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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 |
|---|---|---|---|---|---|---|---|---|
| #105 | 12 | 80707849 | 80709118 | 1269 | 3 | 39 | 2.20658e-17 | 2.08995e-15 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -215 | enst00000228641 | sg00000111046 | myf6-201 | 12 | 80707634 | 80709474 | + | mRNA | protein_coding |
| 7794 | enst00000228644 | sg00000111049 | myf5-201 | 12 | 80716912 | 80719671 | + | mRNA | protein_coding |
| 54033 | enst00000655211 | sg00000257741 | linc01490-205 | 12 | 80763151 | 80770331 | + | lnc_RNA | lncrna |
| 54036 | enst00000551399 | sg00000257741 | linc01490-202 | 12 | 80763154 | 80770717 | + | lnc_RNA | lncrna |
| 54036 | enst00000548705 | sg00000257741 | linc01490-201 | 12 | 80763154 | 80769891 | + | lnc_RNA | lncrna |
| 54037 | enst00000669331 | sg00000257741 | linc01490-211 | 12 | 80763155 | 80770717 | + | lnc_RNA | lncrna |
| 54039 | enst00000663278 | sg00000257741 | linc01490-208 | 12 | 80763157 | 80770717 | + | lnc_RNA | lncrna |
| 54072 | enst00000653991 | sg00000257741 | linc01490-204 | 12 | 80763190 | 80770311 | + | lnc_RNA | lncrna |
| 54075 | enst00000653130 | sg00000257741 | linc01490-203 | 12 | 80763193 | 80767627 | + | lnc_RNA | lncrna |
| 54077 | enst00000658715 | sg00000257741 | linc01490-207 | 12 | 80763195 | 80770301 | + | lnc_RNA | lncrna |
| 54077 | enst00000668136 | sg00000257741 | linc01490-210 | 12 | 80763195 | 80770301 | + | lnc_RNA | lncrna |
| 54085 | enst00000656352 | sg00000257741 | linc01490-206 | 12 | 80763203 | 80770301 | + | lnc_RNA | lncrna |
| 54092 | enst00000664923 | sg00000257741 | linc01490-209 | 12 | 80763210 | 80770301 | + | lnc_RNA | lncrna |
| -73179 | enst00000549355 | sg00000139304 | ptprq-204 | 12 | 80634670 | 80652824 | + | lnc_RNA | retained_intron |
| -75627 | enst00000547881 | sg00000139304 | ptprq-203 | 12 | 80632222 | 80658051 | + | mRNA | protein_coding |
| -114148 | enst00000550634 | sg00000257429 | ac074031.1-201 | 12 | 80583683 | 80593701 | - | lnc_RNA | lncrna |
| 123511 | enst00000385030 | sg00000207763 | mir617-201 | 12 | 80832533 | 80832629 | - | miRNA | mirna |
| -146289 | enst00000547384 | sg00000257786 | akirin1p1-201 | 12 | 80561017 | 80561560 | - | pseudogenic_transcript | processed_pseudogene |
| 152390 | enst00000549144 | sg00000258215 | ac078886.1-201 | 12 | 80860955 | 80861508 | - | pseudogenic_transcript | processed_pseudogene |
| -165593 | enst00000551624 | sg00000139304 | ptprq-207 | 12 | 80542256 | 80547123 | + | lnc_RNA | retained_intron |
| 180230 | enst00000552093 | sg00000111052 | lin7a-203 | 12 | 80845564 | 80889348 | - | mRNA | protein_coding |
| -195207 | enst00000547485 | sg00000139304 | ptprq-202 | 12 | 80512642 | 80539838 | + | lnc_RNA | processed_transcript |
| 226715 | enst00000385287 | sg00000208022 | mir618-201 | 12 | 80935736 | 80935833 | - | miRNA | mirna |
| 227296 | enst00000616449 | sg00000111058 | acss3-208 | 12 | 80936414 | 80940246 | + | lnc_RNA | processed_transcript |
| 228586 | enst00000549417 | sg00000111052 | lin7a-202 | 12 | 80841689 | 80937704 | - | mRNA | protein_coding |
