Mercurial > repos > pjbriggs > ceas
view test-data/ceas_out3.xls @ 2:d2283cca00cd draft
CEAS tool version 1.0.2-3: updates to get R 3.1.2 and bx-python 0.7.1 dependencies from the toolshed.
| author | pjbriggs |
|---|---|
| date | Tue, 18 Oct 2016 09:31:10 -0400 |
| parents | f411ce97a351 |
| children |
line wrap: on
line source
# RefSeq: RefSeq ID # chr: chromosome of a RefSeq gene # txStart: 5' end of a RefSeq gene # txEnd: 3' end site of a RefSeq gene # strand: strand of a RefSeq gene # dist u TSS: Distance to the nearest ChIP region's center upstream of transcription start site (bp) # dist d TSS: Distance to the nearest ChIP region's center downstream of transcription start site (bp) # dist u TTS: Distance to the nearest ChIP region's center upstream of transcription end site (bp) # dist d TTS: Distance to the nearest ChIP region's center downstream of transcription end (bp) # 3000bp u TSS: Occupancy rate of ChIP region in 3000bp upstream of transcription start site (0.0 - 1.0) # 3000bp d TSS: Occupancy rate of ChIP region in 3000bp downstream of transcription start site (0.0 - 1.0) # 1/3 gene: Occupancy rate of ChIP region in 1/3 gene (0.0 - 1.0) # 2/3 gene: Occupancy rate of ChIP region in 2/3 gene (0.0 - 1.0) # 3/3 gene: Occupancy rate of ChIP region in 3/3 gene (0.0 - 1.0) # 3000bp d TTS: Occupancy rate of ChIP region in 3000bp downstream of transcriptino end (0.0 - 1.0) # exons: Occupancy rate of ChIP regions in exons (0.0-1.0) # Note that txStart and txEnd indicate 5' and 3' ends of genes whereas TSS and TTS transcription start and end sites in consideration of strand. #name chr txStart txEnd strand dist u TSS dist d TSS dist u TTS dist d TTS 3000bp u TSS 3000bp d TSS 1/3 gene 2/3 gene 3/3 gene 3000bp d TTS exons NM_001031576 chr26 19281 27136 + NA 4099848 NA 4091993 0 0 0 0 0 0 0 NM_204615 chr26 57466 61594 - 4057535 NA 4061663 NA 0 0 0 0 0 0 0 NM_001005431 chr26 65800 76175 - 4042954 NA 4053329 NA 0 0 0 0 0 0 0 NM_001145491 chr26 91618 92166 - 4026963 NA 4027511 NA 0 0 0 0 0 0 0 NM_204398 chr26 93069 97423 + NA 4026060 NA 4021706 0 0 0 0 0 0 0 NM_001305147 chr26 254661 282571 + NA 3864468 NA 3836558 0 0 0 0 0 0 0 NM_001305148 chr26 254661 282571 + NA 3864468 NA 3836558 0 0 0 0 0 0 0 NM_001012868 chr26 350397 355252 - 3763877 NA 3768732 NA 0 0 0 0 0 0 0 NM_001031030 chr26 479573 493561 + NA 3639556 NA 3625568 0 0 0 0 0 0 0 NM_001305140 chr26 520705 526012 + NA 3598424 NA 3593117 0 0 0 0 0 0 0 NM_001031029 chr26 537101 565572 + NA 3582028 NA 3553557 0 0 0 0 0 0 0 NM_205248 chr26 537250 760479 + NA 3581879 NA 3358650 0 0 0 0 0 0 0 NM_204727 chr26 662969 683066 - 3436063 NA 3456160 NA 0 0 0 0 0 0 0 NR_105475 chr26 669012 669122 - 3450007 NA 3450117 NA 0 0 0 0 0 0 0 NM_205449 chr26 785617 794076 + NA 3333512 NA 3325053 0 0 0 0 0 0 0 NM_204681 chr26 897458 902049 - 3217080 NA 3221671 NA 0 0 0 0 0 0 0 NM_001278156 chr26 905313 917094 - 3202035 NA 3213816 NA 0 0 0 0 0 0 0 NM_204184 chr26 960209 964268 - 3154861 NA 3158920 NA 0 0 0 0 0 0 0 NM_204316 chr26 974223 991244 + NA 3144906 NA 3127885 0 0 0 0 0 0 0 NM_001031028 chr26 993815 1003847 - 3115282 NA 3125314 NA 0 0 0 0 0 0 0 NM_001006392 chr26 1024606 1047756 - 3071373 NA 3094523 NA 0 0 0 0 0 0 0 NM_001039596 chr26 1073550 1080033 - 3039096 NA 3045579 NA 0 