |
| 209501 | enst00000649102 | sg00000285932 | al133353.2-201 | 10 | 99651595 | 99732112 | - | mRNA | nonsense_mediated_decay |
| 209623 | enst00000370476 | sg00000119929 | cutc-202 | 10 | 99732234 | 99756134 | + | mRNA | protein_coding |
| 209670 | enst00000471520 | sg00000119929 | cutc-203 | 10 | 99732281 | 99755708 | + | mRNA | nonsense_mediated_decay |
| 209785 | enst00000370472 | sg00000119929 | cutc-201 | 10 | 99732396 | 99754550 | + | mRNA | protein_coding |
| 260029 | enst00000648689 | sg00000023839 | abcc2-207 | 10 | 99782640 | 99794348 | + | mRNA | protein_coding |
| 260029 | enst00000647814 | sg00000023839 | abcc2-203 | 10 | 99782640 | 99852594 | + | mRNA | protein_coding |
| 260029 | enst00000647836 | sg00000023839 | abcc2-204 | 10 | 99782640 | 99796692 | + | lnc_RNA | processed_transcript |
| 260094 | enst00000648324 | sg00000023839 | abcc2-205 | 10 | 99782705 | 99799215 | + | mRNA | nonsense_mediated_decay |
| 260094 | enst00000649932 | sg00000023839 | abcc2-210 | 10 | 99782705 | 99799220 | + | mRNA | nonsense_mediated_decay |
| 260152 | enst00000370434 | sg00000023839 | abcc2-201 | 10 | 99782763 | 99798096 | + | lnc_RNA | retained_intron |
| 260192 | enst00000649493 | sg00000023839 | abcc2-209 | 10 | 99782803 | 99799220 | + | mRNA | nonsense_mediated_decay |
| 266799 | enst00000429190 | sg00000227351 | nanogp6-201 | 10 | 99788564 | 99789410 | - | pseudogenic_transcript | processed_pseudogene |
| 269678 | enst00000496621 | sg00000023839 | abcc2-202 | 10 | 99792289 | 99794623 | + | lnc_RNA | processed_transcript |
| -285409 | enst00000370549 | sg00000172987 | hpse2-202 | 10 | 98459118 | 99235862 | - | mRNA | protein_coding |
| -285409 | enst00000628193 | sg00000172987 | hpse2-206 | 10 | 98459317 | 99235862 | - | mRNA | protein_coding |
| -285409 | enst00000370552 | sg00000172987 | hpse2-203 | 10 | 98459118 | 99235862 | - | mRNA | protein_coding |
| -285469 | enst00000614306 | sg00000172987 | hpse2-205 | 10 | 99232349 | 99235802 | - | mRNA | protein_coding |
| -285469 | enst00000370546 | sg00000172987 | hpse2-201 | 10 | 98459574 | 99235802 | - | mRNA | protein_coding |
| 321099 | enst00000649459 | sg00000023839 | abcc2-208 | 10 | 99843710 | 99850713 | + | lnc_RNA | retained_intron |
| 323138 | enst00000648523 | sg00000023839 | abcc2-206 | 10 | 99845749 | 99852044 | + | mRNA | nonsense_mediated_decay |
| 366884 | enst00000472036 | sg00000107554 | dnmbp-202 | 10 | 99886404 | 99889495 | - | lnc_RNA | retained_intron |
| 391471 | enst00000543621 | sg00000107554 | dnmbp-203 | 10 | 99875577 | 99914082 | - | mRNA | protein_coding |
| 404399 | enst00000427093 | sg00000227695 | dnmbp-as1-201 | 10 | 99927010 | 99929838 | + | lnc_RNA | lncrna |
| 404548 | enst00000661385 | sg00000227695 | dnmbp-as1-204 | 10 | 99927159 | 99959050 | + | lnc_RNA | lncrna |
| 404594 | enst00000661150 | sg00000227695 | dnmbp-as1-203 | 10 | 99927205 | 99958270 | + | lnc_RNA | lncrna |
| 404598 | enst00000434409 | sg00000227695 | dnmbp-as1-202 | 10 | 99927209 | 99958649 | + | lnc_RNA | lncrna |
| 408385 | enst00000636706 | sg00000107554 | dnmbp-204 | 10 | 99875577 | 99930996 | - | mRNA | protein_coding |
| -473632 | enst00000444633 | sg00000234109 | rpl7p36-201 | 10 | 99047639 | 99048319 | + | pseudogenic_transcript | processed_pseudogene |
| 487336 | enst00000324109 | sg00000107554 | dnmbp-201 | 10 | 99875577 | 100009947 | - | 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