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Sample Details

SRR8714792,SRR8714793,SRR8714794,...
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Technical details
Sample name Sample ID Paper identifier Protocol Library prep Control/Experimental Wildtype & Untreated QC score Replicate
SRR8714792 353 Boxer2020mecp2 PRO-seq ligation control True 2 1
SRR8714793 354 Boxer2020mecp2 PRO-seq ligation control True 2 2
SRR8714794 355 Boxer2020mecp2 PRO-seq ligation control True 3 3
SRR8714795 356 Boxer2020mecp2 PRO-seq ligation control True 3 4
SRR8714796 357 Boxer2020mecp2 PRO-seq ligation control True 4 5
SRR8714797 358 Boxer2020mecp2 PRO-seq ligation experimental False 2 1
SRR8714798 359 Boxer2020mecp2 PRO-seq ligation experimental False 2 2
SRR8714799 360 Boxer2020mecp2 PRO-seq ligation experimental False 3 3
SRR8714800 361 Boxer2020mecp2 PRO-seq ligation experimental False 4 4
SRR8714801 362 Boxer2020mecp2 PRO-seq ligation experimental False 3 5
SRR8714802 363 Boxer2020mecp2 PRO-seq ligation control True 3 1
SRR8714803 364 Boxer2020mecp2 PRO-seq ligation control True 4 2
SRR8714804 365 Boxer2020mecp2 PRO-seq ligation control True 4 3
SRR8714805 366 Boxer2020mecp2 PRO-seq ligation control True 3 4
SRR8714806 367 Boxer2020mecp2 PRO-seq ligation control True 3 5
SRR8714807 368 Boxer2020mecp2 PRO-seq ligation experimental False 3 1
SRR8714808 369 Boxer2020mecp2 PRO-seq ligation experimental False 4 2
SRR8714809 370 Boxer2020mecp2 PRO-seq ligation experimental False 4 3
SRR8714810 371 Boxer2020mecp2 PRO-seq ligation experimental False 3 4
SRR8714811 372 Boxer2020mecp2 PRO-seq ligation experimental False 3 5
SRR8714812 373 Boxer2020mecp2 PRO-seq ligation control False 4 1
SRR8714813 374 Boxer2020mecp2 PRO-seq ligation control False 4 2
SRR8714814 375 Boxer2020mecp2 PRO-seq ligation control False 4 3
SRR8714815 376 Boxer2020mecp2 PRO-seq ligation experimental False 3 1
SRR8714816 377 Boxer2020mecp2 PRO-seq ligation experimental False 3 2
SRR8714817 378 Boxer2020mecp2 PRO-seq ligation experimental False 4 3
SRR8714818 379 Boxer2020mecp2 PRO-seq ligation control True 1 1
SRR8714819 380 Boxer2020mecp2 PRO-seq ligation control True 1 2
SRR8714820 381 Boxer2020mecp2 PRO-seq ligation control True 1 3
SRR8714821 382 Boxer2020mecp2 PRO-seq ligation experimental False 1 1
SRR8714822 383 Boxer2020mecp2 PRO-seq ligation experimental False 2 2
SRR8714823 384 Boxer2020mecp2 PRO-seq ligation experimental False 1 3
SRR8714824 385 Boxer2020mecp2 PRO-seq ligation experimental False 2 1
SRR8714825 386 Boxer2020mecp2 PRO-seq ligation experimental False 2 2
SRR8714826 387 Boxer2020mecp2 PRO-seq ligation experimental False 2 3
SRR8714827 388 Boxer2020mecp2 PRO-seq ligation experimental False 2 1
SRR8714828 389 Boxer2020mecp2 PRO-seq ligation experimental False 2 2
SRR8714829 390 Boxer2020mecp2 PRO-seq ligation experimental False 2 3
SRR8714830 391 Boxer2020mecp2 PRO-seq ligation experimental False 1 1
