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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 |
|---|---|---|---|---|---|---|---|---|
| #28 | 6 | 137487832 | 137489432 | 1600 | 3 | 55 | 5.21553e-25 | 1.85245e-22 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 4962 | enst00000367734 | sg00000177468 | olig3-201 | 6 | 137492199 | 137494394 | - | mRNA | protein_coding |
| 54940 | enst00000418879 | sg00000213108 | btf3l4p3-201 | 6 | 137543897 | 137544372 | - | pseudogenic_transcript | processed_pseudogene |
| 168566 | enst00000642830 | sg00000230533 | al356234.2-201 | 6 | 137657998 | 137674554 | + | lnc_RNA | lncrna |
| 183940 | enst00000656030 | sg00000230533 | al356234.2-205 | 6 | 137673372 | 137674559 | + | lnc_RNA | lncrna |
| 183946 | enst00000638039 | sg00000230533 | al356234.2-202 | 6 | 137673378 | 137689908 | + | lnc_RNA | lncrna |
| 183951 | enst00000635999 | sg00000230533 | al356234.2-203 | 6 | 137673383 | 137763984 | + | lnc_RNA | lncrna |
| 183965 | enst00000440397 | sg00000230533 | al356234.2-208 | 6 | 137673397 | 137674554 | + | lnc_RNA | lncrna |
| 183970 | enst00000646621 | sg00000230533 | al356234.2-204 | 6 | 137673402 | 137717276 | + | lnc_RNA | lncrna |
| 183992 | enst00000666119 | sg00000230533 | al356234.2-209 | 6 | 137673424 | 137688502 | + | lnc_RNA | lncrna |
| 184019 | enst00000669661 | sg00000230533 | al356234.2-207 | 6 | 137673451 | 137674163 | + | lnc_RNA | lncrna |
| 184347 | enst00000671417 | sg00000230533 | al356234.2-206 | 6 | 137673779 | 137674554 | + | lnc_RNA | lncrna |
| 203636 | enst00000637996 | sg00000283265 | al356234.3-201 | 6 | 137693068 | 137700415 | + | lnc_RNA | lncrna |
| 217769 | enst00000404534 | sg00000220412 | al356234.1-201 | 6 | 137705423 | 137707201 | - | pseudogenic_transcript | processed_pseudogene |
| 249551 | enst00000411615 | sg00000234956 | linc02539-201 | 6 | 137730170 | 137738983 | - | lnc_RNA | lncrna |
| 249551 | enst00000419220 | sg00000234956 | linc02539-202 | 6 | 137730170 | 137738983 | - | lnc_RNA | lncrna |
| 249655 | enst00000668179 | sg00000234956 | linc02539-204 | 6 | 137730170 | 137739087 | - | lnc_RNA | lncrna |
| -268383 | enst00000478333 | sg00000027697 | ifngr1-204 | 6 | 137206642 | 137219449 | - | lnc_RNA | processed_transcript |
| -268383 | enst00000367739 | sg00000027697 | ifngr1-201 | 6 | 137197484 | 137219449 | - | mRNA | protein_coding |
| -268383 | enst00000414770 | sg00000027697 | ifngr1-202 | 6 | 137204363 | 137219449 | - | mRNA | protein_coding |
| -268383 | enst00000458076 | sg00000027697 | ifngr1-203 | 6 | 137203499 | 137219449 | - | mRNA | protein_coding |
| -268519 | enst00000645045 | sg00000027697 | ifngr1-208 | 6 | 137197485 | 137219313 | - | mRNA | nonsense_mediated_decay |
| -268520 | enst00000643119 | sg00000027697 | ifngr1-206 | 6 | 137197485 | 137219312 | - | mRNA | nonsense_mediated_decay |
| -268588 | enst00000644894 | sg00000027697 | ifngr1-207 | 6 | 137197497 | 137219244 | - | mRNA | protein_coding |
| -268672 | enst00000646898 | sg00000027697 | ifngr1-211 | 6 | 137197497 | 137219160 | - | mRNA | protein_coding |
| -268696 | enst00000646036 | sg00000027697 | ifngr1-210 | 6 | 137197497 | 137219136 | - | mRNA | protein_coding |
| -268710 | enst00000645753 | sg00000027697 | ifngr1-209 | 6 | 137197497 | 137219122 | - | mRNA | protein_coding |
| -268768 | enst00000642390 | sg00000027697 | ifngr1-205 | 6 | 137197497 | 137219064 | - | mRNA | protein_coding |
| -268804 | enst00000647124 | sg00000027697 | ifngr1-212 | 6 | 137197497 | 137219028 | - | mRNA | protein_coding |
| 294942 | enst00000384570 | sg00000207300 | al357060.1-201 | 6 | 137784374 | 137784486 | + | ncRNA | misc_rna |
| 303403 | enst00000645996 | sg00000234956 | linc02539-203 | 6 | 137730170 | 137792835 | - | lnc_RNA | lncrna |
| -314184 | enst00000349184 | sg00000164485 | il22ra2-203 | 6 | 137143820 | 137173648 | - | mRNA | protein_coding |
| -314184 | enst00000339602 | sg00000164485 | il22ra2-202 | 6 | 137143831 | 137173648 | - | mRNA | protein_coding |
