Overlaps TASOR peaks
Anna V. Protasio
04/11/2019
In this section, we investigate overlaps of TASOR peaks with the different genomic features.
TASOR peaks
This dataset was produced by Chris.D with the following summary:
Method: Called: -against three different controls (2 x IgG, 1 x TASOR KO) with SEACR (stringent cut off, with normalisation)
Filtered out: -anything that wasn’t called in all three SEACR runs with the three different controls -false positive peaks (those called in TKO with SEACR using relaxed cutoff) -anything that overlapped with HeLa ATAC-seq peak list from Dekker lab 2019 CTCF paper (this is because CUT&Tag is prone to ATAC-like artifacts). -overlaps with centromeres and telomeres -anything < 2kb
849 in total remaining.
The total number of peaks is .
Overlap with gene features (a.k.a genes)
A summary table is shown below:
| gencode class | frequency | our class |
|---|---|---|
| protein_coding | 511 | coding |
| antisense | 69 | other |
| lincRNA | 55 | lncRNA |
| processed_pseudogene | 32 | pseudo |
| unprocessed_pseudogene | 26 | pseudo |
| transcribed_unprocessed_pseudogene | 19 | pseudo |
| processed_transcript | 18 | other |
| TEC | 8 | other |
| miRNA | 8 | smallRNA |
| transcribed_processed_pseudogene | 7 | pseudo |
| snRNA | 6 | smallRNA |
| sense_intronic | 6 | other |
| misc_RNA | 4 | other |
| sense_overlapping | 3 | other |
| snoRNA | 2 | smallRNA |
| polymorphic_pseudogene | 2 | pseudo |
| unitary_pseudogene | 1 | pseudo |
| transcribed_unitary_pseudogene | 1 | pseudo |
| rRNA_pseudogene | 1 | pseudo |
| IG_C_pseudogene | 1 | pseudo |
| 3prime_overlapping_ncRNA | 1 | other |
Among the protein coding genes, there are 20 ZNF genes (of a total of 646 annotated in the genome).
Testing for enrichment of ZNFs in peaks.
## ZNF no.ZNF
## yes.peak 20 761
## no.peak 495 19425We apply Fisher Exact test where the H0 is that the proportion of ZNFs found in peaks is the same as the proportion found in the general pool of genes vs the alternative HA which states that the proportion of ZNFs in peaks is greater than that of the general pool of genes.
##
## Fisher's Exact Test for Count Data
##
## data: contingency.table
## p-value = 0.4797
## alternative hypothesis: true odds ratio is greater than 1
## 95 percent confidence interval:
## 0.6747348 Inf
## sample estimates:
## odds ratio
## 1.031346The P-value indicates that we reject the H0 in the favor of HA.
Protein coding overlaping peaks
| chrom | start | end | gene_id | gene_name |
|---|---|---|---|---|
| chr10 | 99782640 | 99852594 | ENSG00000023839.11 | ABCC2 |
| chr17 | 1003518 | 1229738 | ENSG00000159842.15 | ABR |
| chr7 | 92131774 | 92245924 | ENSG00000285953.1 | AC000120.3 |
| chr19 | 57437970 | 57477536 | ENSG00000268163.1 | AC004076.1 |
| chr19 | 57876765 | 57916591 | ENSG00000269476.1 | AC010326.2 |
| chr19 | 58228914 | 58315183 | ENSG00000283515.1 | AC020915.5 |
| chr12 | 133130984 | 133202369 | ENSG00000256825.4 | AC026786.1 |
| chr18 | 80034346 | 80097088 | ENSG00000267127.7 | AC090360.1 |
| chr5 | 132410832 | 132646079 | ENSG00000283782.2 | AC116366.3 |
| chr8 | 7579644 | 7582653 | ENSG00000285765.1 | AC134684.9 |
| chr9 | 108862266 | 108863759 | ENSG00000187003.6 | ACTL7A |
| chr10 | 70672803 | 70762441 | ENSG00000138316.10 | ADAMTS14 |
| chr10 | 1177318 | 1737476 | ENSG00000185736.15 | ADARB2 |
| chr8 | 142449430 | 142545009 | ENSG00000181790.11 | ADGRB1 |
| chr10 | 74151185 | 74709303 | ENSG00000156110.13 | ADK |
| chr6 | 135283532 | 135497776 | ENSG00000135541.20 | AHI1 |
| chr11 | 62433542 | 62556235 | ENSG00000124942.13 | AHNAK |
| chr14 | 104937244 | 104978357 | ENSG00000185567.6 | AHNAK2 |
| chr5 | 304176 | 438291 | ENSG00000063438.16 | AHRR |
| chr1 | 33007940 | 33080996 | ENSG00000004455.16 | AK2 |
| chr9 | 37588413 | 38068687 | ENSG00000255872.3 | AL138752.2 |
| chr10 | 97584374 | 97673910 | ENSG00000249967.1 | AL355315.1 |
| chr9 | 21802636 | 22032986 | ENSG00000264545.1 | AL359922.1 |
| chr12 | 95943293 | 95968716 | ENSG00000139344.7 | AMDHD1 |
| chr2 | 111611639 | 111884690 | ENSG00000153107.12 | ANAPC1 |
| chr2 | 240479422 | 240569209 | ENSG00000144504.15 | ANKMY1 |
| chr3 | 15667236 | 15859771 | ENSG00000206560.11 | ANKRD28 |
| chr12 | 5531869 | 5946232 | ENSG00000047617.14 | ANO2 |
| chr2 | 69013178 | 69249327 | ENSG00000169604.19 | ANTXR1 |
| chr9 | 73151757 | 73170393 | ENSG00000135046.13 | ANXA1 |
| chr15 | 60347134 | 60402883 | ENSG00000182718.16 | ANXA2 |
| chr10 | 47460162 | 47484158 | ENSG00000265190.6 | ANXA8 |
| chr11 | 57387365 | 57424059 | ENSG00000254979.5 | AP000781.2 |
| chr22 | 36253010 | 36267530 | ENSG00000100342.20 | APOL1 |
| chr1 | 228082660 | 228099212 | ENSG00000143761.15 | ARF1 |
| chr5 | 142770377 | 143229011 | ENSG00000145819.16 | ARHGAP26 |
| chr8 | 144529179 | 144605816 | ENSG00000147799.11 | ARHGAP39 |
