Resource
| Id | DNase-seq/ENCSR006XED |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR006XED [biosample_summary="Homo sapiens left lung tissue female embryo (98 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (98 days) output_type: peaks audit_error: Alignment file {ENCFF626KHX|/files/ENCFF626KHX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 11746967 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_error: Alignment file {ENCFF544XES|/files/ENCFF544XES/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 11687686 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_internal_action: Archived analysis {ENCAN149VZQ|/analyses/ENCAN149VZQ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR006XED | float |
DNase-seq_ENCSR006XED |
DNase-seq ENCSR006XED [biosample_summary="Homo sapiens left lung tissue female embryo (98 days)"]
|
 |
[2, 468] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 7749803 | 0.24% | 51603 |
| chr1 | 690092 | 0.28% | 4596 |
| chr2 | 624450 | 0.26% | 4158 |
| chr3 | 528596 | 0.27% | 3516 |
| chr4 | 405094 | 0.21% | 2701 |
| chr5 | 450000 | 0.25% | 2998 |
| chr6 | 469141 | 0.27% | 3123 |
| chr7 | 402686 | 0.25% | 2682 |
| chr8 | 369750 | 0.25% | 2460 |
| chr9 | 323700 | 0.23% | 2157 |
| chr10 | 384150 | 0.29% | 2558 |
| chr11 | 402996 | 0.30% | 2685 |
| chr12 | 379650 | 0.28% | 2528 |
| chr13 | 224070 | 0.20% | 1490 |
| chr14 | 241200 | 0.23% | 1606 |
| chr15 | 247300 | 0.24% | 1647 |
| chr16 | 240308 | 0.27% | 1602 |
| chr17 | 298350 | 0.36% | 1985 |
| chr18 | 184650 | 0.23% | 1229 |
| chr19 | 257070 | 0.44% | 1712 |
| chr20 | 192150 | 0.30% | 1278 |
| chr21 | 88800 | 0.19% | 592 |
| chr22 | 131550 | 0.26% | 874 |
| chrX | 213900 | 0.14% | 1425 |
| chrY | 150 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 51603 | 58 | 386 | 150.18 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF796EIB.bed.gz | 504.23 KB | bf5b9e7522d6de643ace23664a7ace9e |
| ENCFF796EIB.tabix.bed.gz | 432.52 KB | e3227379656f98352afb49eb60edbe1d |
| ENCFF796EIB.tabix.bed.gz.tbi | 313.74 KB | 9fa6954c4ac7d15f9cf9816ef1e662a1 |
| genomic_resource.yaml | 2.59 KB | 7b5d13230bca10ab601a50bc13064be6 |
| statistics/ |