| 228662 | enst00000261203 | sg00000111052 | lin7a-201 | 12 | 80797575 | 80937780 | - | mRNA | nonsense_mediated_decay |
| 228697 | enst00000549175 | sg00000111058 | acss3-206 | 12 | 80937815 | 81134963 | + | mRNA | protein_coding |
| 228741 | enst00000650935 | sg00000111058 | acss3-209 | 12 | 80937859 | 80951061 | + | lnc_RNA | processed_transcript |
| 228807 | enst00000552864 | sg00000111052 | lin7a-204 | 12 | 80792520 | 80937925 | - | mRNA | protein_coding |
| 234928 | enst00000651903 | sg00000111058 | acss3-210 | 12 | 80944046 | 80949589 | + | lnc_RNA | processed_transcript |
| -263614 | enst00000644991 | sg00000139304 | ptprq-210 | 12 | 80444235 | 80680273 | + | mRNA | protein_coding |
| -272766 | enst00000616559 | sg00000139304 | ptprq-208 | 12 | 80435083 | 80680189 | + | mRNA | protein_coding |
| -287092 | enst00000551573 | sg00000139304 | ptprq-206 | 12 | 80420757 | 80445524 | + | mRNA | protein_coding |
| -287096 | enst00000547376 | sg00000139304 | ptprq-201 | 12 | 80420753 | 80445524 | + | mRNA | protein_coding |
| -301855 | enst00000551042 | sg00000139304 | ptprq-205 | 12 | 80405994 | 80445717 | + | mRNA | protein_coding |
| -305671 | enst00000623635 | sg00000139304 | ptprq-209 | 12 | 80402178 | 80409550 | + | lnc_RNA | processed_transcript |
| -340148 | enst00000550182 | sg00000165899 | otogl-205 | 12 | 80367701 | 80370838 | + | mRNA | protein_coding |
| -349560 | enst00000642294 | sg00000165899 | otogl-207 | 12 | 80358289 | 80378756 | + | mRNA | nonsense_mediated_decay |
| -351367 | enst00000551340 | sg00000165899 | otogl-206 | 12 | 80356482 | 80378859 | + | mRNA | nonsense_mediated_decay |
| -351495 | enst00000546620 | sg00000165899 | otogl-203 | 12 | 80356354 | 80379090 | + | lnc_RNA | retained_intron |
| -364057 | enst00000410948 | sg00000222880 | rn7skp261-201 | 12 | 80343515 | 80343792 | - | ncRNA | misc_rna |
| 368939 | enst00000261206 | sg00000111058 | acss3-201 | 12 | 81078057 | 81255466 | + | mRNA | protein_coding |
| 368961 | enst00000548058 | sg00000111058 | acss3-203 | 12 | 81078079 | 81261210 | + | mRNA | protein_coding |
| -371337 | enst00000298820 | sg00000165899 | otogl-201 | 12 | 80336512 | 80379079 | + | mRNA | protein_coding |
| 416727 | enst00000547123 | sg00000258026 | ac078955.1-201 | 12 | 81094375 | 81125845 | - | lnc_RNA | lncrna |
| 416745 | enst00000653205 | sg00000258026 | ac078955.1-202 | 12 | 81094371 | 81125863 | - | lnc_RNA | lncrna |
| 425677 | enst00000548387 | sg00000111058 | acss3-205 | 12 | 81134795 | 81143502 | + | lnc_RNA | retained_intron |
| 442533 | enst00000548324 | sg00000111058 | acss3-204 | 12 | 81151651 | 81255803 | + | lnc_RNA | retained_intron |
| 449270 | enst00000578957 | sg00000265227 | mir4699-201 | 12 | 81158388 | 81158461 | + | miRNA | mirna |
| 465440 | enst00000551745 | sg00000111058 | acss3-207 | 12 | 81174558 | 81199822 | + | lnc_RNA | retained_intron |
| 465714 | enst00000546664 | sg00000111058 | acss3-202 | 12 | 81174832 | 81220031 | + | mRNA | nonsense_mediated_decay |
| -498396 | enst00000458043 | sg00000165899 | otogl-202 | 12 | 80209453 | 80379090 | + | 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