SRR8714831 392 Boxer2020mecp2 PRO-seq ligation experimental False 1 2
SRR8714832 393 Boxer2020mecp2 PRO-seq ligation experimental False 1 3
SRR8714833 394 Boxer2020mecp2 PRO-seq ligation experimental False 2 1
SRR8714834 395 Boxer2020mecp2 PRO-seq ligation experimental False 1 2
SRR8714835 396 Boxer2020mecp2 PRO-seq ligation experimental False 2 1
SRR8714836 397 Boxer2020mecp2 PRO-seq ligation experimental False 3 2
SRR8714837 398 Boxer2020mecp2 PRO-seq ligation experimental False 2 3
SRR8714838 399 Boxer2020mecp2 PRO-seq ligation experimental False 2 1
SRR8714839 400 Boxer2020mecp2 PRO-seq ligation experimental False 3 2
SRR8714840 401 Boxer2020mecp2 PRO-seq ligation experimental False 2 3
Cellular details
Sample name Organism Sample type Cell type Clone/Individual Strain Genotype Construct
SRR8714792 M. musculus tissue forebrain
SRR8714793 M. musculus tissue forebrain
SRR8714794 M. musculus tissue forebrain
SRR8714795 M. musculus tissue forebrain
SRR8714796 M. musculus tissue forebrain
SRR8714797 M. musculus tissue forebrain Mecp2 -/Y
SRR8714798 M. musculus tissue forebrain Mecp2 -/Y
SRR8714799 M. musculus tissue forebrain Mecp2 -/Y
SRR8714800 M. musculus tissue forebrain Mecp2 -/Y
SRR8714801 M. musculus tissue forebrain Mecp2 -/Y
SRR8714802 M. musculus tissue forebrain
SRR8714803 M. musculus tissue forebrain
SRR8714804 M. musculus tissue forebrain
SRR8714805 M. musculus tissue forebrain
SRR8714806 M. musculus tissue forebrain
SRR8714807 M. musculus tissue forebrain Mecp2 R306C/Y
SRR8714808 M. musculus tissue forebrain Mecp2 R306C/Y
SRR8714809 M. musculus tissue forebrain Mecp2 R306C/Y
SRR8714810 M. musculus tissue forebrain Mecp2 R306C/Y
SRR8714811 M. musculus tissue forebrain Mecp2 R306C/Y
SRR8714812 M. musculus tissue forebrain Dmnt3a fl/fl
SRR8714813 M. musculus tissue forebrain Dmnt3a fl/fl
SRR8714814 M. musculus tissue forebrain Dmnt3a fl/fl
SRR8714815 M. musculus tissue forebrain Dmnt3a fl/fl; Nestin-Cre
SRR8714816 M. musculus tissue forebrain Dmnt3a fl/fl; Nestin-Cre
SRR8714817 M. musculus tissue forebrain Dmnt3a fl/fl; Nestin-Cre
SRR8714818 M. musculus tissue forebrain
SRR8714819 M. musculus tissue forebrain
SRR8714820 M. musculus tissue forebrain
SRR8714821 M. musculus tissue forebrain
SRR8714822 M. musculus tissue forebrain
SRR8714823 M. musculus tissue forebrain
SRR8714824 M. musculus tissue forebrain
SRR8714825 M. musculus tissue forebrain
SRR8714826 M. musculus tissue forebrain
SRR8714827 M. musculus tissue forebrain
SRR8714828 M. musculus tissue forebrain
SRR8714829 M. musculus tissue forebrain
SRR8714830 M. musculus tissue forebrain Mecp2 -/Y
SRR8714831 M. musculus tissue forebrain Mecp2 -/Y
SRR8714832 M. musculus tissue forebrain Mecp2 -/Y
SRR8714833 M. musculus tissue forebrain Mecp2 -/Y
SRR8714834 M. musculus tissue forebrain Mecp2 -/Y
SRR8714835 M. musculus tissue forebrain Mecp2 -/Y
SRR8714836 M. musculus tissue forebrain Mecp2 -/Y
SRR8714837 M. musculus tissue forebrain Mecp2 -/Y