| chr7 | 144355288 | 144380632 | ENSG00000050327.14 | ARHGEF5 |
| chr13 | 111114559 | 111305737 | ENSG00000102606.18 | ARHGEF7 |
| chr10 | 61901300 | 62096944 | ENSG00000150347.15 | ARID5B |
| chr17 | 46516702 | 46579682 | ENSG00000185829.17 | ARL17A |
| chr17 | 46274784 | 46361797 | ENSG00000228696.8 | ARL17B |
| chr15 | 52547045 | 52569883 | ENSG00000128989.10 | ARPP19 |
| chr8 | 130052104 | 130443660 | ENSG00000153317.14 | ASAP1 |
| chr13 | 112690329 | 112887168 | ENSG00000068650.18 | ATP11A |
| chr3 | 142449235 | 142578826 | ENSG00000175054.14 | ATR |
| chr16 | 287440 | 352673 | ENSG00000103126.14 | AXIN1 |
| chr17 | 82942155 | 83051810 | ENSG00000175711.8 | B3GNTL1 |
| chr9 | 33247820 | 33264720 | ENSG00000107262.21 | BAG1 |
| chr5 | 17065598 | 17276843 | ENSG00000176788.8 | BASP1 |
| chr19 | 48954815 | 48961798 | ENSG00000087088.19 | BAX |
| chr1 | 93561786 | 93847150 | ENSG00000137936.17 | BCAR3 |
| chr11 | 167784 | 207428 | ENSG00000177951.17 | BET1L |
| chr6 | 7881522 | 8064364 | ENSG00000259040.5 | BLOC1S5-TXNDC5 |
| chr6 | 7726797 | 7881422 | ENSG00000153162.8 | BMP6 |
| chr8 | 26382898 | 26505636 | ENSG00000104765.15 | BNIP3L |
| chr4 | 13568738 | 13627723 | ENSG00000038219.12 | BOD1L1 |
| chr20 | 33079644 | 33111751 | ENSG00000186191.7 | BPIFB4 |
| chr5 | 850291 | 892824 | ENSG00000028310.17 | BRD9 |
| chr14 | 105209286 | 105315589 | ENSG00000185024.16 | BRF1 |
| chr1 | 1081818 | 1116361 | ENSG00000131591.17 | C1orf159 |
| chr18 | 23134564 | 23260467 | ENSG00000134508.12 | CABLES1 |
| chr12 | 1791957 | 1918836 | ENSG00000151062.14 | CACNA2D4 |
| chr10 | 133324072 | 133336935 | ENSG00000130643.8 | CALY |
| chr3 | 12796472 | 12871916 | ENSG00000144712.12 | CAND2 |
| chr17 | 78991717 | 79009867 | ENSG00000171302.16 | CANT1 |
| chr19 | 38730187 | 38769904 | ENSG00000182472.8 | CAPN12 |
| chr2 | 201233443 | 201287711 | ENSG00000064012.21 | CASP8 |
| chr20 | 33490075 | 33650036 | ENSG00000078699.21 | CBFA2T2 |
| chr4 | 168863770 | 169010275 | ENSG00000145439.11 | CBR4 |
| chr21 | 43053191 | 43076943 | ENSG00000160200.17 | CBS |
| chr21 | 6444869 | 6468040 | ENSG00000274276.4 | CBSL |
| chr2 | 108786757 | 108885477 | ENSG00000163006.11 | CCDC138 |
| chr1 | 45620044 | 45624057 | ENSG00000159588.14 | CCDC17 |
| chr17 | 82101460 | 82212830 | ENSG00000176155.18 | CCDC57 |
| chr12 | 110846769 | 110907535 | ENSG00000173093.12 | CCDC63 |
| chr5 | 10249921 | 10266412 | ENSG00000150753.11 | CCT5 |
| chr1 | 207321376 | 207386804 | ENSG00000196352.15 | CD55 |
| chr5 | 150401637 | 150412929 | ENSG00000019582.14 | CD74 |
| chr5 | 176542511 | 176595974 | ENSG00000074276.10 | CDHR2 |
| chr14 | 50329404 | 50416461 | ENSG00000100490.9 | CDKL1 |
| chr19 | 44662278 | 44684359 | ENSG00000186567.12 | CEACAM19 |
| chr1 | 109250019 | 109275750 | ENSG00000143126.7 | CELSR2 |
| chr1 | 214603195 | 214664588 | ENSG00000117724.12 | CENPF |
| chr9 | 92325484 | 92620533 | ENSG00000188312.13 | CENPP |
| chr14 | 104865280 | 104896770 | ENSG00000099814.15 | CEP170B |
| chr10 | 132808392 | 132942823 | ENSG00000171811.13 | CFAP46 |
| chr11 | 65823022 | 65862026 | ENSG00000172757.12 | CFL1 |
| chr12 | 132822187 | 132956304 | ENSG00000072609.17 | CHFR |
| chr15 | 78593052 | 78621295 | ENSG00000080644.15 | CHRNA3 |
| chr1 | 153633982 | 153646306 | ENSG00000160679.12 | CHTOP |
| chr5 | 1317744 | 1345099 | ENSG00000049656.13 | CLPTM1L |
| chr19 | 1026581 | 1039068 | ENSG00000064666.14 | CNN2 |
| chr10 | 102918293 | 103090221 | ENSG00000148842.17 | CNNM2 |
| chr7 | 43608456 | 43729717 | ENSG00000106603.18 | COA1 |
| chr7 | 51016212 | 51316818 | ENSG00000106078.18 | COBL |
| chr21 | 45405137 | 45513720 | ENSG00000182871.14 | COL18A1 |
| chr13 | 110305812 | 110513209 | ENSG00000134871.18 | COL4A2 |
| chr8 | 144841042 | 144853736 | ENSG00000170619.9 | COMMD5 |
| chr1 | 226897536 | 226987545 | ENSG00000163050.16 | COQ8A |
| chr7 | 898778 | 975599 | ENSG00000240230.5 | COX19 |
| chr8 | 19404161 | 19758029 | ENSG00000147408.14 | CSGALNACT1 |
| chr3 | 47562239 | 47580792 | ENSG00000114646.9 | CSPG5 |
| chr3 | 41194741 | 41260096 | ENSG00000168036.17 | CTNNB1 |
| chr6 | 43182175 | 43224587 | ENSG00000112659.13 | CUL9 |
| chr2 | 38066973 | 38109902 | ENSG00000138061.11 | CYP1B1 |
| chr22 | 42126499 | 42130906 | ENSG00000100197.21 | CYP2D6 |
| chr17 | 78674048 | 78782297 | ENSG00000108669.16 | CYTH1 |
| chr7 | 6409126 | 6484190 | ENSG00000164535.14 | DAGLB |
| chr1 | 85318481 | 85578363 | ENSG00000153904.19 | DDAH1 |
| chr12 | 132136594 | 132144335 | ENSG00000185163.9 | DDX51 |
| chr1 | 12567910 | 12617731 | ENSG00000162496.8 | DHRS3 |
| chr10 | 274190 | 689668 | ENSG00000151240.16 | DIP2C |
| chr2 | 231961245 | 232344350 | ENSG00000144535.19 | DIS3L2 |
| chr9 | 111631352 | 111654351 | ENSG00000059769.19 | DNAJC25 |
| chr9 | 111631386 | 111670229 | ENSG00000244115.1 | DNAJC25-GNG10 |
