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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 |
|---|---|---|---|---|---|---|---|---|
| #80 | 10 | 86363012 | 86364273 | 1261 | 3 | 43 | 5.47415e-19 | 6.80505e-17 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 2220 | enst00000464741 | sg00000182771 | grid1-202 | 10 | 85601994 | 86366493 | - | mRNA | nonsense_mediated_decay |
| 2522 | enst00000327946 | sg00000182771 | grid1-201 | 10 | 85599552 | 86366795 | - | mRNA | protein_coding |
| 35862 | enst00000656749 | sg00000287475 | al844892.2-202 | 10 | 86395195 | 86400135 | - | lnc_RNA | lncrna |
| 36060 | enst00000660918 | sg00000287475 | al844892.2-203 | 10 | 86395457 | 86400333 | - | lnc_RNA | lncrna |
| 36670 | enst00000670831 | sg00000287475 | al844892.2-201 | 10 | 86395187 | 86400943 | - | lnc_RNA | lncrna |
| 38928 | enst00000671245 | sg00000286359 | al844892.1-201 | 10 | 86402119 | 86403201 | - | lnc_RNA | lncrna |
| 79759 | enst00000484070 | sg00000062650 | wapl-204 | 10 | 86435256 | 86444032 | - | lnc_RNA | retained_intron |
| -98224 | enst00000362234 | sg00000199104 | mir346-201 | 10 | 86264694 | 86264788 | - | miRNA | mirna |
| 103233 | enst00000372075 | sg00000062650 | wapl-203 | 10 | 86437010 | 86467506 | - | mRNA | protein_coding |
| 108014 | enst00000489996 | sg00000062650 | wapl-205 | 10 | 86467053 | 86472287 | - | lnc_RNA | processed_transcript |
| 124173 | enst00000391030 | sg00000212332 | rnu6-780p-201 | 10 | 86488446 | 86488549 | + | snRNA | snrna |
| 157495 | enst00000263070 | sg00000062650 | wapl-201 | 10 | 86435257 | 86521768 | - | mRNA | protein_coding |
| 157495 | enst00000618527 | sg00000062650 | wapl-206 | 10 | 86435257 | 86521768 | - | mRNA | protein_coding |
| 157519 | enst00000298767 | sg00000062650 | wapl-202 | 10 | 86435256 | 86521792 | - | mRNA | protein_coding |
| 157672 | enst00000428940 | sg00000227896 | al731569.1-201 | 10 | 86521945 | 86525101 | + | lnc_RNA | lncrna |
| 267355 | enst00000481963 | sg00000230507 | rpl7ap8-201 | 10 | 86630825 | 86631628 | - | pseudogenic_transcript | processed_pseudogene |
| 290274 | enst00000241891 | sg00000122375 | opn4-201 | 10 | 86654547 | 86666460 | + | mRNA | protein_coding |
| 290284 | enst00000372071 | sg00000122375 | opn4-202 | 10 | 86654557 | 86666455 | + | mRNA | protein_coding |
| 290344 | enst00000443292 | sg00000122375 | opn4-203 | 10 | 86654617 | 86666848 | + | mRNA | protein_coding |
| 304176 | enst00000429277 | sg00000122367 | ldb3-205 | 10 | 86668449 | 86736068 | + | mRNA | protein_coding |
| 304234 | enst00000623056 | sg00000122367 | ldb3-209 | 10 | 86668507 | 86733001 | + | mRNA | protein_coding |
| 304340 | enst00000372066 | sg00000122367 | ldb3-204 | 10 | 86668613 | 86700041 | + | mRNA | protein_coding |
| 304398 | enst00000361373 | sg00000122367 | ldb3-202 | 10 | 86668671 | 86736068 | + | mRNA | protein_coding |
| 304419 | enst00000623007 | sg00000122367 | ldb3-208 | 10 | 86668692 | 86700045 | + | mRNA | protein_coding |
| 304419 | enst00000263066 | sg00000122367 | ldb3-201 | 10 | 86668692 | 86734995 | + | mRNA | protein_coding |
| 304419 | enst00000372056 | sg00000122367 | ldb3-203 | 10 | 86668692 | 86700045 | + | mRNA | protein_coding |
| 304419 | enst00000542786 | sg00000122367 | ldb3-207 | 10 | 86668692 | 86700043 | + | mRNA | protein_coding |
| -310564 | enst00000363617 | sg00000200487 | rna5sp322-201 | 10 | 86052448 | 86052566 | + | pseudogenic_transcript | rrna_pseudogene |
| 354457 | enst00000477489 | sg00000122367 | ldb3-206 | 10 | 86718730 | 86726451 | + | mRNA | protein_coding |
| 392025 | enst00000608826 | sg00000272631 | ac067750.1-201 | 10 | 86749754 | 86756298 | - | lnc_RNA | lncrna |
| 392328 | enst00000638429 | sg00000107779 | bmpr1a-205 | 10 | 86756601 | 86932825 | + | mRNA | nonsense_mediated_decay |
| 392377 | enst00000372037 | sg00000107779 | bmpr1a-201 | 10 | 86756650 | 86932838 | + | mRNA | protein_coding |
| 474589 | enst00000636056 | sg00000107779 | bmpr1a-204 | 10 | 86838862 | 86929738 | + | mRNA | nonsense_mediated_decay |
| 474589 | enst00000635816 | sg00000107779 | bmpr1a-203 | 10 | 86838862 | 86929746 | + | mRNA | nonsense_mediated_decay |
| 474666 | enst00000480152 | sg00000107779 | bmpr1a-202 | 10 | 86838939 | 86890117 | + | mRNA | protein_coding |
| 491963 | enst00000603626 | sg00000270874 | rpap2p1-201 | 10 | 86854696 | 86856236 | - | 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