SRR8714838 M. musculus tissue forebrain Mecp2 -/Y
SRR8714839 M. musculus tissue forebrain Mecp2 -/Y
SRR8714840 M. musculus tissue forebrain Mecp2 -/Y
Conditions
Sample name Condition type Treatment Start time End time Duration
SRR8714792 no treatment None None None
SRR8714793 no treatment None None None
SRR8714794 no treatment None None None
SRR8714795 no treatment None None None
SRR8714796 no treatment None None None
SRR8714797 no treatment None None None
SRR8714798 no treatment None None None
SRR8714799 no treatment None None None
SRR8714800 no treatment None None None
SRR8714801 no treatment None None None
SRR8714802 no treatment None None None
SRR8714803 no treatment None None None
SRR8714804 no treatment None None None
SRR8714805 no treatment None None None
SRR8714806 no treatment None None None
SRR8714807 no treatment None None None
SRR8714808 no treatment None None None
SRR8714809 no treatment None None None
SRR8714810 no treatment None None None
SRR8714811 no treatment None None None
SRR8714812 no treatment None None None
SRR8714813 no treatment None None None
SRR8714814 no treatment None None None
SRR8714815 no treatment None None None
SRR8714816 no treatment None None None
SRR8714817 no treatment None None None
SRR8714818 vehicle DMSO (10%) -40 min 0 min 40 min
SRR8714819 vehicle DMSO (10%) -40 min 0 min 40 min
SRR8714820 vehicle DMSO (10%) -40 min 0 min 40 min
SRR8714821 treatment flavopiridol (50 mg/kg) -20 min 0 min 20 min
SRR8714822 treatment flavopiridol (50 mg/kg) -20 min 0 min 20 min
SRR8714823 treatment flavopiridol (50 mg/kg) -20 min 0 min 20 min
SRR8714824 treatment flavopiridol (50 mg/kg) -40 min 0 min 40 min
SRR8714825 treatment flavopiridol (50 mg/kg) -40 min 0 min 40 min
SRR8714826 treatment flavopiridol (50 mg/kg) -40 min 0 min 40 min
SRR8714827 treatment flavopiridol (50 mg/kg) -60 min 0 min 1 hr
SRR8714828 treatment flavopiridol (50 mg/kg) -60 min 0 min 1 hr
SRR8714829 treatment flavopiridol (50 mg/kg) -60 min 0 min 1 hr
SRR8714830 vehicle DMSO (10%) -40 min 0 min 40 min
SRR8714831 vehicle DMSO (10%) -40 min 0 min 40 min
SRR8714832 vehicle DMSO (10%) -40 min 0 min 40 min
SRR8714833 treatment flavopiridol (50 mg/kg) -20 min 0 min 20 min
SRR8714834 treatment flavopiridol (50 mg/kg) -20 min 0 min 20 min
SRR8714835 treatment flavopiridol (50 mg/kg) -40 min 0 min 40 min
SRR8714836 treatment flavopiridol (50 mg/kg) -40 min 0 min 40 min
SRR8714837 treatment flavopiridol (50 mg/kg) -40 min 0 min 40 min
SRR8714838 treatment flavopiridol (50 mg/kg) -60 min 0 min 1 hr
SRR8714839 treatment flavopiridol (50 mg/kg) -60 min 0 min 1 hr
SRR8714840 treatment flavopiridol (50 mg/kg) -60 min 0 min 1 hr
Sample metrics
Sample name Raw read length Trim read depth Duplication proportion Proportion reads mapped Exon/intron ratio Unique read proportion Sample QC score Sample NRO score
SRR8714792 75 110,559,498 0.59559 0.6573 4.6742 0.61337 2 2
