Resource
| Id | DNase-seq/ENCSR643GHI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR643GHI [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell female adult (33 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (33 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN401SUC|/analyses/ENCAN401SUC/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF787DAE|/files/ENCFF787DAE/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 32491105 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 {ENCFF263RQE|/files/ENCFF263RQE/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 32252901 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_ENCSR643GHI | float |
DNase-seq_ENCSR643GHI |
DNase-seq ENCSR643GHI [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell female adult (33 years)"]
|
 |
[4, 3.96e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 7556014 | 0.23% | 50194 |
| chr1 | 736408 | 0.30% | 4894 |
| chr2 | 572122 | 0.24% | 3795 |
| chr3 | 467669 | 0.24% | 3108 |
| chr4 | 328978 | 0.17% | 2178 |
| chr5 | 392690 | 0.22% | 2613 |
| chr6 | 482728 | 0.28% | 3220 |
| chr7 | 359516 | 0.23% | 2389 |
| chr8 | 305960 | 0.21% | 2032 |
| chr9 | 293164 | 0.21% | 1952 |
| chr10 | 352633 | 0.26% | 2336 |
| chr11 | 368106 | 0.27% | 2443 |
| chr12 | 383348 | 0.29% | 2547 |
| chr13 | 188100 | 0.16% | 1244 |
| chr14 | 251250 | 0.23% | 1663 |
| chr15 | 236755 | 0.23% | 1570 |
| chr16 | 266502 | 0.30% | 1776 |
| chr17 | 382700 | 0.46% | 2546 |
| chr18 | 144306 | 0.18% | 956 |
| chr19 | 364915 | 0.62% | 2425 |
| chr20 | 188227 | 0.29% | 1251 |
| chr21 | 87000 | 0.19% | 579 |
| chr22 | 148058 | 0.29% | 986 |
| chrX | 254279 | 0.16% | 1687 |
| chrY | 600 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 50194 | 23 | 450 | 150.54 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF412EJZ.bed.gz | 493.14 KB | a9a75258f1162ae474650f315296993d |
| ENCFF412EJZ.tabix.bed.gz | 421.05 KB | 9e510b106ebaf978113ced017222c04a |
| ENCFF412EJZ.tabix.bed.gz.tbi | 256.81 KB | b45f6adc0e8777794420deb74b183720 |
| genomic_resource.yaml | 2.64 KB | 4733e683da663aab29fd23f94d483664 |
| statistics/ |