Resource
| Id | ATAC-seq/ENCSR841LHT |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR841LHT [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (20 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (20 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN209FMQ|/analyses/ENCAN209FMQ/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: NRF (Non Redundant Fraction) is equal to the result of the division of the number of reads after duplicates removal by the total number of reads. An NRF value < 0.7 is poor complexity, between 0.7 and 0.9 is moderate complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF489WFA|/files/ENCFF489WFA/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.697397. audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF489WFA|/files/ENCFF489WFA/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.72. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR841LHT | float |
ATAC-seq_ENCSR841LHT |
ATAC-seq ENCSR841LHT [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (20 years)"]
|
 |
[1.42, 47.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 36221655 | 1.13% | 61878 |
| chr1 | 3661856 | 1.47% | 6210 |
| chr2 | 2719266 | 1.12% | 4773 |
| chr3 | 2016387 | 1.02% | 3466 |
| chr4 | 1295658 | 0.68% | 2233 |
| chr5 | 1665195 | 0.92% | 2888 |
| chr6 | 2150192 | 1.26% | 3668 |
| chr7 | 1773194 | 1.11% | 3096 |
| chr8 | 1361015 | 0.94% | 2396 |
| chr9 | 1372628 | 0.99% | 2348 |
| chr10 | 1669866 | 1.25% | 2875 |
| chr11 | 1810858 | 1.34% | 3061 |
| chr12 | 1866023 | 1.40% | 3170 |
| chr13 | 820876 | 0.72% | 1427 |
| chr14 | 1269496 | 1.19% | 2168 |
| chr15 | 1199143 | 1.18% | 2119 |
| chr16 | 1434677 | 1.59% | 2378 |
| chr17 | 2117251 | 2.54% | 3478 |
| chr18 | 585986 | 0.73% | 1059 |
| chr19 | 1924368 | 3.28% | 3102 |
| chr20 | 986392 | 1.53% | 1711 |
| chr21 | 501759 | 1.07% | 854 |
| chr22 | 860312 | 1.69% | 1434 |
| chrX | 1101367 | 0.71% | 1859 |
| chrY | 57890 | 0.10% | 105 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 61878 | 150 | 3360 | 585.37 | 486 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF246KRE.bed.gz | 2.56 MB | b15ad8269e7fbd85c5cb26a2cf4fcd4d |
| ENCFF246KRE.tabix.bed.gz | 706.29 KB | 6fe200ca86337c4ff2dd9aa629f2b9e0 |
| ENCFF246KRE.tabix.bed.gz.tbi | 281.46 KB | 2e056e581563e52f8b40df014ac381ae |
| genomic_resource.yaml | 2.81 KB | 88fc131898176df67d11c76724e12e48 |
| statistics/ |