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SRR10486671,SRR10486672,SRR10486673,...
| Gene read counts | Bidirectional read counts | dREG regions | |
| ZIP archive | ZIP archive | ZIP archive | |
| For TDF visualization files please see individual sample downloads or dataset pages for prebuilt ZIP archives. | |||
| Sample name | Sample ID | Paper identifier | Protocol | Library prep | Control/Experimental | Wildtype & Untreated | QC score | Replicate |
| SRR10486671 | 1930 | Nguyen2020dichotomous | GRO-seq | circularization | control | True | 3 | 1 |
| SRR10486672 | 1931 | Nguyen2020dichotomous | GRO-seq | circularization | control | True | 3 | 2 |
| SRR10486673 | 1932 | Nguyen2020dichotomous | GRO-seq | circularization | control | True | 3 | 3 |
| SRR10486674 | 1933 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 2 | 1 |
| SRR10486675 | 1934 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 2 | 2 |
| SRR10486676 | 1935 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 5 | 3 |
| SRR10486677 | 1936 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 3 | 1 |
| SRR10486678 | 1937 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 3 | 2 |
| SRR10486679 | 1938 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 4 | 3 |
| SRR10486680 | 1939 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 2 | 1 |
| SRR10486681 | 1940 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 1 | 2 |
| SRR10486682 | 1941 | Nguyen2020dichotomous | GRO-seq | circularization | experimental | False | 3 | 3 |
| Sample name | Organism | Sample type | Cell type | Clone/Individual | Strain | Genotype | Construct |
| SRR10486671 | M. musculus | primary cell | bone marrow derived macrophage | ||||
| SRR10486672 | M. musculus | primary cell | bone marrow derived macrophage | ||||
| SRR10486673 | M. musculus | primary cell | bone marrow derived macrophage | ||||
| SRR10486674 | M. musculus | primary cell | bone marrow derived macrophage | ||||
| SRR10486675 | M. musculus | primary cell | bone marrow derived macrophage | ||||
| SRR10486676 | M. musculus | primary cell | bone marrow derived macrophage | ||||
| SRR10486677 | M. musculus | primary cell | bone marrow derived macrophage | Mhd3 -/- | |||
| SRR10486678 | M. musculus | primary cell | bone marrow derived macrophage | Mhd3 -/- | |||
| SRR10486679 | M. musculus | primary cell | bone marrow derived macrophage | Mhd3 -/- | |||
| SRR10486680 | M. musculus | primary cell | bone marrow derived macrophage | Mhd3 -/- | |||
| SRR10486681 | M. musculus | primary cell | bone marrow derived macrophage | Mhd3 -/- | |||
| SRR10486682 | M. musculus | primary cell | bone marrow derived macrophage | Mhd3 -/- |
| Sample name | Condition type | Treatment | Start time | End time | Duration |
| SRR10486671 | vehicle | PBS | -4 hr | 0 hr | 4 hr |
| SRR10486672 | vehicle | PBS | -4 hr | 0 hr | 4 hr |
| SRR10486673 | vehicle | PBS | -4 hr | 0 hr | 4 hr |
| SRR10486674 | treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| SRR10486675 | treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| SRR10486676 | treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| SRR10486677 | vehicle | PBS | -4 hr | 0 hr | 4 hr |
| SRR10486678 | vehicle | PBS | -4 hr | 0 hr | 4 hr |
| SRR10486679 | vehicle | PBS | -4 hr | 0 hr | 4 hr |
| SRR10486680 | treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| SRR10486681 | treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| SRR10486682 | treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| 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 |
| SRR10486671 | 50 | 24,400,986 | 0.78795 | 0.6585 | 9.6229 | 0.26398 | 3 | 5 |
| SRR10486672 | 50 | 20,617,654 | 0.77157 | 0.6798 | 9.5531 | 0.26588 | 3 | 5 |
| SRR10486673 | 50 | 29,922,974 | 0.71539 | 0.7119 | 8.80765 | 0.37214 | 3 | 4 |
| SRR10486674 | 50 | 61,657,098 | 0.62412 | 0.2907 | 2.12147 | 0.41952 | 2 | 1 |
| SRR10486675 | 50 | 26,342,603 | 0.4526 | 0.4846 | 3.2608 | 0.58622 | 2 | 2 |
| SRR10486676 | 100 | 58,469,761 | 0.11905 | 0.0001 | None | 0.02118 | 5 | 0 |
| SRR10486677 | 50 | 23,649,971 | 0.75467 | 0.6643 | 9.0104 | 0.29468 | 3 | 5 |
| SRR10486678 | 50 | 20,903,769 | 0.75531 | 0.6385 | 7.65254 | 0.2726 | 3 | 4 |
| SRR10486679 | 50 | 24,739,341 | 0.84823 | 0.509 | 7.81081 | 0.16455 | 4 | 4 |
| SRR10486680 | 100 | 65,118,397 | 0.52124 | 0.2596 | 1.35868 | 0.56423 | 2 | 1 |
| SRR10486681 | 100 | 54,599,436 | 0.45504 | 0.3222 | 1.41942 | 0.62706 | 1 | 1 |
| SRR10486682 | 50 | 147,467,903 | 0.65277 | 0.3836 | 1.84203 | 0.56594 | 3 | 1 |
| 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 |
| SRR10486671 | None | None | None | None | 3585 | 744 | 1320 | 983 |
| SRR10486672 | None | None | None | None | 3337 | 782 | 1167 | 933 |
| SRR10486673 | None | None | None | None | 5527 | 1299 | 2065 | 1538 |
| SRR10486674 | None | None | None | None | 11158 | 4284 | 3514 | 2546 |
| SRR10486675 | None | None | None | None | 11414 | 4388 | 3633 | 2504 |
| SRR10486676 | None | None | None | None | None | None | None | None |
| SRR10486677 | None | None | None | None | 3970 | 900 | 1416 | 1134 |
| SRR10486678 | None | None | None | None | 3461 | 846 | 1173 | 1037 |
| SRR10486679 | None | None | None | None | 2029 | 471 | 659 | 642 |
| SRR10486680 | None | None | None | None | 13229 | 4443 | 4693 | 3314 |
| SRR10486681 | None | None | None | None | 14636 | 4547 | 5365 | 3923 |
| SRR10486682 | None | None | None | None | 29221 | 6899 | 12271 | 8451 |
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