0 0 0 0 0 0 NM_001031027 chr26 1090460 1096137 + NA 3028669 NA 3022992 0 0 0 0 0 0 0 NM_001031026 chr26 1096566 1104751 - 3014378 NA 3022563 NA 0 0 0 0 0 0 0 NM_001030913 chr26 1122296 1132596 + NA 2996833 NA 2986533 0 0 0 0 0 0 0 NM_001171886 chr26 1220031 1222791 - 2896338 NA 2899098 NA 0 0 0 0 0 0 0 NM_205054 chr26 1229703 1232833 + NA 2889426 NA 2886296 0 0 0 0 0 0 0 NM_204462 chr26 1234686 1236536 - 2882593 NA 2884443 NA 0 0 0 0 0 0 0 NM_204463 chr26 1265724 1267989 - 2851140 NA 2853405 NA 0 0 0 0 0 0 0 NM_001030378 chr26 1289091 1290386 - 2828743 NA 2830038 NA 0 0 0 0 0 0 0 NM_001195554 chr26 1382510 1388447 + NA 2736619 NA 2730682 0 0 0 0 0 0 0 NM_001012548 chr26 1406905 1428443 + NA 2712224 NA 2690686 0 0 0 0 0 0 0 NR_031486 chr26 1442696 1442779 - 2676350 NA 2676433 NA 0 0 0 0 0 0 0 NR_031487 chr26 1442896 1442979 - 2676150 NA 2676233 NA 0 0 0 0 0 0 0 NM_205250 chr26 1472137 1474003 + NA 2646992 NA 2645126 0 0 0 0 0 0 0 NR_105486 chr26 1566398 1566508 - 2552621 NA 2552731 NA 0 0 0 0 0 0 0 NM_001160320 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001004709 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001160324 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001004493 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001160323 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001160322 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001160321 chr26 1697226 1773801 + NA 2421903 NA 2345328 0 0 0 0 0 0 0 NM_001004395 chr26 1776431 1800083 + NA 2342698 NA 2319046 0 0 0 0 0 0 0 NM_001030914 chr26 1811042 1820368 - 2298761 NA 2308087 NA 0 0 0 0 0 0 0 NM_204506 chr26 1823407 1843085 - 2276044 NA 2295722 NA 0 0 0 0 0 0 0 NR_031488 chr26 1925941 1926037 - 2193092 NA 2193188 NA 0 0 0 0 0 0 0 NM_213581 chr26 2070404 2084478 - 2034651 NA 2048725 NA 0 0 0 0 0 0 0 NR_035298 chr26 2086590 2086691 - 2032438 NA 2032539 NA 0 0 0 0 0 0 0 NR_105470 chr26 2094750 2094860 - 2024269 NA 2024379 NA 0 0 0 0 0 0 0 NM_001030915 chr26 2117140 2128322 - 1990807 NA 2001989 NA 0 0 0 0 0 0 0 NM_001031498 chr26 2175178 2177159 - 1941970 NA 1943951 NA 0 0 0 0 0 0 0 NM_001008452 chr26 2305308 2315138 + NA 1813821 NA 1803991 0 0 0 0 0 0 0 NM_001006322 chr26 2315293 2325130 - 1793999 NA 1803836 NA 0 0 0 0 0 0 0 NM_001004414 chr26 2373245 2375480 - 1743649 NA 1745884 NA 0 0 0 0 0 0 0 NM_001044644 chr26 2390696 2401255 - 1717874 NA 1728433 NA 0 0 0 0 0 0 0 NM_001031499 chr26 2425841 2429413 - 1689716 NA 1693288 NA 0 0 0 0 0 0 0 NM_001033642 chr26 2445710 2453125 + NA 1673419 NA 1666004 0 0 0 0 0 0 0 NM_001033643 chr26 2469318 2475028 + NA 1649811 NA 1644101 0 0 0 0 0 0 0 NM_204664 chr26 2498398 2509349 + NA 1620731 NA 1609780 0 0 0 0 0 0 0 NR_031489 chr26 2511657 2511746 - 1607383 NA 1607472 NA 0 0 0 0 0 0 0 NR_031490 chr26 2512568 2512648 - 1606481 NA 1606561 NA 0 0 0 0 0 0 0 NR_105523 chr26 2669792 2669902 - 1449227 NA 1449337 NA 0 0 0 0 0 0 0 NR_031491 chr26 2896046 2896142 + NA 1223083 NA 1222987 0 0 0 0 0 0 0 NM_001190924 chr26 2961382 2962268 + NA 1157747 NA 1156861 0 0 0 0 0 0 0 NM_001007881 chr26 2999189 3002725 + NA 1119940 NA 1116404 0 0 0 0 0 0 0 NM_204320 chr26 3006741 3011817 - 1107312 NA 1112388 NA 0 0 0 0 0 0 0 NM_001030916 chr26 3035271 3039335 - 1079794 NA 1083858 NA 0 0 0 0 0 0 0 NM_204151 chr26 