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Sample Details

SRR10063517,SRR10063518,SRR10063519,...
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Technical details
Sample name Sample ID Paper identifier Protocol Library prep Control/Experimental Wildtype & Untreated QC score Replicate
SRR10063517 1571 Linnakuosmanen2020nrf2 GRO-seq circularization control True 2 1
SRR10063518 1572 Linnakuosmanen2020nrf2 GRO-seq circularization control True 4 2
SRR10063519 1573 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 1
SRR10063520 1574 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 4 2
SRR10063521 1575 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 1
SRR10063522 1576 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 2
SRR10063523 1577 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 1
SRR10063524 1578 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 2
SRR10063525 1579 Linnakuosmanen2020nrf2 GRO-seq circularization control True 2 1
SRR10063526 1580 Linnakuosmanen2020nrf2 GRO-seq circularization control True 2 2
SRR10063527 1581 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 1
SRR10063528 1582 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 2
SRR10063529 1583 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 3
SRR10063530 1584 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 4 1
SRR10063531 1585 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 2
SRR10063532 1586 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 3
SRR10063533 1587 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 4 1
SRR10063534 1588 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 2
SRR10063535 1589 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 3
SRR10063536 1590 Linnakuosmanen2020nrf2 GRO-seq circularization control True 3 1
SRR10063537 1591 Linnakuosmanen2020nrf2 GRO-seq circularization control True 2 2
SRR10063540 1592 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 1
SRR10063541 1593 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 4 2
SRR10063544 1594 Linnakuosmanen2020nrf2 GRO-seq circularization control True 2 1
SRR10063545 1595 Linnakuosmanen2020nrf2 GRO-seq circularization control True 2 2
SRR10063548 1596 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 1
SRR11849645 1597 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 1
SRR11849646 1598 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 3 1
SRR11849647 1599 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 1 1
SRR11849648 1600 Linnakuosmanen2020nrf2 GRO-seq circularization experimental False 2 1
Cellular details
Sample name Organism Sample type Cell type Clone/Individual Strain Genotype Construct
SRR10063517 H. sapiens primary cell HAEC
SRR10063518 H. sapiens primary cell HAEC
SRR10063519 H. sapiens primary cell HAEC
SRR10063520 H. sapiens primary cell HAEC
SRR10063521 H. sapiens primary cell HAEC
SRR10063522 H. sapiens primary cell HAEC
SRR10063523 H. sapiens primary cell HAEC
SRR10063524 H. sapiens primary cell HAEC
SRR10063525 H. sapiens primary cell HUVEC
SRR10063526 H. sapiens primary cell HUVEC
SRR10063527 H. sapiens primary cell HUVEC
SRR10063528 H. sapiens primary cell HUVEC
SRR10063529 H. sapiens primary cell HUVEC
SRR10063530 H. sapiens primary cell HUVEC
SRR10063531 H. sapiens primary cell HUVEC
SRR10063532 H. sapiens primary cell HUVEC
SRR10063533 H. sapiens primary cell HUVEC
SRR10063534 H. sapiens primary cell HUVEC
SRR10063535 H. sapiens primary cell HUVEC
SRR10063536 H. sapiens primary cell HASM
SRR10063537 H. sapiens primary cell HASM
SRR10063540 H. sapiens primary cell HASM
SRR10063541 H. sapiens primary cell HASM
SRR10063544 H. sapiens primary cell CD14+ macrophage
SRR10063545 H. sapiens primary cell CD14+ macrophage
SRR10063548 H. sapiens primary cell CD14+ macrophage
SRR11849645 H. sapiens primary cell HUVEC
SRR11849646 H. sapiens primary cell HUVEC
SRR11849647 H. sapiens primary cell HUVEC
SRR11849648 H. sapiens primary cell HUVEC
Conditions
Sample name Condition type Treatment Start time End time Duration
SRR10063517 vehicle growth media -6 hr 0 hr 6 hr
SRR10063518 vehicle growth media -6 hr 0 hr 6 hr
SRR10063519 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
SRR10063520 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
SRR10063521 treatment oxPAPC (30 g/m) -6 hr 0 hr 6 hr
SRR10063522 treatment oxPAPC (30 g/m) -6 hr 0 hr 6 hr
SRR10063523 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
treatment oxPAPC (30 g/m) -6 hr 0 hr 6 hr
SRR10063524 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063525 vehicle growth media -6 hr 0 hr 6 hr
SRR10063526 vehicle growth media -6 hr 0 hr 6 hr
SRR10063527 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
SRR10063528 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
