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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 |
|---|---|---|---|---|---|---|---|---|
| #162 | 2 | 236159308 | 236160358 | 1050 | 3 | 34 | 4.26871e-15 | 2.62051e-13 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -6136 | enst00000384322 | sg00000207049 | ac079135.1-201 | 2 | 236153071 | 236153172 | - | ncRNA | misc_rna |
| 6971 | enst00000465889 | sg00000168505 | gbx2-202 | 2 | 236165734 | 236167329 | - | lnc_RNA | processed_transcript |
| 7089 | enst00000415226 | sg00000233611 | ac019068.1-201 | 2 | 236167447 | 236294927 | + | lnc_RNA | lncrna |
| 7107 | enst00000483218 | sg00000233611 | ac019068.1-202 | 2 | 236167465 | 236214225 | + | lnc_RNA | lncrna |
| 7651 | enst00000551105 | sg00000168505 | gbx2-203 | 2 | 236165729 | 236168009 | - | mRNA | protein_coding |
| 8028 | enst00000306318 | sg00000168505 | gbx2-201 | 2 | 236165236 | 236168386 | - | mRNA | protein_coding |
| 50190 | enst00000363875 | sg00000200745 | rnu1-31p-201 | 2 | 236210373 | 236210548 | - | snRNA | snrna |
| 54243 | enst00000447030 | sg00000182177 | asb18-203 | 2 | 236196058 | 236214601 | - | mRNA | protein_coding |
| 81162 | enst00000645891 | sg00000182177 | asb18-206 | 2 | 236194872 | 236241520 | - | mRNA | protein_coding |
| -87013 | enst00000582831 | sg00000264676 | rn7sl204p-201 | 2 | 236072295 | 236072556 | + | ncRNA | misc_rna |
| 93813 | enst00000469508 | sg00000182177 | asb18-204 | 2 | 236250541 | 236254171 | - | lnc_RNA | processed_transcript |
| 103987 | enst00000409749 | sg00000182177 | asb18-201 | 2 | 236194872 | 236264345 | - | mRNA | protein_coding |
| 104002 | enst00000487961 | sg00000182177 | asb18-205 | 2 | 236247329 | 236264360 | - | lnc_RNA | retained_intron |
| 104051 | enst00000430053 | sg00000182177 | asb18-202 | 2 | 236214754 | 236264409 | - | mRNA | protein_coding |
| -113371 | enst00000453371 | sg00000157985 | agap1-209 | 2 | 236045937 | 236125482 | + | lnc_RNA | processed_transcript |
| -118557 | enst00000482882 | sg00000157985 | agap1-211 | 2 | 236040751 | 236049831 | + | lnc_RNA | retained_intron |
| -118696 | enst00000466575 | sg00000157985 | agap1-210 | 2 | 236040612 | 236120279 | + | lnc_RNA | retained_intron |
| -122058 | enst00000458845 | sg00000238812 | rnu7-127p-201 | 2 | 236037250 | 236037311 | + | snRNA | snrna |
| 171698 | enst00000479471 | sg00000132321 | iqca1-209 | 2 | 236324691 | 236332056 | - | lnc_RNA | retained_intron |
| 173005 | enst00000479783 | sg00000132321 | iqca1-210 | 2 | 236324671 | 236333363 | - | lnc_RNA | retained_intron |
| 186393 | enst00000409100 | sg00000132321 | iqca1-203 | 2 | 236324653 | 236346751 | - | lnc_RNA | processed_transcript |
| 207202 | enst00000605740 | sg00000270540 | ac093915.1-201 | 2 | 236367560 | 236369102 | + | lnc_RNA | lncrna |
| 230716 | enst00000413353 | sg00000232893 | iqca1-as1-201 | 2 | 236391074 | 236392388 | + | lnc_RNA | lncrna |
| 248719 | enst00000441645 | sg00000231546 | rpl3p5-201 | 2 | 236407846 | 236409077 | - | pseudogenic_transcript | transcribed_processed_pseudogene |
| -250466 | enst00000418654 | sg00000157985 | agap1-206 | 2 | 235908842 | 236120246 | + | mRNA | protein_coding |
| 252533 | enst00000467572 | sg00000132321 | iqca1-208 | 2 | 236380613 | 236412891 | - | lnc_RNA | processed_transcript |
| -275913 | enst00000448025 | sg00000157985 | agap1-208 | 2 | 235883395 | 236036697 | + | mRNA | protein_coding |
| -276815 | enst00000415070 | sg00000228499 | tmsb10p1-201 | 2 | 235882362 | 235882493 | - | pseudogenic_transcript | processed_pseudogene |
| 294753 | enst00000465621 | sg00000132321 | iqca1-207 | 2 | 236392329 | 236455111 | - | lnc_RNA | processed_transcript |
| 343338 | enst00000418802 | sg00000132321 | iqca1-205 | 2 | 236377116 | 236503696 | - | mRNA | protein_coding |
| 343339 | enst00000431676 | sg00000132321 | iqca1-206 | 2 | 236324147 | 236503697 | - | mRNA | protein_coding |
| 347118 | enst00000409907 | sg00000132321 | iqca1-204 | 2 | 236324151 | 236507476 | - | mRNA | protein_coding |
| 347174 | enst00000254653 | sg00000132321 | iqca1-201 | 2 | 236324151 | 236507532 | - | mRNA | nonsense_mediated_decay |
| 347177 | enst00000309507 | sg00000132321 | iqca1-202 | 2 | 236324147 | 236507535 | - | mRNA | protein_coding |
| -375921 | enst00000440101 | sg00000222007 | ac064874.1-202 | 2 | 235773855 | 235783387 | - | lnc_RNA | lncrna |
| -383514 | enst00000409661 | sg00000222007 | ac064874.1-201 | 2 | 235773855 | 235775794 | - | lnc_RNA | lncrna |
| 407429 | enst00000447924 | sg00000144476 | ackr3-202 | 2 | 236567787 | 236581097 | + | mRNA | protein_coding |
| 409467 | enst00000272928 | sg00000144476 | ackr3-201 | 2 | 236569825 | 236582354 | + | mRNA | protein_coding |
| -450130 | enst00000428334 | sg00000157985 | agap1-207 | 2 | 235709178 | 236131800 | + | mRNA | protein_coding |
| -450131 | enst00000614409 | sg00000157985 | agap1-212 | 2 | 235709177 | 236131800 | + | mRNA | protein_coding |
| -450131 | enst00000619456 | sg00000157985 | agap1-213 | 2 | 235709177 | 235852853 | + | mRNA | protein_coding |
| -489704 | enst00000409538 | sg00000157985 | agap1-205 | 2 | 235669604 | 236126554 | + | 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