Resource
| Id | DNase-seq/ENCSR488PHT |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR488PHT [biosample_summary="Homo sapiens left lung tissue male embryo (113 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (113 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN758KMY|/analyses/ENCAN758KMY/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF062TCM|/files/ENCFF062TCM/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 38883695 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_warning: Alignment file {ENCFF737ILJ|/files/ENCFF737ILJ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 38640691 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR488PHT | float |
DNase-seq_ENCSR488PHT |
DNase-seq ENCSR488PHT [biosample_summary="Homo sapiens left lung tissue male embryo (113 days)"]
|
![]() |
[3, 1.1e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15859971 | 0.49% | 105409 |
| chr1 | 1421687 | 0.57% | 9445 |
| chr2 | 1287085 | 0.53% | 8556 |
| chr3 | 1067520 | 0.54% | 7098 |
| chr4 | 843976 | 0.44% | 5606 |
| chr5 | 921293 | 0.51% | 6119 |
| chr6 | 980583 | 0.57% | 6516 |
| chr7 | 822951 | 0.52% | 5473 |
| chr8 | 745633 | 0.51% | 4950 |
| chr9 | 672561 | 0.49% | 4471 |
| chr10 | 801627 | 0.60% | 5328 |
| chr11 | 811210 | 0.60% | 5393 |
| chr12 | 779775 | 0.59% | 5184 |
| chr13 | 459490 | 0.40% | 3045 |
| chr14 | 491487 | 0.46% | 3263 |
| chr15 | 514336 | 0.50% | 3419 |
| chr16 | 473749 | 0.52% | 3153 |
| chr17 | 606299 | 0.73% | 4033 |
| chr18 | 377749 | 0.47% | 2511 |
| chr19 | 479980 | 0.82% | 3196 |
| chr20 | 390012 | 0.61% | 2594 |
| chr21 | 182850 | 0.39% | 1217 |
| chr22 | 263556 | 0.52% | 1753 |
| chrX | 441762 | 0.28% | 2935 |
| chrY | 22800 | 0.04% | 151 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 105409 | 18 | 450 | 150.46 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF676GRC.bed.gz | 1023.14 KB | 5154ab70fd7405835a6b0a822dffd6db |
| ENCFF676GRC.tabix.bed.gz | 879.37 KB | 0250c9c390ecead975c5ef548dabf880 |
| ENCFF676GRC.tabix.bed.gz.tbi | 484.08 KB | 97c7c58afcdcfd70b2e3a42c0801e612 |
| genomic_resource.yaml | 2.58 KB | 8ca36f25348dc18f6cea9ad6eb606fea |
| statistics/ |