| chr11 | 6497260 | 6593758 | ENSG00000179532.12 | DNHD1 |
| chr6 | 7541575 | 7586717 | ENSG00000096696.13 | DSP |
| chr1 | 212035553 | 212107400 | ENSG00000143476.17 | DTL |
| chr8 | 29333064 | 29350668 | ENSG00000120875.8 | DUSP4 |
| chr10 | 110497838 | 110511544 | ENSG00000138166.5 | DUSP5 |
| chr2 | 232479827 | 232487828 | ENSG00000171551.11 | ECEL1 |
| chr2 | 62673851 | 63046487 | ENSG00000115504.14 | EHBP1 |
| chr9 | 137618963 | 137870016 | ENSG00000181090.20 | EHMT1 |
| chr16 | 28688558 | 28735730 | ENSG00000184110.14 | EIF3C |
| chr8 | 116642130 | 116766925 | ENSG00000147677.10 | EIF3H |
| chr2 | 3188925 | 3377882 | ENSG00000032389.12 | EIPR1 |
| chr7 | 1688119 | 1747954 | ENSG00000225968.7 | ELFN1 |
| chr5 | 95885098 | 95962071 | ENSG00000118985.15 | ELL2 |
| chr18 | 47022287 | 47023927 | ENSG00000278674.1 | ELOA3B |
| chr2 | 54723499 | 54972025 | ENSG00000214595.11 | EML6 |
| chr5 | 65926475 | 66082549 | ENSG00000112851.14 | ERBIN |
| chr9 | 5765076 | 5833117 | ENSG00000099219.13 | ERMP1 |
| chr9 | 137306896 | 137423262 | ENSG00000187609.15 | EXD3 |
| chr6 | 485133 | 693111 | ENSG00000112685.13 | EXOC2 |
| chr5 | 443158 | 471937 | ENSG00000180104.15 | EXOC3 |
| chr8 | 117794490 | 118111853 | ENSG00000182197.11 | EXT1 |
| chr13 | 113105788 | 113120681 | ENSG00000057593.13 | F7 |
| chr1 | 50437028 | 50960263 | ENSG00000185104.19 | FAF1 |
| chr1 | 108560089 | 108644900 | ENSG00000162636.15 | FAM102B |
| chr6 | 170290703 | 170407065 | ENSG00000112584.13 | FAM120B |
| chr11 | 47586693 | 47589194 | ENSG00000196666.4 | FAM180B |
| chr22 | 48489460 | 48850912 | ENSG00000219438.8 | FAM19A5 |
| chr2 | 241356243 | 241494841 | ENSG00000006607.13 | FARP2 |
| chr17 | 82078333 | 82098332 | ENSG00000169710.8 | FASN |
| chr16 | 692498 | 705829 | ENSG00000127585.11 | FBXL16 |
| chr2 | 47789316 | 47905793 | ENSG00000138081.20 | FBXO11 |
| chr14 | 39397669 | 39432500 | ENSG00000165355.7 | FBXO33 |
| chr11 | 72836745 | 73142261 | ENSG00000137478.14 | FCHSD2 |
| chr2 | 105357712 | 105438513 | ENSG00000115641.18 | FHL2 |
| chr6 | 30727709 | 30742733 | ENSG00000137312.14 | FLOT1 |
| chr10 | 47750864 | 47763592 | ENSG00000277758.4 | FO681492.1 |
| chr2 | 113498665 | 113501155 | ENSG00000184492.6 | FOXD4L1 |
| chr17 | 82519713 | 82644662 | ENSG00000141568.20 | FOXK2 |
| chr21 | 5022493 | 5040666 | ENSG00000277117.4 | FP565260.3 |
| chr17 | 81528396 | 81537130 | ENSG00000186765.11 | FSCN2 |
| chr15 | 39588357 | 39782830 | ENSG00000150667.7 | FSIP1 |
| chr12 | 10212458 | 10223130 | ENSG00000139112.10 | GABARAPL1 |
| chr4 | 849276 | 932373 | ENSG00000178950.16 | GAK |
| chr1 | 230057990 | 230282124 | ENSG00000143641.9 | GALNT2 |
| chr12 | 132196372 | 132329349 | ENSG00000182870.12 | GALNT9 |
| chr16 | 90019629 | 90044975 | ENSG00000141013.16 | GAS8 |
| chr6 | 10492223 | 10629368 | ENSG00000111846.17 | GCNT2 |
| chr9 | 72114595 | 72257193 | ENSG00000119125.16 | GDA |
| chr6 | 1623806 | 2245692 | ENSG00000112699.10 | GMDS |
| chr1 | 67701466 | 67833467 | ENSG00000172380.5 | GNG12 |
| chr17 | 44395284 | 44503430 | ENSG00000186566.12 | GPATCH8 |
| chr2 | 240435671 | 240468078 | ENSG00000063660.8 | GPC1 |
| chr10 | 46549044 | 46555530 | ENSG00000204175.5 | GPRIN2 |
| chr22 | 46576012 | 46679790 | ENSG00000075240.16 | GRAMD4 |
| chr17 | 39737927 | 39747291 | ENSG00000141738.13 | GRB7 |
| chr7 | 24698351 | 24758113 | ENSG00000105928.14 | GSDME |
| chr2 | 239048168 | 239401654 | ENSG00000068024.16 | HDAC4 |
| chr6 | 12008762 | 12164999 | ENSG00000095951.16 | HIVEP1 |
| chr1 | 41506365 | 42035925 | ENSG00000127124.15 | HIVEP3 |
| chr20 | 31514410 | 31577923 | ENSG00000101294.17 | HM13 |
| chr7 | 26173057 | 26201529 | ENSG00000122566.21 | HNRNPA2B1 |
| chr1 | 152212082 | 152224193 | ENSG00000197915.5 | HRNR |
| chr8 | 144291591 | 144314722 | ENSG00000185122.10 | HSF1 |
| chr9 | 92210207 | 92293756 | ENSG00000196305.17 | IARS |
| chr10 | 1018907 | 1025859 | ENSG00000148377.5 | IDI2 |
| chr1 | 67307364 | 67397090 | ENSG00000081985.11 | IL12RB2 |
| chr17 | 1494571 | 1516888 | ENSG00000132376.19 | INPP5K |
| chr8 | 143734140 | 143790644 | ENSG00000203499.11 | IQANK1 |
| chr12 | 66765 | 178460 | ENSG00000120645.11 | IQSEC3 |
| chr6 | 78867472 | 78946440 | ENSG00000146243.13 | IRAK1BP1 |
| chr13 | 109752698 | 109786568 | ENSG00000185950.8 | IRS2 |
| chr17 | 44372180 | 44389505 | ENSG00000005961.18 | ITGA2B |
| chr1 | 64833229 | 64966504 | ENSG00000162434.11 | JAK1 |
| chr8 | 142657460 | 142681968 | ENSG00000234616.8 | JRK |
| chr9 | 470291 | 746106 | ENSG00000107104.18 | KANK1 |
| chr18 | 46917492 | 47102243 | ENSG00000167216.16 | KATNAL2 |
| chr18 | 79863668 | 79900184 | ENSG00000178342.4 | KCNG2 |
| chr2 | 95297304 | 95386083 | ENSG00000115041.12 | KCNIP3 |
| chr12 | 280129 | 389454 | ENSG00000073614.12 | KDM5A |
