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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 |
|---|---|---|---|---|---|---|---|---|
| #147 | 2 | 44944047 | 44945194 | 1147 | 3 | 35 | 9.76823e-16 | 6.60851e-14 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -2174 | enst00000419364 | sg00000236502 | six3-as1-201 | 2 | 44940154 | 44941873 | - | lnc_RNA | lncrna |
| -2345 | enst00000260653 | sg00000138083 | six3-201 | 2 | 44941702 | 44946071 | + | mRNA | protein_coding |
| -2553 | enst00000456467 | sg00000236502 | six3-as1-202 | 2 | 44940584 | 44941494 | - | lnc_RNA | lncrna |
| -4002 | enst00000621512 | sg00000276670 | ac012354.7-201 | 2 | 44940045 | 44940245 | + | ncRNA | misc_rna |
| -4848 | enst00000437916 | sg00000259439 | linc01833-203 | 2 | 44921077 | 44939199 | - | lnc_RNA | lncrna |
| -5159 | enst00000444871 | sg00000259439 | linc01833-204 | 2 | 44931122 | 44938888 | - | lnc_RNA | lncrna |
| -5214 | enst00000620790 | sg00000274547 | ac012354.4-201 | 2 | 44938833 | 44939028 | + | ncRNA | misc_rna |
| -6621 | enst00000611000 | sg00000276048 | ac012354.5-201 | 2 | 44937426 | 44937696 | + | ncRNA | misc_rna |
| -8403 | enst00000432125 | sg00000259439 | linc01833-202 | 2 | 44923035 | 44935644 | - | lnc_RNA | lncrna |
| -8462 | enst00000615706 | sg00000277809 | ac012354.9-201 | 2 | 44935585 | 44935908 | + | ncRNA | misc_rna |
| -8688 | enst00000430847 | sg00000259439 | linc01833-201 | 2 | 44929977 | 44935359 | - | lnc_RNA | lncrna |
| -8753 | enst00000622214 | sg00000276229 | ac012354.6-201 | 2 | 44935294 | 44935368 | + | ncRNA | misc_rna |
| 9470 | enst00000425325 | sg00000225156 | ac012354.1-201 | 2 | 44954664 | 44968762 | + | lnc_RNA | lncrna |
| -9992 | enst00000616963 | sg00000277311 | ac012354.8-201 | 2 | 44934055 | 44934271 | + | ncRNA | misc_rna |
| -11727 | enst00000620900 | sg00000274520 | ac012354.3-201 | 2 | 44932320 | 44932406 | + | ncRNA | misc_rna |
| -15651 | enst00000623734 | sg00000278957 | ac012354.10-201 | 2 | 44927914 | 44928396 | - | unconfirmed_transcript | tec |
| -21008 | enst00000560399 | sg00000259439 | linc01833-205 | 2 | 44921077 | 44923039 | - | lnc_RNA | lncrna |
| 51219 | enst00000423051 | sg00000231848 | ac012354.2-201 | 2 | 44996413 | 44996873 | + | pseudogenic_transcript | processed_pseudogene |
| 64258 | enst00000303077 | sg00000170577 | six2-201 | 2 | 45005182 | 45009452 | - | mRNA | protein_coding |
| 68474 | enst00000423433 | sg00000231156 | ac093702.1-201 | 2 | 45013214 | 45013668 | - | lnc_RNA | lncrna |
| 223389 | enst00000442821 | sg00000231054 | ac093833.1-201 | 2 | 45168583 | 45169414 | + | lnc_RNA | lncrna |
| 224422 | enst00000652791 | sg00000286728 | ac009236.2-201 | 2 | 45169616 | 45211673 | + | lnc_RNA | lncrna |
| 228528 | enst00000663266 | sg00000286519 | ac009236.1-201 | 2 | 45173722 | 45175935 | + | lnc_RNA | lncrna |
| 230017 | enst00000413669 | sg00000205054 | linc01121-202 | 2 | 45174340 | 45175211 | - | lnc_RNA | lncrna |
| -239762 | enst00000613618 | sg00000143919 | camkmt-210 | 2 | 44704285 | 44772113 | + | mRNA | protein_coding |
| 247091 | enst00000454673 | sg00000205054 | linc01121-205 | 2 | 45187170 | 45192285 | - | lnc_RNA | retained_intron |
| -267453 | enst00000477830 | sg00000143919 | camkmt-209 | 2 | 44676594 | 44743657 | + | lnc_RNA | processed_transcript |
| 309747 | enst00000378479 | sg00000205054 | linc01121-201 | 2 | 45174344 | 45254941 | - | lnc_RNA | lncrna |
| 378191 | enst00000427020 | sg00000205054 | linc01121-203 | 2 | 45164816 | 45323385 | - | lnc_RNA | lncrna |
| 378195 | enst00000658738 | sg00000205054 | linc01121-206 | 2 | 45164818 | 45323389 | - | lnc_RNA | lncrna |
| 378203 | enst00000430650 | sg00000205054 | linc01121-204 | 2 | 45191620 | 45323397 | - | 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