SRR10063529 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
SRR10063530 treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063531 treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063532 treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063533 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063534 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063535 treatment hypoxia (1 percent O2, 5 percent CO2) -6 hr 0 hr 6 hr
treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063536 vehicle growth media -6 hr 0 hr 6 hr
SRR10063537 vehicle growth media -6 hr 0 hr 6 hr
SRR10063540 treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063541 treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR10063544 vehicle growth media -6 hr 0 hr 6 hr
SRR10063545 vehicle growth media -6 hr 0 hr 6 hr
SRR10063548 treatment oxPAPC (30 g/mL) -6 hr 0 hr 6 hr
SRR11849645 vehicle methanol (0.06 percent) -2 hr 0 hr 2 hr
SRR11849646 vehicle methanol (0.06 percent) -12 hr 0 hr 12 hr
SRR11849647 treatment nitro-octadec-9-enoic acid (3 microM) -2 hr 0 hr 2 hr
SRR11849648 treatment nitro-octadec-9-enoic acid (3 microM) -12 hr 0 hr 12 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
SRR10063517 51 19,245,214 0.39985 0.929 2.08135 0.67422 2 1
SRR10063518 51 9,137,200 0.29636 0.9063 2.24832 0.69366 4 1
SRR10063519 51 18,164,866 0.41404 0.929 2.47766 0.62809 2 1
SRR10063520 51 8,193,993 0.28348 0.9323 2.05724 0.69725 4 1
SRR10063521 51 14,620,388 0.3448 0.9336 2.2434 0.68974 3 1
SRR10063522 51 10,556,526 0.29455 0.9347 1.97625 0.70488 3 1
SRR10063523 51 15,866,759 0.47878 0.934 2.1277 0.58899 2 1
SRR10063524 51 15,623,116 0.37652 0.935 2.15 0.66788 2 1
SRR10063525 51 18,940,314 0.26906 0.9377 2.14919 0.77536 2 1
SRR10063526 51 15,014,124 0.30982 0.931 1.65025 0.72477 2 1
SRR10063527 51 14,960,294 0.52181 0.9481 2.24532 0.55732 3 1
SRR10063528 51 16,581,884 0.41971 0.9216 2.65666 0.61553 2 1
SRR10063529 51 13,235,585 0.37746 0.9116 2.40781 0.64506 3 1
SRR10063530 51 99,426,506 0.85094 0.9477 2.08428 0.53541 4 1
SRR10063531 51 14,378,965 0.35749 0.8778 2.36056 0.67322 3 1
SRR10063532 51 12,410,810 0.31954 0.9229 2.44444 0.69199 3 1
SRR10063533 51 51,447,099 0.88385 0.9371 3.19855 0.33682 4 2
SRR10063534 51 15,524,855 0.33976 0.9323 2.39177 0.69699 2 1
SRR10063535 51 14,252,269 0.34599 0.9514 1.93841 0.69758 3 1
SRR10063536 51 13,629,383 0.41237 0.9445 1.75723 0.63162 3 1
SRR10063537 51 22,586,729 0.62234 0.9181 2.85854 0.51604 2 1
SRR10063540 51 16,536,302 0.44707 0.9311 1.93464 0.62373 2 1
SRR10063541 51 7,344,502 0.89651 0.816 4.62411 0.07569 4 2
SRR10063544 51 19,383,130 0.43467 0.9332 2.53846 0.66922 2 1
SRR10063545 51 26,314,900 0.54436 0.8502 2.61305 0.61938 2 1
SRR10063548 51 18,268,565 0.46955 0.8735 2.55195 0.58623 2 1
SRR11849645 48 18,318,861 0.35128 0.9162 2.81624 0.71427 2 1
SRR11849646 48 17,057,196 0.68528 0.9093 2.56386 0.42761 3 1
SRR11849647 48 20,657,216 0.49822 0.9227 2.3285 0.63466 1 1
SRR11849648 48 17,980,978 0.42878 0.9146 2.57456 0.66294 2 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
SRR10063517 29370 10722 12443 6288 20957 8156 8616 4459
SRR10063518 23836 10367 9644 4242 16297 8443 5769 2601
SRR10063519 28277 11357 11478 6050 23607 9857 9710 4685
SRR10063520 16920 7118 7266 2731 12498 6968 4267 1723
SRR10063521 21763 8937 9381 3660 16351 7632 6643 2513
SRR10063522 24022 10024 9996 4341 17005 8302 6399 2803
SRR10063523 20936 8336 8896 4027 19165 8951 7609 3404
SRR10063524 24420 10063 10407 4344 19741 8910 7992 3321
SRR10063525 31398 11242 12973 7359 23388 8421 9766 5195
SRR10063526 27612 8357 12242 6634 17323 6695 6773 4051
SRR10063527 17990 7226 7628 3197 15301 8017 5706 2218
SRR10063528 29163 11706 12018 6053 23069 9903 9428 4353
SRR10063529 26326 8751 11312 6424 20710 8979 8184 4264
SRR10063530 29945 10858 12821 6128 26861 8607 12128 5913
SRR10063531 22581 9260 9621 3963 16676 7717 6602 2653
SRR10063532 24194 9750 10433 4389 16625 7625 6485 2753
SRR10063533 17081 7215 7421 2355 16636 8866 6110 2141
SRR10063534 29977 10479 12737 7081 25150 9766 10665 5403
SRR10063535 26643 8602 11443 6671 22834 8835 9437 5178
SRR10063536 24280 8833 9982 4967 14845 6963 5547 2639
SRR10063537 26567 11542 10535 4667 19342 9168 7320 3202
SRR10063540 24542 9118 10601 4459 16017 7204 6647 2573
SRR10063541 3151 1774 1072 202 3178 2494 763 174
SRR10063544 30198 11417 11929 6475 22372 8383 9202 4859
SRR10063545 27926 11329 10840 5722 22961 8971 9436 4827
SRR10063548 26396 10258 10753 5061 19268 8058 7771 3601
SRR11849645 16537 6290 7290 2949 13077 5867 5063 2238
SRR11849646 8807 3634 3797 1104 7219 4223 2370 853
SRR11849647 15255 5254 7014 2795 12367 5223 5087 2169
SRR11849648 16553 6240 7381 3004 14458 6714 5597 2378
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