| -314188 | enst00000296980 | sg00000164485 | il22ra2-201 | 6 | 137143820 | 137173644 | - | mRNA | protein_coding |
| 336462 | enst00000440578 | sg00000237499 | wakmar2-202 | 6 | 137823673 | 137825894 | - | lnc_RNA | lncrna |
| 368616 | enst00000606327 | sg00000237499 | wakmar2-204 | 6 | 137854862 | 137858048 | - | lnc_RNA | lncrna |
| 372059 | enst00000431144 | sg00000237499 | wakmar2-201 | 6 | 137857700 | 137861491 | - | lnc_RNA | lncrna |
| 377782 | enst00000421450 | sg00000118503 | tnfaip3-203 | 6 | 137867214 | 137871304 | + | mRNA | protein_coding |
| 377827 | enst00000612899 | sg00000118503 | tnfaip3-206 | 6 | 137867259 | 137883312 | + | mRNA | protein_coding |
| 377890 | enst00000420009 | sg00000118503 | tnfaip3-202 | 6 | 137867322 | 137875035 | + | mRNA | protein_coding |
| 378012 | enst00000237289 | sg00000118503 | tnfaip3-201 | 6 | 137867444 | 137883312 | + | mRNA | protein_coding |
| 378150 | enst00000433680 | sg00000118503 | tnfaip3-204 | 6 | 137867582 | 137871522 | + | mRNA | protein_coding |
| 378272 | enst00000607671 | sg00000237499 | wakmar2-206 | 6 | 137857593 | 137867704 | - | lnc_RNA | lncrna |
| 378272 | enst00000448942 | sg00000237499 | wakmar2-203 | 6 | 137857286 | 137867704 | - | lnc_RNA | lncrna |
| 378297 | enst00000662141 | sg00000237499 | wakmar2-207 | 6 | 137854852 | 137867729 | - | lnc_RNA | lncrna |
| 378801 | enst00000606998 | sg00000237499 | wakmar2-205 | 6 | 137823675 | 137868233 | - | lnc_RNA | lncrna |
| 381779 | enst00000614035 | sg00000118503 | tnfaip3-207 | 6 | 137871211 | 137878860 | + | mRNA | protein_coding |
| 381779 | enst00000621150 | sg00000118503 | tnfaip3-211 | 6 | 137871211 | 137879043 | + | mRNA | protein_coding |
| 381779 | enst00000615468 | sg00000118503 | tnfaip3-208 | 6 | 137871211 | 137882748 | + | mRNA | protein_coding |
| 381779 | enst00000620204 | sg00000118503 | tnfaip3-210 | 6 | 137871211 | 137882748 | + | mRNA | protein_coding |
| 381779 | enst00000619035 | sg00000118503 | tnfaip3-209 | 6 | 137871211 | 137881198 | + | mRNA | protein_coding |
| 386406 | enst00000485192 | sg00000118503 | tnfaip3-205 | 6 | 137875838 | 137878525 | + | lnc_RNA | processed_transcript |
| 414144 | enst00000667736 | sg00000287393 | al591468.1-201 | 6 | 137900585 | 137903576 | - | lnc_RNA | lncrna |
| -442652 | enst00000367748 | sg00000016402 | il20ra-203 | 6 | 136999971 | 137045180 | - | mRNA | protein_coding |
| -442868 | enst00000316649 | sg00000016402 | il20ra-201 | 6 | 136999971 | 137044964 | - | mRNA | protein_coding |
| -442868 | enst00000460306 | sg00000016402 | il20ra-204 | 6 | 137037975 | 137044964 | - | mRNA | nonsense_mediated_decay |
| -442868 | enst00000367746 | sg00000016402 | il20ra-202 | 6 | 137008888 | 137044964 | - | mRNA | protein_coding |
| -442868 | enst00000468393 | sg00000016402 | il20ra-206 | 6 | 137004621 | 137044964 | - | mRNA | protein_coding |
| -443520 | enst00000541547 | sg00000016402 | il20ra-207 | 6 | 136999971 | 137044312 | - | mRNA | protein_coding |
| -443554 | enst00000635289 | sg00000016402 | il20ra-208 | 6 | 137008656 | 137044278 | - | mRNA | protein_coding |
| -443584 | enst00000461799 | sg00000016402 | il20ra-205 | 6 | 137037927 | 137044248 | - | lnc_RNA | processed_transcript |
| 455934 | enst00000417800 | sg00000229922 | linc02865-201 | 6 | 137945366 | 137972522 | + | lnc_RNA | lncrna |
| 455934 | enst00000434437 | sg00000229922 | linc02865-202 | 6 | 137945366 | 137951574 | + | lnc_RNA | lncrna |
| 456370 | enst00000417932 | sg00000226004 | linc02528-201 | 6 | 137943079 | 137945802 | - | lnc_RNA | lncrna |
| -492662 | enst00000458017 | sg00000235399 | al135902.2-201 | 6 | 136995170 | 136999504 | + | lnc_RNA | lncrna |
| -494598 | enst00000432330 | sg00000225391 | al135902.1-201 | 6 | 136982165 | 136993234 | - | lnc_RNA | lncrna |
| -494598 | enst00000418699 | sg00000225391 | al135902.1-202 | 6 | 136982165 | 136993234 | - | 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