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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 |
|---|---|---|---|---|---|---|---|---|
| #199 | 11 | 22340923 | 22341888 | 965 | 3 | 33 | 4.01839e-14 | 2.00818e-12 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 1089 | enst00000534115 | sg00000091664 | slc17a6-202 | 11 | 22342977 | 22360965 | + | lnc_RNA | retained_intron |
| -2542 | enst00000263160 | sg00000091664 | slc17a6-201 | 11 | 22338381 | 22379503 | + | mRNA | protein_coding |
| -2678 | enst00000528009 | sg00000254768 | ac104009.1-201 | 11 | 22283730 | 22338245 | - | lnc_RNA | lncrna |
| -2699 | enst00000530569 | sg00000254768 | ac104009.1-202 | 11 | 22317752 | 22338224 | - | lnc_RNA | lncrna |
| -2699 | enst00000531304 | sg00000254768 | ac104009.1-203 | 11 | 22319820 | 22338224 | - | lnc_RNA | lncrna |
| -2772 | enst00000665562 | sg00000254768 | ac104009.1-204 | 11 | 22332507 | 22338151 | - | lnc_RNA | lncrna |
| 17589 | enst00000648880 | sg00000091664 | slc17a6-203 | 11 | 22359477 | 22366369 | + | lnc_RNA | retained_intron |
| 20406 | enst00000534543 | sg00000254540 | ac040936.1-201 | 11 | 22361213 | 22362294 | - | lnc_RNA | lncrna |
| -70526 | enst00000532043 | sg00000171714 | ano5-202 | 11 | 22270397 | 22278034 | + | lnc_RNA | processed_transcript |
| -78667 | enst00000526935 | sg00000255372 | ac107886.1-201 | 11 | 22261209 | 22262256 | - | lnc_RNA | lncrna |
| -147747 | enst00000324559 | sg00000171714 | ano5-201 | 11 | 22193176 | 22283357 | + | mRNA | protein_coding |
| 150159 | enst00000534135 | sg00000255323 | linc01495-202 | 11 | 22445673 | 22492047 | - | lnc_RNA | lncrna |
| 150159 | enst00000532380 | sg00000255323 | linc01495-201 | 11 | 22445688 | 22492047 | - | lnc_RNA | lncrna |
| 150185 | enst00000653021 | sg00000255323 | linc01495-203 | 11 | 22445676 | 22492073 | - | lnc_RNA | lncrna |
| 150199 | enst00000656032 | sg00000255357 | ac055878.1-202 | 11 | 22492087 | 22510396 | + | lnc_RNA | lncrna |
| 150224 | enst00000531858 | sg00000255357 | ac055878.1-201 | 11 | 22492112 | 22502846 | + | lnc_RNA | lncrna |
| -170922 | enst00000659342 | sg00000287962 | ac116534.1-201 | 11 | 22010402 | 22170001 | - | lnc_RNA | lncrna |
| -227475 | enst00000530837 | sg00000254820 | ac107882.1-201 | 11 | 22113448 | 22117001 | + | lnc_RNA | lncrna |
| 283621 | enst00000648096 | sg00000148935 | gas2-211 | 11 | 22625509 | 22626403 | + | lnc_RNA | processed_transcript |
| 283754 | enst00000528582 | sg00000148935 | gas2-205 | 11 | 22625642 | 22749190 | + | mRNA | protein_coding |
| 283935 | enst00000327470 | sg00000183161 | fancf-201 | 11 | 22622533 | 22625823 | - | mRNA | protein_coding |
| 324695 | enst00000533092 | sg00000148935 | gas2-207 | 11 | 22666583 | 22702630 | + | lnc_RNA | processed_transcript |
| 324727 | enst00000454584 | sg00000148935 | gas2-202 | 11 | 22666615 | 22813055 | + | mRNA | protein_coding |
| 325188 | enst00000533363 | sg00000148935 | gas2-208 | 11 | 22667076 | 22726432 | + | mRNA | protein_coding |
| 326220 | enst00000630668 | sg00000148935 | gas2-210 | 11 | 22668108 | 22731347 | + | mRNA | protein_coding |
| 326220 | enst00000278187 | sg00000148935 | gas2-201 | 11 | 22668108 | 22812996 | + | mRNA | protein_coding |
| 326220 | enst00000524701 | sg00000148935 | gas2-203 | 11 | 22668108 | 22813001 | + | mRNA | nonsense_mediated_decay |
| 330689 | enst00000534801 | sg00000148935 | gas2-209 | 11 | 22672577 | 22737760 | + | mRNA | protein_coding |
| 332885 | enst00000532398 | sg00000148935 | gas2-206 | 11 | 22674773 | 22749261 | + | mRNA | protein_coding |
| 346463 | enst00000410495 | sg00000222427 | rna5sp338-201 | 11 | 22688351 | 22688435 | + | pseudogenic_transcript | rrna_pseudogene |
| 413760 | enst00000526665 | sg00000148935 | gas2-204 | 11 | 22755648 | 22755953 | + | lnc_RNA | processed_transcript |
| 485989 | enst00000525670 | sg00000198168 | svip-202 | 11 | 22813799 | 22827877 | - | lnc_RNA | processed_transcript |
| 487485 | enst00000530199 | sg00000198168 | svip-204 | 11 | 22822867 | 22829373 | - | lnc_RNA | processed_transcript |
| 487492 | enst00000525963 | sg00000246225 | ac006299.1-201 | 11 | 22829380 | 22876848 | + | lnc_RNA | lncrna |
| 487524 | enst00000528701 | sg00000246225 | ac006299.1-202 | 11 | 22829412 | 22922823 | + | lnc_RNA | lncrna |
| 487526 | enst00000663618 | sg00000246225 | ac006299.1-204 | 11 | 22829414 | 22835491 | + | lnc_RNA | lncrna |
| 487534 | enst00000499625 | sg00000246225 | ac006299.1-203 | 11 | 22829422 | 22945393 | + | lnc_RNA | lncrna |
| 487566 | enst00000661691 | sg00000246225 | ac006299.1-205 | 11 | 22829454 | 22885412 | + | lnc_RNA | lncrna |
| 487683 | enst00000533774 | sg00000198168 | svip-205 | 11 | 22822747 | 22829571 | - | lnc_RNA | processed_transcript |
| 487913 | enst00000354193 | sg00000198168 | svip-201 | 11 | 22818927 | 22829801 | - | mRNA | protein_coding |
| 488411 | enst00000529848 | sg00000198168 | svip-203 | 11 | 22827245 | 22830299 | - | lnc_RNA | processed_transcript |
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