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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 |
|---|---|---|---|---|---|---|---|---|
| #45 | X | 1465367 | 1466722 | 1355 | 3 | 52 | 1.7398e-22 | 3.84495e-20 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -11605 | enst00000534940 | sg00000169093 | asmtl-206 | X | 1403139 | 1453762 | - | mRNA | protein_coding |
| -12438 | enst00000381333 | sg00000169093 | asmtl-202 | X | 1403141 | 1452929 | - | mRNA | protein_coding |
| -12458 | enst00000381317 | sg00000169093 | asmtl-201 | X | 1403139 | 1452909 | - | mRNA | protein_coding |
| -12495 | enst00000474865 | sg00000169093 | asmtl-205 | X | 1441592 | 1452872 | - | lnc_RNA | processed_transcript |
| 27631 | enst00000460672 | sg00000182162 | p2ry8-202 | X | 1466437 | 1494353 | - | mRNA | protein_coding |
| -29639 | enst00000462195 | sg00000169093 | asmtl-203 | X | 1431902 | 1435728 | - | lnc_RNA | processed_transcript |
| -29976 | enst00000463763 | sg00000169093 | asmtl-204 | X | 1427727 | 1435391 | - | lnc_RNA | processed_transcript |
| -61857 | enst00000602357 | sg00000236017 | asmtl-as1-205 | X | 1403510 | 1414024 | + | lnc_RNA | lncrna |
| -61908 | enst00000419737 | sg00000236017 | asmtl-as1-201 | X | 1403459 | 1414028 | + | lnc_RNA | lncrna |
| -63324 | enst00000420411 | sg00000236017 | asmtl-as1-202 | X | 1402043 | 1413131 | + | lnc_RNA | lncrna |
| -63556 | enst00000425740 | sg00000236017 | asmtl-as1-203 | X | 1401811 | 1413915 | + | lnc_RNA | lncrna |
| -63598 | enst00000443929 | sg00000236017 | asmtl-as1-204 | X | 1401769 | 1403493 | + | lnc_RNA | lncrna |
| -68342 | enst00000430235 | sg00000236871 | linc00106-201 | X | 1397025 | 1399402 | + | lnc_RNA | lncrna |
| -68940 | enst00000434938 | sg00000236871 | linc00106-202 | X | 1396427 | 1398958 | + | lnc_RNA | lncrna |
| 70463 | enst00000381297 | sg00000182162 | p2ry8-201 | X | 1462581 | 1537185 | - | mRNA | protein_coding |
| -73254 | enst00000381401 | sg00000169100 | slc25a6-201 | X | 1386152 | 1392113 | - | mRNA | protein_coding |
| -73264 | enst00000475167 | sg00000169100 | slc25a6-202 | X | 1387311 | 1392103 | - | lnc_RNA | processed_transcript |
| -73279 | enst00000484026 | sg00000169100 | slc25a6-203 | X | 1387345 | 1392088 | - | lnc_RNA | processed_transcript |
| 124882 | enst00000313871 | sg00000197976 | akap17a-201 | X | 1591604 | 1602520 | + | mRNA | protein_coding |
| 124901 | enst00000474361 | sg00000197976 | akap17a-203 | X | 1591623 | 1602502 | + | mRNA | nonsense_mediated_decay |
| 124903 | enst00000381261 | sg00000197976 | akap17a-202 | X | 1591625 | 1600303 | + | mRNA | protein_coding |
| -128571 | enst00000432757 | sg00000185291 | il3ra-203 | X | 1336796 | 1356331 | + | mRNA | protein_coding |
| -128582 | enst00000331035 | sg00000185291 | il3ra-201 | X | 1336785 | 1382689 | + | mRNA | protein_coding |
| -128751 | enst00000381469 | sg00000185291 | il3ra-202 | X | 1336616 | 1382689 | + | mRNA | protein_coding |
| 148337 | enst00000381241 | sg00000196433 | asmt-203 | X | 1615059 | 1643081 | + | mRNA | protein_coding |
| 148442 | enst00000381229 | sg00000196433 | asmt-201 | X | 1615164 | 1643027 | + | mRNA | protein_coding |
| 148453 | enst00000381233 | sg00000196433 | asmt-202 | X | 1615175 | 1643081 | + | mRNA | protein_coding |
| 161024 | enst00000509780 | sg00000196433 | asmt-205 | X | 1627746 | 1636463 | + | lnc_RNA | processed_transcript |
| -164992 | enst00000411342 | sg00000223274 | rna5sp498-201 | X | 1300256 | 1300375 | - | pseudogenic_transcript | rrna_pseudogene |