SRR8714793 75 89,701,274 0.53414 0.6931 3.84448 0.68389 2 2
SRR8714794 75 187,990,129 0.75359 0.6792 5.17965 0.60476 3 3
SRR8714795 75 183,092,723 0.79454 0.6538 5.56485 0.56341 3 3
SRR8714796 75 175,628,964 0.83395 0.645 6.27801 0.49629 4 3
SRR8714797 75 59,964,503 0.51804 0.6153 4.66938 0.61294 2 2
SRR8714798 75 78,603,314 0.64391 0.6163 5.78013 0.53156 2 3
SRR8714799 75 182,860,984 0.77584 0.6492 6.42289 0.57341 3 3
SRR8714800 75 178,127,999 0.83975 0.6468 6.53517 0.50404 4 3
SRR8714801 75 173,415,786 0.78094 0.646 6.34344 0.53053 3 3
SRR8714802 75 84,593,129 0.67924 0.6499 5.6933 0.55199 3 3
SRR8714803 75 59,618,452 0.83892 0.4971 16.1602 0.27092 4 5
SRR8714804 75 285,789,372 0.84809 0.6611 2.92492 0.62857 4 1
SRR8714805 75 134,725,144 0.77324 0.7342 4.85837 0.5759 3 2
SRR8714806 75 107,463,503 0.70416 0.7294 5.73816 0.55408 3 3
SRR8714807 75 82,325,903 0.65628 0.6453 5.95357 0.5365 3 3
SRR8714808 75 64,201,920 0.82175 0.5401 12.9386 0.30684 4 5
SRR8714809 75 199,114,859 0.84222 0.6587 3.83059 0.56134 4 2
SRR8714810 75 104,616,629 0.7806 0.7172 5.93785 0.51144 3 3
SRR8714811 75 139,893,609 0.70057 0.7587 4.94421 0.61254 3 2
SRR8714812 75 145,260,791 0.81707 0.6133 6.14784 0.49694 4 3
SRR8714813 75 106,082,880 0.83744 0.6669 4.53057 0.51199 4 2
SRR8714814 75 107,111,067 0.90751 0.7128 4.53712 0.43077 4 2
SRR8714815 75 98,110,195 0.79411 0.6584 6.83635 0.45489 3 3
SRR8714816 75 92,678,345 0.75122 0.6833 5.77794 0.51572 3 3
SRR8714817 75 173,479,213 0.94986 0.6654 10.9702 0.29779 4 5
SRR8714818 75 87,726,364 0.38142 0.6844 3.14643 0.81287 1 2
SRR8714819 75 49,083,534 0.41094 0.6143 4.11455 0.72364 1 2
SRR8714820 75 46,625,505 0.38722 0.5788 3.58046 0.74868 1 2
SRR8714821 75 35,144,733 0.45983 0.6642 3.69758 0.67162 1 2
SRR8714822 75 71,339,439 0.5633 0.6592 5.15618 0.6086 2 3
SRR8714823 75 54,880,616 0.43555 0.6808 3.59727 0.70687 1 2
SRR8714824 75 34,035,705 0.57245 0.6527 5.66106 0.5469 2 3
SRR8714825 75 41,137,392 0.55114 0.6356 5.89978 0.56754 2 3
SRR8714826 75 53,588,830 0.52447 0.6905 4.35195 0.64694 2 2
SRR8714827 75 60,347,215 0.61657 0.6714 5.62958 0.55965 2 3
SRR8714828 75 58,906,784 0.63096 0.6647 6.82999 0.52367 2 3
SRR8714829 75 33,074,438 0.53548 0.6114 5.37535 0.55698 2 3
SRR8714830 75 56,303,900 0.36418 0.6789 3.16403 0.78925 1 2
SRR8714831 75 56,559,936 0.41171 0.7013 3.80462 0.74811 1 2
SRR8714832 75 61,585,509 0.33087 0.6923 3.09282 0.81326 1 2
SRR8714833 75 68,614,493 0.56183 0.6491 5.11259 0.60063 2 3
SRR8714834 75 64,350,945 0.45983 0.7083 3.18447 0.69859 1 2
SRR8714835 75 77,637,182 0.55764 0.6801 3.79534 0.68151 2 2
SRR8714836 75 45,668,354 0.77691 0.7001 7.23911 0.40455 3 4
SRR8714837 75 64,537,145 0.54317 0.6847 4.8719 0.61984 2 2
SRR8714838 75 77,699,954 0.57363 0.6321 5.23333 0.6122 2 3
SRR8714839 75 69,677,065 0.66903 0.6968 7.03726 0.50521 3 4
SRR8714840 75 74,774,756 0.59019 0.6939 5.29839 0.5723 2 3
Bidirectionals
