Explore DBNascent | browse or search sample metadata

 

Search

Advanced Search

All Samples

Samples By Dataset

Sample Details

SRR2518187,SRR2518188,SRR2518189,...
Downloads
Gene read counts Bidirectional read counts Tfit regions dREG regions
ZIP archive ZIP archive ZIP archive ZIP archive
For TDF visualization files please see individual sample downloads or dataset pages for prebuilt ZIP archives.
Technical details
Sample name Sample ID Paper identifier Protocol Library prep Control/Experimental Wildtype & Untreated QC score Replicate
SRR2518187 2387 Strikoudis2016regulation GRO-seq ligation control False 3 1
SRR2518188 2388 Strikoudis2016regulation GRO-seq ligation control False 3 2
SRR2518189 2389 Strikoudis2016regulation GRO-seq ligation control False 4 3
SRR2518190 2390 Strikoudis2016regulation GRO-seq ligation experimental False 3 1
SRR2518191 2391 Strikoudis2016regulation GRO-seq ligation experimental False 3 2
SRR2518192 2392 Strikoudis2016regulation GRO-seq ligation experimental False 3 3
SRR2518193 2393 Strikoudis2016regulation GRO-seq ligation experimental False 4 1
SRR2518194 2394 Strikoudis2016regulation GRO-seq ligation experimental False 4 2
SRR2518195 2395 Strikoudis2016regulation GRO-seq ligation experimental False 4 3
SRR2518196 2396 Strikoudis2016regulation GRO-seq ligation control False 3 1
SRR2518197 2397 Strikoudis2016regulation GRO-seq ligation control False 3 2
SRR2518198 2398 Strikoudis2016regulation GRO-seq ligation control False 3 3
SRR2518199 2399 Strikoudis2016regulation GRO-seq ligation experimental False 4 1
SRR2518200 2400 Strikoudis2016regulation GRO-seq ligation experimental False 3 2
SRR2518201 2401 Strikoudis2016regulation GRO-seq ligation experimental False 3 3
SRR2518202 2402 Strikoudis2016regulation GRO-seq ligation experimental False 3 1
SRR2518203 2403 Strikoudis2016regulation GRO-seq ligation experimental False 3 2
SRR2518204 2404 Strikoudis2016regulation GRO-seq ligation experimental False 3 3
Cellular details
Sample name Organism Sample type Cell type Clone/Individual Strain Genotype Construct
SRR2518187 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518188 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518189 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518190 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518191 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518192 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518193 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518194 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518195 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv
SRR2518196 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA control (stable)
SRR2518197 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA control (stable)
SRR2518198 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA control (stable)
SRR2518199 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA Phf5a (stable)
SRR2518200 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA Phf5a (stable)
SRR2518201 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA Phf5a (stable)
SRR2518202 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA Paf1 (stable)
SRR2518203 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA Paf1 (stable)
SRR2518204 M. musculus cell line ESC KH2 C57BL/6 x 129/Sv dox-inducible shRNA Paf1 (stable)
Conditions
Sample name Condition type Treatment Start time End time Duration
SRR2518187 treatment LIF (1000 U/mL) None None None
SRR2518188 treatment LIF (1000 U/mL) None None None
SRR2518189 treatment LIF (1000 U/mL) None None None
SRR2518190 no treatment None None None
SRR2518191 no treatment None None None
SRR2518192 no treatment None None None
SRR2518193 treatment LIF (1000 U/mL) None None None
treatment flavopiridol (300 nM) -1 hr 0 hr 1 hr
SRR2518194 treatment LIF (1000 U/mL) None None None
treatment flavopiridol (300 nM) -1 hr 0 hr 1 hr
SRR2518195 treatment LIF (1000 U/mL) None None None
treatment flavopiridol (300 nM) -1 hr 0 hr 1 hr
SRR2518196 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518197 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518198 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518199 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518200 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518201 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518202 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518203 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
SRR2518204 treatment LIF (1000 U/mL) None None None
treatment doxycycline (2 microg/mL) -3 day 0 day 3 day
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
SRR2518187 51 27,642,628 0.7942 0.7842 3.31832 0.21973 3 2
SRR2518188 51 27,070,240 0.7708 0.7935 3.3484 0.24424 3 2
SRR2518189 51 25,780,162 0.80275 0.8025 3.25854 0.20852 4 2
SRR2518190 51 23,824,261 0.73982 0.8222 4.01647 0.27855 3 2
SRR2518191 51 22,234,272 0.76042 0.7938 3.82098 0.25175 3 2
SRR2518192 51 26,560,831 0.7303 0.7998 3.43239 0.28626 3 2
SRR2518193 51 25,855,779 0.89819 0.766 3.77124 0.10922 4 2
SRR2518194 51 21,949,534 0.91092 0.7568 3.944 0.09538 4 2
SRR2518195 51 25,169,889 0.91004 0.7468 3.03656 0.09457 4 2
SRR2518196 51 21,783,629 0.74141 0.8087 3.33391 0.27763 3 2
SRR2518197 51 22,739,566 0.75447 0.8153 3.83446 0.2649 3 2
SRR2518198 51 21,379,998 0.76986 0.7793 3.1283 0.24596 3 2
SRR2518199 51 22,749,256 0.82872 0.7362 3.26326 0.18225 4 2
SRR2518200 51 19,537,259 0.7504 0.728 5.62222 0.27145 3 3
SRR2518201 51 22,050,340 0.79623 0.755 4.16135 0.21764 3 2
SRR2518202 51 30,780,845 0.7596 0.7251 3.28571 0.31453 3 2
SRR2518203 51 28,576,140 0.76574 0.6952 3.62482 0.28871 3 2
SRR2518204 51 33,406,811 0.79421 0.6828 2.84994 0.26784 3 1
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
SRR2518187 3824 746 1502 435 2866 523 936 1072
SRR2518188 3930 732 1661 472 2914 502 988 1125
SRR2518189 3643 717 1424 394 2545 486 787 982
SRR2518190 None None None None None None None None
SRR2518191 4073 817 1529 402 2658 491 918 918
SRR2518192 5009 1175 1965 552 3467 757 1144 1141
SRR2518193 3747 716 1301 230 2103 381 699 683
SRR2518194 2747 492 923 163 1592 269 494 522
SRR2518195 2863 482 996 130 1637 247 532 557
SRR2518196 3424 573 1399 503 2463 425 804 1014
SRR2518197 3603 609 1519 415 2616 451 908 989
SRR2518198 3423 682 1276 439 2153 430 653 807
SRR2518199 3604 797 1386 272 2056 412 668 697
SRR2518200 6818 631 3351 1426 6119 265 2520 3044
SRR2518201 4042 840 1754 396 2686 448 970 1029
SRR2518202 5814 1550 2280 713 4050 1063 1343 1122
SRR2518203 5674 1454 2234 603 3492 954 1127 910
SRR2518204 5241 1440 2016 548 3511 979 1046 952
Page Top
Top