| chr3 | 128909866 | 129002690 | ENSG00000114656.11 | KIAA1257 |
| chr9 | 112486847 | 112669397 | ENSG00000165185.14 | KIAA1958 |
| chr15 | 89608789 | 89655451 | ENSG00000166813.14 | KIF7 |
| chr15 | 31326855 | 31435665 | ENSG00000169926.10 | KLF13 |
| chr10 | 3775996 | 3785281 | ENSG00000067082.14 | KLF6 |
| chr11 | 75422394 | 75430629 | ENSG00000149243.15 | KLHL35 |
| chr12 | 10226058 | 10329600 | ENSG00000134539.16 | KLRD1 |
| chr18 | 23689443 | 23956222 | ENSG00000053747.16 | LAMA3 |
| chr9 | 131009082 | 131094473 | ENSG00000050555.17 | LAMC3 |
| chr10 | 806914 | 931705 | ENSG00000107929.14 | LARP4B |
| chr10 | 96832282 | 96995959 | ENSG00000196233.13 | LCOR |
| chr19 | 11089362 | 11133816 | ENSG00000130164.13 | LDLR |
| chr4 | 1811479 | 1856247 | ENSG00000168924.14 | LETM1 |
| chr1 | 54806063 | 54842252 | ENSG00000162398.11 | LEXM |
| chr1 | 236518000 | 236552981 | ENSG00000116977.18 | LGALS8 |
| chr3 | 9498361 | 9553802 | ENSG00000156959.8 | LHFPL4 |
| chr5 | 38474963 | 38608354 | ENSG00000113594.9 | LIFR |
| chr17 | 34980494 | 35009743 | ENSG00000005156.11 | LIG3 |
| chr19 | 54236592 | 54242791 | ENSG00000244482.10 | LILRA6 |
| chr19 | 54216278 | 54223506 | ENSG00000204577.11 | LILRB3 |
| chr12 | 50175788 | 50283546 | ENSG00000050405.13 | LIMA1 |
| chr4 | 41359607 | 41700044 | ENSG00000064042.17 | LIMCH1 |
| chr5 | 1456480 | 1523977 | ENSG00000153395.9 | LPCAT1 |
| chr4 | 150264531 | 151015727 | ENSG00000198589.11 | LRBA |
| chr12 | 132603150 | 132610543 | ENSG00000204583.9 | LRCOL1 |
| chr3 | 66378797 | 66501263 | ENSG00000144749.13 | LRIG1 |
| chr17 | 46292733 | 46337794 | ENSG00000176681.14 | LRRC37A |
| chr17 | 46511511 | 46555650 | ENSG00000238083.7 | LRRC37A2 |
| chr17 | 64854312 | 64919480 | ENSG00000176809.10 | LRRC37A3 |
| chr11 | 40114203 | 41459773 | ENSG00000148948.7 | LRRC4C |
| chr17 | 16441577 | 16492153 | ENSG00000181350.11 | LRRC75A |
| chr8 | 142700111 | 142705127 | ENSG00000160886.13 | LY6K |
| chr6 | 5102593 | 5260939 | ENSG00000214113.10 | LYRM4 |
| chr7 | 1815793 | 2233243 | ENSG00000002822.15 | MAD1L1 |
| chr22 | 38200767 | 38216511 | ENSG00000185022.11 | MAFF |
| chr19 | 35292125 | 35313804 | ENSG00000105695.14 | MAG |
| chr1 | 113390749 | 113685923 | ENSG00000081026.18 | MAGI3 |
| chr18 | 58671386 | 58754477 | ENSG00000172175.13 | MALT1 |
| chr10 | 48306639 | 48439360 | ENSG00000107643.16 | MAPK8 |
| chr15 | 41774434 | 41827855 | ENSG00000137802.13 | MAPKBP1 |
| chr5 | 10353703 | 10440388 | ENSG00000145495.15 | MARCH6 |
| chr1 | 45786987 | 46036124 | ENSG00000086015.20 | MAST2 |
| chr6 | 31528717 | 31530232 | ENSG00000204511.2 | MCCD1 |
| chr15 | 94231538 | 94483952 | ENSG00000140563.14 | MCTP2 |
| chr17 | 83079691 | 83095119 | ENSG00000176845.12 | METRNL |
| chr9 | 96887373 | 97013708 | ENSG00000196312.13 | MFSD14C |
| chr10 | 128096659 | 128126385 | ENSG00000148773.13 | MKI67 |
| chr12 | 62466817 | 62600479 | ENSG00000061987.15 | MON2 |
| chr17 | 17042545 | 17217679 | ENSG00000133030.20 | MPRIP |
| chr2 | 47695530 | 47810101 | ENSG00000116062.14 | MSH6 |
| chr9 | 21802543 | 21937651 | ENSG00000099810.19 | MTAP |
| chr18 | 8705661 | 8832778 | ENSG00000168502.17 | MTCL1 |
| chr19 | 8848844 | 8981342 | ENSG00000181143.15 | MUC16 |
| chr11 | 1012821 | 1036706 | ENSG00000184956.15 | MUC6 |
| chr17 | 8474205 | 8630761 | ENSG00000133026.12 | MYH10 |
| chr6 | 16129125 | 16148248 | ENSG00000007944.14 | MYLIP |
| chr17 | 29071124 | 29180412 | ENSG00000196535.16 | MYO18A |
| chr15 | 59132434 | 59372900 | ENSG00000157483.8 | MYO1E |
| chr4 | 139301455 | 139420033 | ENSG00000164134.12 | NAA15 |
| chr7 | 106248285 | 106286326 | ENSG00000105835.11 | NAMPT |
| chr1 | 45583846 | 45618904 | ENSG00000132780.16 | NASP |
| chr1 | 146064699 | 146144804 | ENSG00000271425.7 | NBPF10 |
| chr1 | 148531385 | 148679751 | ENSG00000270629.5 | NBPF14 |
| chr1 | 145289900 | 145405778 | ENSG00000162825.16 | NBPF20 |
| chr1 | 183555563 | 183590876 | ENSG00000116701.14 | NCF2 |
| chr22 | 36860988 | 36878015 | ENSG00000100365.14 | NCF4 |
| chr2 | 231453531 | 231483641 | ENSG00000115053.15 | NCL |
| chr17 | 8413131 | 8490411 | ENSG00000166579.15 | NDEL1 |
| chr8 | 94895767 | 95116455 | ENSG00000156170.12 | NDUFAF6 |
| chr6 | 11183298 | 11382348 | ENSG00000111859.16 | NEDD9 |
| chr1 | 77888513 | 77943895 | ENSG00000162614.18 | NEXN |
| chr20 | 51386957 | 51562831 | ENSG00000101096.19 | NFATC2 |
| chr7 | 26152240 | 26187125 | ENSG00000050344.8 | NFE2L3 |
| chr9 | 33290511 | 33371157 | ENSG00000086102.18 | NFX1 |
| chr16 | 18417325 | 18562211 | ENSG00000185164.14 | NOMO2 |
| chr5 | 32689070 | 32791724 | ENSG00000113389.15 | NPR3 |
| chr6 | 2987987 | 3028869 | ENSG00000124588.19 | NQO2 |
| chr5 | 143277931 | 143435512 | ENSG00000113580.14 | NR3C1 |
| chr12 | 52022832 | 52059507 | ENSG00000123358.19 | NR4A1 |
| chr2 | 156324432 | 156342348 | ENSG00000153234.13 | NR4A2 |