3047964 3050306 - 1068823 NA 1071165 NA 0 0 0 0 0 0 0 NM_204326 chr26 3124816 3214381 - 904748 NA 994313 NA 0 0 0 0 0 0 0 NM_204336 chr26 3320769 3332327 + NA 798360 NA 786802 0 0 0 0 0 0 0 NM_204622 chr26 3339753 3358863 - 760266 NA 779376 NA 0 0 0 0 0 0 0 NM_205515 chr26 3359016 3368964 + NA 760113 NA 750165 0 0 0 0 0 0 0 NM_001012843 chr26 3370712 3377196 + NA 748417 NA 741933 0 0 0 0 0 0 0 NM_001029849 chr26 3377655 3382628 - 736501 NA 741474 NA 0 0 0 0 0 0 0 NM_001006323 chr26 3439841 3454783 - 664346 NA 679288 NA 0 0 0 0 0 0 0 NR_035162 chr26 3455233 3455324 + NA 663896 NA 663805 0 0 0 0 0 0 0 NM_001012697 chr26 3516478 3545774 + NA 602651 NA 573355 0 0 0 0 0 0 0 NM_001030917 chr26 3590932 3597509 - 521620 NA 528197 NA 0 0 0 0 0 0 0 NM_001031500 chr26 3597231 3600802 + NA 521898 NA 518327 0 0 0 0 0 0 0 NM_001040018 chr26 3629575 3631171 + NA 489554 NA 487958 0 0 0 0 0 0 0 NM_001257295 chr26 3698350 3701362 - 417767 NA 420779 NA 0 0 0 0 0 0 0 NM_001257296 chr26 3701377 3715857 - 403272 NA 417752 NA 0 0 0 0 0 0 0 NM_001012549 chr26 3735643 3742472 - 376657 NA 383486 NA 0 0 0 0 0 0 0 NM_001030918 chr26 3742618 3760175 - 358954 NA 376511 NA 0 0 0 0 0 0 0 NM_001006324 chr26 3760758 3765368 - 353761 NA 358371 NA 0 0 0 0 0 0 0 NM_205063 chr26 3809805 3812700 + NA 309324 NA 306429 0 0 0 0 0 0 0 NM_001293109 chr26 3859074 3879130 - 239999 NA 260055 NA 0 0 0 0 0 0 0 NM_001293108 chr26 3859074 3882051 - 237078 NA 260055 NA 0 0 0 0 0 0 0 NR_102328 chr26 3916006 3918143 - 200986 NA 203123 NA 0 0 0 0 0 0 0 NM_204728 chr26 3920817 3937442 - 181687 NA 198312 NA 0 0 0 0 0 0 0 NM_001244905 chr26 4104910 4108376 + NA 14219 NA 10753 0 0 0 0 0 0 0 NM_001293166 chr26 4138324 4142325 - NA 23196 NA 19195 0 0 0 0 0 0 0 NM_001030919 chr26 4144091 4175943 + 24962 NA 56814 NA 0 0 0 0 0 0 0 NM_001257297 chr26 4209891 4216177 + 90762 NA 97048 NA 0 0 0 0 0 0 0 NM_001257298 chr26 4218028 4238067 + 98899 NA 118938 NA 0 0 0 0 0 0 0 NM_205490 chr26 4375371 4380959 - NA 261830 NA 256242 0 0 0 0 0 0 0 NM_001305129 chr26 4391940 4397490 + 272811 NA 278361 NA 0 0 0 0 0 0 0 NM_001271612 chr26 4433568 4438784 + 314439 NA 319655 NA 0 0 0 0 0 0 0 NM_001030920 chr26 4498991 4730550 + 379862 NA 611421 NA 0 0 0 0 0 0 0 NM_001030921 chr26 4541748 4544997 - NA 425868 NA 422619 0 0 0 0 0 0 0 NM_001006325 chr26 4548211 4559974 + 429082 NA 440845 NA 0 0 0 0 0 0 0 NM_001037832 chr26 4571684 4576072 - NA 456943 NA 452555 0 0 0 0 0 0 0 NM_001080870 chr26 4578266 4580646 - NA 461517 NA 459137 0 0 0 0 0 0 0 NM_001080868 chr26 4578266 4580647 - NA 461518 NA 459137 0 0 0 0 0 0 0 NM_001030922 chr26 4730394 4744364 - NA 625235 NA 611265 0 0 0 0 0 0 0 NM_204877 chr26 4751619 4755464 - NA 636335 NA 632490 0 0 0 0 0 0 0 NM_001302134 chr26 4791084 4792014 + 671955 NA 672885 NA 0 0 0 0 0 0 0 NM_001006327 chr26 4828534 4833077 - NA 713948 NA 709405 0 0 0 0 0 0 0 NM_001008453 chr26 4838545 4850970 - NA 731841 NA 719416 0 0 0 0 0 0 0 NM_001030923 chr26 4876559 4884910 + 757430 NA 765781 NA 0 0 0 0 0 0 0 NM_204429 chr26 4897094 4901738 - NA 782609 NA 777965 0 0 0 0 0 0 0 NM_204967 chr26 4946735 4952662 - NA 833533 NA 827606 0 0 0 0 0 0 0 NM_204473 chr26 4990765 4993729 + 871636 NA 874600 NA 0 0 0 0 0 0 0 NR_105623 chr26 5087926 5087980 - NA 968851 NA 968797 0 0 0 0 0 0 0