| 169676 | enst00000432523 | sg00000196433 | asmt-204 | X | 1636398 | 1643081 | + | mRNA | protein_coding |
| -171039 | enst00000498153 | sg00000198223 | csf2ra-218 | X | 1294328 | 1309934 | + | lnc_RNA | processed_transcript |
| -171142 | enst00000491683 | sg00000198223 | csf2ra-215 | X | 1294225 | 1295578 | + | lnc_RNA | processed_transcript |
| -171449 | enst00000580266 | sg00000265658 | mir3690-201 | X | 1293918 | 1293992 | + | miRNA | mirna |
| -174914 | enst00000475259 | sg00000198223 | csf2ra-210 | X | 1290453 | 1309922 | + | lnc_RNA | processed_transcript |
| -176769 | enst00000478256 | sg00000198223 | csf2ra-212 | X | 1288598 | 1289105 | + | lnc_RNA | processed_transcript |
| -179715 | enst00000477940 | sg00000198223 | csf2ra-211 | X | 1285652 | 1288640 | + | lnc_RNA | processed_transcript |
| -182681 | enst00000381500 | sg00000198223 | csf2ra-203 | X | 1282686 | 1309638 | + | mRNA | protein_coding |
| -196522 | enst00000486791 | sg00000198223 | csf2ra-214 | X | 1268845 | 1309934 | + | mRNA | nonsense_mediated_decay |
| -196522 | enst00000355805 | sg00000198223 | csf2ra-202 | X | 1268845 | 1309934 | + | mRNA | protein_coding |
| -196522 | enst00000355432 | sg00000198223 | csf2ra-201 | X | 1268845 | 1309934 | + | mRNA | protein_coding |
| -196532 | enst00000481245 | sg00000198223 | csf2ra-213 | X | 1268835 | 1282220 | + | lnc_RNA | processed_transcript |
| -196535 | enst00000494969 | sg00000198223 | csf2ra-217 | X | 1268832 | 1309922 | + | mRNA | protein_coding |
| -196535 | enst00000381509 | sg00000198223 | csf2ra-204 | X | 1268832 | 1305941 | + | mRNA | protein_coding |
| -196537 | enst00000432318 | sg00000198223 | csf2ra-209 | X | 1268830 | 1309924 | + | mRNA | protein_coding |
| -196549 | enst00000412290 | sg00000198223 | csf2ra-207 | X | 1268818 | 1294395 | + | mRNA | protein_coding |
| -196553 | enst00000493312 | sg00000198223 | csf2ra-216 | X | 1268814 | 1300543 | + | lnc_RNA | processed_transcript |
| -196559 | enst00000381524 | sg00000198223 | csf2ra-205 | X | 1268808 | 1310381 | + | mRNA | protein_coding |
| -196567 | enst00000417535 | sg00000198223 | csf2ra-208 | X | 1268800 | 1309935 | + | mRNA | protein_coding |
| -196567 | enst00000381529 | sg00000198223 | csf2ra-206 | X | 1268800 | 1309922 | + | mRNA | protein_coding |
| -196567 | enst00000501036 | sg00000198223 | csf2ra-219 | X | 1268800 | 1309935 | + | mRNA | protein_coding |
| -252644 | enst00000467626 | sg00000205755 | crlf2-204 | X | 1190492 | 1212723 | - | mRNA | nonsense_mediated_decay |
| -252718 | enst00000400841 | sg00000205755 | crlf2-203 | X | 1190490 | 1212649 | - | mRNA | protein_coding |
| -252730 | enst00000381566 | sg00000205755 | crlf2-201 | X | 1187549 | 1212637 | - | mRNA | protein_coding |
| -252733 | enst00000381567 | sg00000205755 | crlf2-202 | X | 1190897 | 1212634 | - | mRNA | protein_coding |
| 265862 | enst00000427886 | sg00000223511 | al683807.1-201 | X | 1732584 | 1741988 | + | lnc_RNA | lncrna |
| 267395 | enst00000432272 | sg00000223511 | al683807.1-202 | X | 1734117 | 1763212 | + | lnc_RNA | lncrna |
| 300625 | enst00000453953 | sg00000234622 | al683807.2-201 | X | 1767347 | 1768776 | + | lnc_RNA | lncrna |
| -455266 | enst00000436474 | sg00000225661 | rpl14p5-201 | X | 1008503 | 1010101 | - | pseudogenic_transcript | processed_pseudogene |
| -475146 | enst00000420865 | sg00000237531 | al672277.1-201 | X | 990221 | 994365 | + | 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