Resource
| Id | DNase-seq/ENCSR580OAH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR580OAH [biosample_summary="Homo sapiens renal pelvis tissue male embryo (91 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (91 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN466EWJ|/analyses/ENCAN466EWJ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF115XKL|/files/ENCFF115XKL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 38345560 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 {ENCFF451NJI|/files/ENCFF451NJI/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 38023425 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_ENCSR580OAH | float |
DNase-seq_ENCSR580OAH |
DNase-seq ENCSR580OAH [biosample_summary="Homo sapiens renal pelvis tissue male embryo (91 days)"]
|
 |
[3, 1.05e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15034475 | 0.47% | 99989 |
| chr1 | 1374755 | 0.55% | 9142 |
| chr2 | 1166729 | 0.48% | 7761 |
| chr3 | 941434 | 0.47% | 6260 |
| chr4 | 746577 | 0.39% | 4957 |
| chr5 | 804115 | 0.44% | 5347 |
| chr6 | 874782 | 0.51% | 5817 |
| chr7 | 762378 | 0.48% | 5064 |
| chr8 | 671428 | 0.46% | 4469 |
| chr9 | 655606 | 0.47% | 4352 |
| chr10 | 729205 | 0.55% | 4854 |
| chr11 | 772118 | 0.57% | 5142 |
| chr12 | 738056 | 0.55% | 4911 |
| chr13 | 399208 | 0.35% | 2651 |
| chr14 | 476539 | 0.45% | 3173 |
| chr15 | 503287 | 0.49% | 3349 |
| chr16 | 511515 | 0.57% | 3401 |
| chr17 | 669354 | 0.80% | 4455 |
| chr18 | 345755 | 0.43% | 2297 |
| chr19 | 594216 | 1.01% | 3956 |
| chr20 | 414048 | 0.64% | 2756 |
| chr21 | 173637 | 0.37% | 1152 |
| chr22 | 286590 | 0.56% | 1910 |
| chrX | 406493 | 0.26% | 2702 |
| chrY | 16650 | 0.03% | 111 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 99989 | 40 | 450 | 150.36 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF280ELK.bed.gz | 971.26 KB | a8566a25148d8972de45d027c38ae60d |
| ENCFF280ELK.tabix.bed.gz | 834.8 KB | 2abdec08269153b0e74b5be8e295fbd2 |
| ENCFF280ELK.tabix.bed.gz.tbi | 462.41 KB | 7f4180d8d69f197b3fef1de0f10124e1 |
| genomic_resource.yaml | 2.59 KB | 80e0e23284e120763f1448aa660385c2 |
| statistics/ |