| chr9 | 99821855 | 99866891 | ENSG00000119508.17 | NR4A3 |
| chr7 | 44379121 | 44490880 | ENSG00000015676.17 | NUDCD3 |
| chr5 | 37288137 | 37371181 | ENSG00000113569.15 | NUP155 |
| chr11 | 3671083 | 3797792 | ENSG00000110713.16 | NUP98 |
| chr9 | 96928310 | 96940253 | ENSG00000188152.12 | NUTM2G |
| chr1 | 228208130 | 228378874 | ENSG00000154358.20 | OBSCN |
| chr7 | 24796539 | 24981634 | ENSG00000070882.12 | OSBPL3 |
| chr5 | 38845858 | 38945596 | ENSG00000145623.12 | OSMR |
| chr5 | 14664664 | 14699711 | ENSG00000154124.4 | OTULIN |
| chr17 | 3672199 | 3696404 | ENSG00000083454.21 | P2RX5 |
| chr17 | 3663063 | 3696194 | ENSG00000257950.3 | P2RX5-TAX1BP3 |
| chr22 | 42835412 | 43015145 | ENSG00000100266.18 | PACSIN2 |
| chr9 | 116153804 | 116402322 | ENSG00000182752.9 | PAPPA |
| chr10 | 49818279 | 49970203 | ENSG00000227345.8 | PARG |
| chr5 | 271621 | 353856 | ENSG00000249915.7 | PDCD6 |
| chr6 | 165327287 | 165988078 | ENSG00000112541.14 | PDE10A |
| chr12 | 20369245 | 20684381 | ENSG00000172572.6 | PDE3A |
| chr5 | 58969038 | 60522120 | ENSG00000113448.18 | PDE4D |
| chr4 | 625584 | 670782 | ENSG00000133256.12 | PDE6B |
| chr15 | 84980440 | 85139145 | ENSG00000073417.14 | PDE8A |
| chr16 | 2537964 | 2603188 | ENSG00000140992.18 | PDPK1 |
| chr11 | 61203307 | 61213098 | ENSG00000229859.9 | PGA3 |
| chr10 | 97640686 | 97676434 | ENSG00000155252.13 | PI4K2A |
| chr18 | 10666483 | 11148762 | ENSG00000154864.12 | PIEZO2 |
| chr7 | 100367530 | 100400099 | ENSG00000085514.15 | PILRA |
| chr10 | 3137728 | 3172841 | ENSG00000107959.15 | PITRM1 |
| chr5 | 109334709 | 109409994 | ENSG00000198961.9 | PJA2 |
| chr5 | 137887968 | 137942747 | ENSG00000078795.16 | PKD2L2 |
| chr11 | 392614 | 404908 | ENSG00000184363.9 | PKP3 |
| chr22 | 31134809 | 31140607 | ENSG00000100078.3 | PLA2G3 |
| chr22 | 38111495 | 38205690 | ENSG00000184381.18 | PLA2G6 |
| chr19 | 43646095 | 43670547 | ENSG00000011422.11 | PLAUR |
| chr20 | 41136960 | 41196801 | ENSG00000124181.14 | PLCG1 |
| chr5 | 55424854 | 55535050 | ENSG00000067113.16 | PLPP1 |
| chr9 | 137459953 | 137550534 | ENSG00000130653.15 | PNPLA7 |
| chr2 | 86020216 | 86106155 | ENSG00000068654.15 | POLR1A |
| chr7 | 75416787 | 75486271 | ENSG00000272391.5 | POM121C |
| chr10 | 79347469 | 79355337 | ENSG00000108179.13 | PPIF |
| chr10 | 131900644 | 131959834 | ENSG00000175470.19 | PPP2R2D |
| chr18 | 79902420 | 79951664 | ENSG00000122490.18 | PQLC1 |
| chr11 | 57386794 | 57390657 | ENSG00000186652.9 | PRG2 |
| chr7 | 549197 | 727650 | ENSG00000188191.14 | PRKAR1B |
| chr17 | 66302636 | 66810743 | ENSG00000154229.11 | PRKCA |
| chr1 | 2050470 | 2185395 | ENSG00000067606.16 | PRKCZ |
| chr13 | 57140918 | 57143939 | ENSG00000204919.1 | PRR20A |
| chr13 | 57147488 | 57150509 | ENSG00000204918.3 | PRR20B |
| chr13 | 57140918 | 57157082 | ENSG00000229665.8 | PRR20C |
| chr13 | 57160632 | 57163653 | ENSG00000227151.4 | PRR20D |
| chr1 | 96721665 | 96823738 | ENSG00000117569.18 | PTBP2 |
| chr9 | 112217716 | 112333667 | ENSG00000119314.15 | PTBP3 |
| chr9 | 95442980 | 95517057 | ENSG00000185920.15 | PTCH1 |
| chr7 | 157539056 | 158587788 | ENSG00000155093.18 | PTPRN2 |
| chr12 | 9148840 | 9208370 | ENSG00000126838.9 | PZP |
| chr17 | 76274049 | 76307998 | ENSG00000129646.14 | QRICH2 |
| chr15 | 55202966 | 55319113 | ENSG00000069974.15 | RAB27A |
| chr8 | 60516857 | 60623627 | ENSG00000104388.14 | RAB2A |
| chr16 | 589357 | 629272 | ENSG00000197562.9 | RAB40C |
| chr3 | 128726122 | 128814796 | ENSG00000075785.12 | RAB7A |
| chr1 | 174159410 | 174995308 | ENSG00000152061.23 | RABGAP1L |
| chr9 | 136807943 | 136841187 | ENSG00000196642.18 | RABL6 |
| chr7 | 6374523 | 6403977 | ENSG00000136238.17 | RAC1 |
| chr12 | 912077 | 990053 | ENSG00000002016.17 | RAD52 |
| chr11 | 13009577 | 13012106 | ENSG00000189431.7 | RASSF10 |
| chr17 | 79089345 | 79516148 | ENSG00000167281.19 | RBFOX3 |
| chr20 | 35701347 | 35742312 | ENSG00000131051.22 | RBM39 |
| chr11 | 66664998 | 66677921 | ENSG00000173914.11 | RBM4B |
| chr1 | 8352397 | 8817643 | ENSG00000142599.17 | RERE |
| chr17 | 35005990 | 35089319 | ENSG00000092871.16 | RFFL |
| chr15 | 56087280 | 56243266 | ENSG00000181827.14 | RFX7 |
| chr6 | 3063991 | 3115187 | ENSG00000137275.13 | RIPK1 |
| chr2 | 37923187 | 38067142 | ENSG00000115841.19 | RMDN2 |
| chr8 | 100257060 | 100336218 | ENSG00000034677.12 | RNF19A |
| chr20 | 35699272 | 35700984 | ENSG00000125995.15 | ROMO1 |
| chr1 | 92298965 | 92402056 | ENSG00000122484.8 | RPAP2 |
| chr17 | 212389 | 386254 | ENSG00000181031.15 | RPH3AL |
| chr11 | 8682411 | 8714759 | ENSG00000166441.12 | RPL27A |
| chr6 | 34284887 | 34426071 | ENSG00000270800.3 | RPS10-NUDT3 |
| chr14 | 90847862 | 91060636 | ENSG00000100784.11 | RPS6KA5 |
| chr19 | 54200742 | 54249003 | ENSG00000170889.13 | RPS9 |