Sample name Tfit total bidirs Tfit promoter bidirs Tfit intronic bidirs Tfit intergenic bidirs dREG total bidirs dREG promoter bidirs dREG intronic bidirs dREG intergenic bidirs
SRR8714792 47904 18919 13414 12651 40925 8826 16992 10536
SRR8714793 41514 17822 11282 9673 35090 8761 14195 8030
SRR8714794 61051 20446 17313 19488 57273 8589 25333 17755
SRR8714795 63136 20251 19525 19543 56706 9032 25051 17355
SRR8714796 63277 20440 20364 18646 54300 9469 23470 16435
SRR8714797 37191 16734 10727 7106 28033 8911 10414 5214
SRR8714798 44185 17445 13490 10415 35412 9687 14058 8084
SRR8714799 87220 20363 33217 28917 75920 8922 35881 24899
SRR8714800 68101 20524 23308 20203 58686 9480 26111 17938
SRR8714801 67315 20500 21203 21534 58934 8817 25950 18607
SRR8714802 47454 17697 14730 11900 38223 9818 15244 9439
SRR8714803 40439 12533 15539 9037 29579 10471 10591 5744
SRR8714804 37162 16701 10183 7925 39919 9249 17080 9433
SRR8714805 54845 19355 16461 15831 51321 9739 22429 14625
SRR8714806 58383 19853 17711 17277 50634 9224 21987 14575
SRR8714807 49985 18484 15533 12920 39758 9548 16143 10048
SRR8714808 39951 13440 14793 8486 29247 10438 10461 5694
SRR8714809 41610 17096 12140 9859 42549 9957 18103 10622
SRR8714810 58579 19320 19214 16373 49065 9927 20948 13820
SRR8714811 58318 20230 16748 17772 54916 8861 24631 16228
SRR8714812 48992 17885 15591 12391 42405 9466 17547 11179
SRR8714813 34023 14629 10445 6110 28362 9441 10481 5261
SRR8714814 24751 11495 7722 3106 21654 9108 7060 2809
SRR8714815 50735 18011 16785 12450 40162 9591 16369 10156
SRR8714816 49164 17810 15966 12269 39530 9649 16116 9907
SRR8714817 30588 11604 10859 5390 27799 10150 10069 4885
SRR8714818 38007 16701 10180 8428 30059 7781 12232 6134
SRR8714819 36268 15815 10898 6866 25610 8642 9475 4388
SRR8714820 31560 14726 9068 4751 20536 7809 6817 2815
SRR8714821 27424 11284 9759 3975 23791 9114 9090 3102
SRR8714822 37036 13356 13566 7383 33490 9138 14411 6326
SRR8714823 29292 11780 10342 4754 26150 8633 10586 3764
SRR8714824 29305 11893 10691 4185 24301 9109 9474 3084
SRR8714825 32039 12315 12051 4930 26062 8889 10538 3708
SRR8714826 32228 13628 10985 5087 26772 8414 11186 3968
SRR8714827 35624 13647 13555 5923 30636 8918 13426 5033
SRR8714828 38110 13477 15080 6890 32428 9009 14374 5635
SRR8714829 28066 12077 9995 3476 21801 8459 8237 2428
SRR8714830 33933 15612 9421 6151 24426 8007 9158 4023
SRR8714831 37880 16368 10955 7842 27910 8566 10869 5249
SRR8714832 34660 15641 9635 6558 25345 7871 9747 4348
SRR8714833 33393 12945 11713 6133 30078 9081 12440 5240
SRR8714834 28708 11410 10084 4748 26966 8536 11091 4041
SRR8714835 29545 11344 10835 4993 29643 8245 13152 4719
SRR8714836 26543 10894 9743 3474 24176 9364 9255 3088
SRR8714837 35718 14282 12541 6407 30668 8653 13237 5326
SRR8714838 37541 14807 13232 6926 31645 8411 13870 5784
SRR8714839 37367 13790 14366 6645 32707 8911 14561 5801
SRR8714840 36618 14489 12931 6622 31429 8426 13926 5587
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