Resource
| Id | DNase-seq/ENCSR036VRV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR036VRV [biosample_summary="Homo sapiens right kidney tissue female embryo (107 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (107 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN047SQS|/analyses/ENCAN047SQS/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF385AVB|/files/ENCFF385AVB/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 24688832 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 {ENCFF774DLC|/files/ENCFF774DLC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 24523925 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_ENCSR036VRV | float |
DNase-seq_ENCSR036VRV |
DNase-seq ENCSR036VRV [biosample_summary="Homo sapiens right kidney tissue female embryo (107 days)"]
|
 |
[2, 444] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 11524681 | 0.36% | 76550 |
| chr1 | 1045266 | 0.42% | 6948 |
| chr2 | 905182 | 0.37% | 6007 |
| chr3 | 739604 | 0.37% | 4912 |
| chr4 | 612454 | 0.32% | 4063 |
| chr5 | 645973 | 0.36% | 4292 |
| chr6 | 686144 | 0.40% | 4547 |
| chr7 | 577716 | 0.36% | 3838 |
| chr8 | 526937 | 0.36% | 3504 |
| chr9 | 486606 | 0.35% | 3231 |
| chr10 | 556521 | 0.42% | 3702 |
| chr11 | 573902 | 0.42% | 3818 |
| chr12 | 574539 | 0.43% | 3813 |
| chr13 | 307843 | 0.27% | 2037 |
| chr14 | 382455 | 0.36% | 2539 |
| chr15 | 381399 | 0.37% | 2538 |
| chr16 | 376896 | 0.42% | 2505 |
| chr17 | 491487 | 0.59% | 3265 |
| chr18 | 267931 | 0.33% | 1777 |
| chr19 | 429830 | 0.73% | 2862 |
| chr20 | 292672 | 0.45% | 1944 |
| chr21 | 123150 | 0.26% | 819 |
| chr22 | 205321 | 0.40% | 1362 |
| chrX | 334703 | 0.21% | 2226 |
| chrY | 150 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 76550 | 14 | 450 | 150.55 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF870ASQ.bed.gz | 742.55 KB | 9b7a483b4a3e8710305e6a47f7331ed9 |
| ENCFF870ASQ.tabix.bed.gz | 636.89 KB | dbb44069bf29b1231a72ce1b9b3aa44b |
| ENCFF870ASQ.tabix.bed.gz.tbi | 386.24 KB | c0354ae94ef4158d8cef93d8f05605fa |
| genomic_resource.yaml | 2.6 KB | 595e5643d515f24b653f07f5f6170077 |
| statistics/ |