| chr17 | 80544819 | 80966371 | ENSG00000141564.14 | RPTOR |
| chr9 | 133663560 | 133739955 | ENSG00000123453.17 | SARDH |
| chr22 | 50445000 | 50475024 | ENSG00000100241.20 | SBF1 |
| chr11 | 9778667 | 10294207 | ENSG00000133812.15 | SBF2 |
| chr10 | 133453928 | 133523558 | ENSG00000214279.13 | SCART1 |
| chr8 | 143790920 | 143815379 | ENSG00000180900.18 | SCRIB |
| chr5 | 218241 | 256700 | ENSG00000073578.16 | SDHA |
| chr6 | 107867756 | 107958189 | ENSG00000025796.13 | SEC63 |
| chr17 | 82321024 | 82334074 | ENSG00000141574.7 | SECTM1 |
| chr9 | 89360787 | 89498130 | ENSG00000187764.11 | SEMA4D |
| chr17 | 77280569 | 77500596 | ENSG00000184640.17 | SEPT9 |
| chr22 | 31488688 | 31618586 | ENSG00000198089.15 | SFI1 |
| chr17 | 80206716 | 80220923 | ENSG00000181523.12 | SGSH |
| chr9 | 37919134 | 38069211 | ENSG00000107338.9 | SHB |
| chr19 | 416583 | 460996 | ENSG00000129946.10 | SHC2 |
| chr12 | 31280584 | 31327058 | ENSG00000139146.13 | SINHCAF |
| chr1 | 2228695 | 2310119 | ENSG00000157933.9 | SKI |
| chr4 | 48341322 | 48426212 | ENSG00000109171.14 | SLAIN2 |
| chr5 | 1050376 | 1112035 | ENSG00000113504.20 | SLC12A7 |
| chr21 | 45493572 | 45544411 | ENSG00000173638.18 | SLC19A1 |
| chr5 | 36606355 | 36688334 | ENSG00000079215.13 | SLC1A3 |
| chr1 | 53087179 | 53142632 | ENSG00000162383.12 | SLC1A7 |
| chr5 | 132294443 | 132344206 | ENSG00000197208.5 | SLC22A4 |
| chr1 | 108134036 | 108200849 | ENSG00000085491.16 | SLC25A24 |
| chr3 | 66133610 | 66388116 | ENSG00000144741.17 | SLC25A26 |
| chr7 | 5274369 | 5306870 | ENSG00000164638.10 | SLC29A4 |
| chr11 | 93144171 | 93197964 | ENSG00000180773.14 | SLC36A4 |
| chr5 | 1392790 | 1445430 | ENSG00000142319.17 | SLC6A3 |
| chr15 | 91853695 | 92172435 | ENSG00000176463.13 | SLCO3A1 |
| chr15 | 67063763 | 67195195 | ENSG00000166949.15 | SMAD3 |
| chr18 | 2655738 | 2805017 | ENSG00000101596.15 | SMCHD1 |
| chr1 | 183472216 | 183598246 | ENSG00000116698.21 | SMG7 |
| chr6 | 11094033 | 11138733 | ENSG00000224531.5 | SMIM13 |
| chr5 | 70925030 | 70953942 | ENSG00000172062.16 | SMN1 |
| chr14 | 69854131 | 70032366 | ENSG00000198732.10 | SMOC1 |
| chr6 | 168441151 | 168673445 | ENSG00000112562.18 | SMOC2 |
| chr2 | 240998838 | 241095568 | ENSG00000162804.13 | SNED1 |
| chr16 | 11668414 | 11679159 | ENSG00000184602.5 | SNN |
| chr2 | 950868 | 1367613 | ENSG00000172554.11 | SNTG2 |
| chr11 | 65833641 | 65856896 | ENSG00000172803.17 | SNX32 |
| chr21 | 33542618 | 33577481 | ENSG00000159140.19 | SON |
| chr15 | 44562696 | 44663678 | ENSG00000104133.14 | SPG11 |
| chr8 | 47260575 | 47736306 | ENSG00000164808.16 | SPIDR |
| chr9 | 33218365 | 33248567 | ENSG00000122711.8 | SPINK4 |
| chr17 | 4498838 | 4539035 | ENSG00000183018.8 | SPNS2 |
| chr11 | 13962689 | 14267884 | ENSG00000262655.3 | SPON1 |
| chr11 | 66685248 | 66729226 | ENSG00000173898.12 | SPTBN2 |
| chr20 | 43457928 | 43464247 | ENSG00000124193.14 | SRSF6 |
| chr11 | 8693351 | 8910951 | ENSG00000166444.18 | ST5 |
| chr18 | 54324358 | 54357964 | ENSG00000174448.8 | STARD6 |
| chr7 | 43582758 | 43650713 | ENSG00000164543.6 | STK17A |
| chr8 | 98371228 | 98942827 | ENSG00000104375.16 | STK3 |
| chr3 | 67360460 | 67654614 | ENSG00000172340.14 | SUCLG2 |
| chr5 | 76083172 | 76353939 | ENSG00000122012.13 | SV2C |
| chr12 | 71839707 | 71927248 | ENSG00000121749.15 | TBC1D15 |
| chr17 | 38181659 | 38192541 | ENSG00000274611.3 | TBC1D3 |
| chr17 | 38057693 | 38068592 | ENSG00000278299.5 | TBC1D3C |
| chr17 | 36428618 | 36439566 | ENSG00000275954.5 | TBC1D3F |
| chr17 | 36323884 | 36334759 | ENSG00000260287.4 | TBC1D3G |
| chr17 | 36377531 | 36388423 | ENSG00000274226.5 | TBC1D3H |
| chr2 | 101007617 | 101252866 | ENSG00000204634.12 | TBC1D8 |
| chr17 | 82752064 | 82945922 | ENSG00000141556.20 | TBCD |
| chr15 | 56918623 | 57299281 | ENSG00000140262.17 | TCF12 |
| chr16 | 89873570 | 89913627 | ENSG00000141002.19 | TCF25 |
| chr5 | 150357629 | 150400308 | ENSG00000070814.19 | TCOF1 |
| chr13 | 111316184 | 111344249 | ENSG00000153495.10 | TEX29 |
| chr6 | 10393186 | 10419659 | ENSG00000137203.11 | TFAP2A |
| chr18 | 3411608 | 3459978 | ENSG00000177426.20 | TGIF1 |
| chr15 | 39581079 | 39599466 | ENSG00000137801.10 | THBS1 |
| chr17 | 29073521 | 29078857 | ENSG00000221995.5 | TIAF1 |
| chr15 | 89575482 | 89631056 | ENSG00000140534.13 | TICRR |
| chr10 | 49942033 | 49974850 | ENSG00000204152.10 | TIMM23B |
| chr3 | 156673235 | 156706770 | ENSG00000163659.12 | TIPARP |
| chr12 | 129071725 | 129903666 | ENSG00000151952.15 | TMEM132D |
| chr18 | 23197144 | 23437961 | ENSG00000134490.13 | TMEM241 |
| chr11 | 118531041 | 118547280 | ENSG00000149582.15 | TMEM25 |
| chr15 | 76059837 | 76229121 | ENSG00000169758.12 | TMEM266 |
| chr15 | 42210452 | 42273663 | ENSG00000103978.15 | TMEM87A |
| chr19 | 2360238 | 2426239 | ENSG00000178297.13 | TMPRSS9 |
| chr7 | 47275154 | 47582558 | ENSG00000136205.16 | TNS3 |
| chr17 | 40475828 | 40501597 | ENSG00000131746.12 | TNS4 |
| chr22 | 35299275 | 35347994 | ENSG00000100284.20 | TOM1 |
| chr8 | 143304384 | 143359979 | ENSG00000184428.12 | TOP1MT |
| chr8 | 94925972 | 94949411 | ENSG00000164938.13 | TP53INP1 |
| chr2 | 84821650 | 84907008 | ENSG00000186854.10 | TRABD2A |
| chr8 | 139727725 | 140458579 | ENSG00000167632.15 | TRAPPC9 |
| chr5 | 892643 | 919357 | ENSG00000071539.13 | TRIP13 |
| chr21 | 44350163 | 44443081 | ENSG00000142185.16 | TRPM2 |
| chr7 | 98877933 | 99050831 | ENSG00000196367.13 | TRRAP |
| chr8 | 142212080 | 142403240 | ENSG00000171045.14 | TSNARE1 |
| chr12 | 3077355 | 3286564 | ENSG00000011105.13 | TSPAN9 |
| chr11 | 118527472 | 118531197 | ENSG00000172425.10 | TTC36 |
| chr6 | 30720201 | 30725426 | ENSG00000196230.12 | TUBB |
| chr19 | 48880965 | 48898733 | ENSG00000104804.7 | TULP2 |
| chr6 | 7881517 | 7910814 | ENSG00000239264.8 | TXNDC5 |
| chr18 | 657604 | 673578 | ENSG00000176890.15 | TYMS |
| chr16 | 4608883 | 4615027 | ENSG00000153443.12 | UBALD1 |
| chr9 | 33921693 | 34048949 | ENSG00000137073.21 | UBAP2 |
| chr16 | 1308880 | 1327018 | ENSG00000103275.19 | UBE2I |
| chr1 | 165827531 | 165911618 | ENSG00000143179.15 | UCK2 |
| chr13 | 95801580 | 96053482 | ENSG00000102595.19 | UGGT2 |
| chr3 | 41246599 | 41962430 | ENSG00000168038.10 | ULK4 |
| chr5 | 176810477 | 176880898 | ENSG00000113763.11 | UNC5A |
| chr12 | 62260338 | 62417431 | ENSG00000135655.15 | USP15 |
| chr4 | 9215405 | 9217356 | ENSG00000233136.2 | USP17L11 |
| chr4 | 9220152 | 9221744 | ENSG00000227551.1 | USP17L12 |
| chr4 | 9234385 | 9236334 | ENSG00000223569.6 | USP17L15 |
| chr4 | 9243879 | 9245830 | ENSG00000249104.2 | USP17L17 |
| chr4 | 9248630 | 9250581 | ENSG00000250844.2 | USP17L18 |
| chr4 | 9253378 | 9255329 | ENSG00000248920.2 | USP17L19 |
| chr4 | 9258124 | 9260075 | ENSG00000250745.2 | USP17L20 |
| chr4 | 9262872 | 9264823 | ENSG00000249811.2 | USP17L21 |
| chr4 | 9267619 | 9269570 | ENSG00000248933.2 | USP17L22 |
| chr4 | 9325165 | 9327116 | ENSG00000232264.4 | USP17L24 |
| chr4 | 9329911 | 9331862 | ENSG00000230430.4 | USP17L25 |
| chr4 | 9334658 | 9336609 | ENSG00000229579.4 | USP17L26 |
| chr4 | 9344148 | 9345740 | ENSG00000235780.3 | USP17L27 |
| chr4 | 9348893 | 9350485 | ENSG00000231051.3 | USP17L28 |
| chr4 | 9353638 | 9355230 | ENSG00000231637.3 | USP17L29 |
| chr4 | 9363129 | 9364721 | ENSG00000228856.3 | USP17L30 |
| chr4 | 9339403 | 9340995 | ENSG00000227140.3 | USP17L5 |
| chr11 | 78188812 | 78214711 | ENSG00000118369.12 | USP35 |
| chr9 | 35056064 | 35073249 | ENSG00000165280.15 | VCP |
| chr7 | 55436056 | 55572988 | ENSG00000154978.12 | VOPP1 |
| chr8 | 99013266 | 99877580 | ENSG00000132549.18 | VPS13B |
| chr17 | 508668 | 721717 | ENSG00000141252.19 | VPS53 |
| chr22 | 45920362 | 45977129 | ENSG00000188064.9 | WNT7B |
| chr1 | 227918656 | 227947898 | ENSG00000143816.7 | WNT9A |
| chr11 | 74807739 | 74949200 | ENSG00000166435.15 | XRRA1 |
| chr12 | 42157104 | 42238349 | ENSG00000015153.14 | YAF2 |
| chr2 | 97713560 | 97739862 | ENSG00000115085.13 | ZAP70 |
| chr5 | 795606 | 850986 | ENSG00000188818.12 | ZDHHC11 |
| chr3 | 196197449 | 196211437 | ENSG00000163958.13 | ZDHHC19 |
| chr10 | 31318495 | 31529814 | ENSG00000148516.21 | ZEB1 |
| chr16 | 88453317 | 88537016 | ENSG00000179588.8 | ZFPM1 |
| chr20 | 41178448 | 41317672 | ENSG00000174306.21 | ZHX3 |
| chr12 | 133130575 | 133159465 | ENSG00000256223.5 | ZNF10 |
| chr19 | 9560353 | 9584533 | ENSG00000197961.11 | ZNF121 |
| chr8 | 144930358 | 144950888 | ENSG00000170631.14 | ZNF16 |
| chr8 | 144720907 | 144756417 | ENSG00000198169.8 | ZNF251 |
| chr19 | 58183029 | 58213562 | ENSG00000171606.17 | ZNF274 |
| chr16 | 89720400 | 89740903 | ENSG00000158805.11 | ZNF276 |
| chr19 | 9140380 | 9163424 | ENSG00000130803.14 | ZNF317 |
| chr19 | 53519527 | 53580269 | ENSG00000130844.17 | ZNF331 |
| chr8 | 144773114 | 144787345 | ENSG00000196378.11 | ZNF34 |
| chr19 | 50025714 | 50053414 | ENSG00000142528.15 | ZNF473 |
| chr19 | 52297177 | 52325922 | ENSG00000198464.13 | ZNF480 |
| chr10 | 133309410 | 133352529 | ENSG00000283496.1 | ZNF511-PRAP1 |
| chr19 | 58228594 | 58277495 | ENSG00000198131.13 | ZNF544 |
| chr12 | 132918308 | 132956306 | ENSG00000196458.10 | ZNF605 |
| chr8 | 144827464 | 144847509 | ENSG00000147789.15 | ZNF7 |
| chr7 | 64307459 | 64354860 | ENSG00000234444.9 | ZNF736 |
| chr19 | 53431993 | 53458261 | ENSG00000160336.14 | ZNF761 |
| chr19 | 57466663 | 57477570 | ENSG00000197128.11 | ZNF772 |
| chr9 | 96816472 | 96875623 | ENSG00000196597.11 | ZNF782 |
| chr19 | 57848731 | 57889074 | ENSG00000204514.9 | ZNF814 |
| chr5 | 61332273 | 61546170 | ENSG00000130449.5 | ZSWIM6 |
LincRNAs overlaping peaks
Bear in mind that one peak can overlap ore than one genomic feature.
| chrom | start | end | gene_id | gene_name |
|---|---|---|---|---|
| chr1 | 778770 | 810060 | ENSG00000237491.8 | AL669831.5 |
| chr1 | 146052566 | 146061948 | ENSG00000233396.7 | LINC01719 |
| chr1 | 180117140 | 180123890 | ENSG00000261817.1 | AL390718.1 |
| chr1 | 246516039 | 246524287 | ENSG00000242042.1 | LINC01743 |
| chr10 | 46398362 | 46453306 | ENSG00000285294.1 | LINC00842 |
| chr10 | 47908064 | 47991850 | ENSG00000276850.4 | AC245041.2 |
| chr11 | 13001090 | 13009159 | ENSG00000254670.1 | AC084859.1 |
| chr12 | 52058459 | 52059503 | ENSG00000259884.1 | AC025259.3 |
| chr12 | 79690144 | 79778451 | ENSG00000258048.1 | AC073569.2 |
| chr13 | 109269634 | 109278512 | ENSG00000275216.2 | AL161431.1 |
| chr13 | 113888306 | 113923512 | ENSG00000229373.8 | LINC00452 |
| chr15 | 69463026 | 69843120 | ENSG00000245750.8 | DRAIC |
| chr15 | 84422618 | 84425882 | ENSG00000259774.1 | AC243562.3 |
| chr15 | 84500378 | 84502381 | ENSG00000259551.1 | AC048382.4 |
| chr16 | 2644084 | 2645214 | ENSG00000260176.1 | AC141586.2 |
| chr16 | 74313337 | 74315634 | ENSG00000260884.1 | AC009120.3 |
| chr16 | 87780134 | 87806476 | ENSG00000260177.1 | AC126696.1 |
| chr17 | 22406019 | 22413744 | ENSG00000276399.1 | FLJ36000 |
| chr17 | 46558830 | 46562795 | ENSG00000232300.1 | FAM215B |
| chr18 | 58754859 | 58757842 | ENSG00000267501.1 | AC104365.2 |
| chr18 | 79900555 | 79900903 | ENSG00000278075.1 | AC114341.1 |
| chr18 | 80046900 | 80095482 | ENSG00000261126.7 | RBFADN |
| chr19 | 57477649 | 57482996 | ENSG00000268266.1 | AC003005.2 |
| chr2 | 779840 | 868608 | ENSG00000237667.6 | LINC01115 |
| chr2 | 32825359 | 32926693 | ENSG00000230876.7 | LINC00486 |
| chr2 | 87454781 | 87636740 | ENSG00000222041.11 | CYTOR |
| chr2 | 97281904 | 97291780 | ENSG00000277701.4 | AC159540.2 |
| chr2 | 97416165 | 97433527 | ENSG00000230606.10 | AC092683.1 |
| chr2 | 97421075 | 97434847 | ENSG00000278766.2 | AC092683.2 |
| chr2 | 111036776 | 111523376 | ENSG00000172965.15 | MIR4435-2HG |
| chr2 | 231452195 | 231453153 | ENSG00000233538.1 | AC017104.3 |
| chr21 | 43462094 | 43479534 | ENSG00000185186.8 | LINC00313 |
| chr21 | 43465309 | 43467298 | ENSG00000223975.1 | AP001048.1 |
| chr22 | 15746630 | 15778297 | ENSG00000225255.6 | LINC01297 |
| chr22 | 42136433 | 42139927 | ENSG00000232710.1 | AC254562.2 |
| chr22 | 42138060 | 42139726 | ENSG00000281538.1 | AC254562.3 |
| chr22 | 49414524 | 49657542 | ENSG00000188511.12 | C22orf34 |
| chr22 | 49548681 | 49556473 | ENSG00000212939.2 | Z97192.1 |
| chr3 | 195658062 | 195739964 | ENSG00000242086.8 | MUC20-OT1 |
| chr5 | 466124 | 473098 | ENSG00000188242.4 | PP7080 |
| chr5 | 1363582 | 1380067 | ENSG00000250584.2 | LINC01511 |
| chr5 | 10269489 | 10269918 | ENSG00000271715.1 | AC012640.3 |
| chr6 | 30234039 | 30326134 | ENSG00000270604.5 | HCG17 |
| chr6 | 136335714 | 136336087 | ENSG00000260418.1 | AL023284.4 |
| chr7 | 1691906 | 1692450 | ENSG00000234977.1 | AC074389.3 |
| chr7 | 1692810 | 1694357 | ENSG00000205971.3 | AC074389.1 |
| chr7 | 130791264 | 131110161 | ENSG00000285106.1 | AC016831.6 |
| chr7 | 130853720 | 130928649 | ENSG00000233559.1 | LINC00513 |
| chr7 | 155356985 | 155367934 | ENSG00000204960.6 | BLACE |
| chr8 | 89609409 | 89757727 | ENSG00000251136.8 | AF117829.1 |
| chr8 | 127794533 | 128101253 | ENSG00000249859.9 | PVT1 |
| chr8 | 144713899 | 144714845 | ENSG00000263612.1 | AF186192.3 |
| chr9 | 33580695 | 33605293 | ENSG00000226562.3 | CYP4F26P |
| chr9 | 72257336 | 72257783 | ENSG00000235523.1 | AL135924.2 |
| chr9 | 94166289 | 94200627 | ENSG00000269946.1 | AL158152.2 |
| chr9 | 94176602 | 94204568 | ENSG00000230262.6 | LINC02603 |
Overlap with repeats
Families of repeats that overlap with peaks that are loss in TKO with respect to D3:
PieChart showing the proportion of classes of repeats overlapped by TASOR peaks.
TAOSR peaks overlap with repetitive elements. Because peaks can extend for many thousand of bases (the largest peak is 56300 ), most peaks overlap with more than one repeat. Their characteristics are summarised in Figure (pie chart).
This second piechart shows the same information but distributed into different bespoke categories.
## R version 3.6.1 (2019-07-05)
## Platform: x86_64-apple-darwin15.6.0 (64-bit)
## Running under: macOS Mojave 10.14.6
##
## Matrix products: default
## BLAS: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
## LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
##
## locale:
## [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8
##
## attached base packages:
## [1] parallel stats4 stats graphics grDevices utils datasets
## [8] methods base
##
## other attached packages:
## [1] viridis_0.5.1 viridisLite_0.3.0 ggplot2_3.2.1
## [4] GenomicRanges_1.36.1 GenomeInfoDb_1.20.0 IRanges_2.18.3
## [7] S4Vectors_0.22.1 BiocGenerics_0.30.0 tidyr_1.0.0
## [10] kableExtra_1.1.0 RColorBrewer_1.1-2 knitr_1.25
##
## loaded via a namespace (and not attached):
## [1] Rcpp_1.0.2 lattice_0.20-38
## [3] Rsamtools_2.0.2 Biostrings_2.52.0
## [5] assertthat_0.2.1 zeallot_0.1.0
## [7] digest_0.6.21 R6_2.4.0
## [9] backports_1.1.5 evaluate_0.14
## [11] httr_1.4.1 highr_0.8
## [13] pillar_1.4.2 zlibbioc_1.30.0
## [15] rlang_0.4.0 lazyeval_0.2.2
## [17] rstudioapi_0.10 Matrix_1.2-17
## [19] rmarkdown_1.16 labeling_0.3
## [21] webshot_0.5.1 BiocParallel_1.18.1
## [23] readr_1.3.1 stringr_1.4.0
## [25] RCurl_1.95-4.12 munsell_0.5.0
## [27] DelayedArray_0.10.0 compiler_3.6.1
## [29] rtracklayer_1.44.4 xfun_0.10
## [31] pkgconfig_2.0.3 htmltools_0.4.0
## [33] tidyselect_0.2.5 SummarizedExperiment_1.14.1
## [35] gridExtra_2.3 tibble_2.1.3
## [37] GenomeInfoDbData_1.2.1 matrixStats_0.55.0
## [39] XML_3.98-1.20 crayon_1.3.4
## [41] dplyr_0.8.3 withr_2.1.2
## [43] GenomicAlignments_1.20.1 bitops_1.0-6
## [45] grid_3.6.1 gtable_0.3.0
## [47] lifecycle_0.1.0 magrittr_1.5
## [49] scales_1.0.0 stringi_1.4.3
## [51] XVector_0.24.0 xml2_1.2.2
## [53] vctrs_0.2.0 tools_3.6.1
## [55] Biobase_2.44.0 glue_1.3.1
## [57] purrr_0.3.2 hms_0.5.1
## [59] yaml_2.2.0 colorspace_1.4-1
## [61] rvest_0.3.4