Resource
| Id | ATAC-seq/ENCSR611BQR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR611BQR [biosample_summary="Homo sapiens T-helper 17 cell male adult (50 years)"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (50 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN119MPB|/analyses/ENCAN119MPB/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: 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 {ENCFF402BPT|/files/ENCFF402BPT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.733011. 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 {ENCFF402BPT|/files/ENCFF402BPT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.75. audit_warning: 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 {ENCFF554VYS|/files/ENCFF554VYS/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.776984. 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 {ENCFF554VYS|/files/ENCFF554VYS/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.80. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR611BQR | float |
ATAC-seq_ENCSR611BQR |
ATAC-seq ENCSR611BQR [biosample_summary="Homo sapiens T-helper 17 cell male adult (50 years)"]
|
 |
[1.24, 49.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 42070745 | 1.31% | 72457 |
| chr1 | 4194726 | 1.68% | 7171 |
| chr2 | 3210491 | 1.33% | 5657 |
| chr3 | 2394882 | 1.21% | 4152 |
| chr4 | 1589545 | 0.84% | 2799 |
| chr5 | 2021822 | 1.11% | 3579 |
| chr6 | 2557387 | 1.50% | 4368 |
| chr7 | 2082897 | 1.31% | 3662 |
| chr8 | 1643680 | 1.13% | 2878 |
| chr9 | 1631925 | 1.18% | 2848 |
| chr10 | 1972733 | 1.47% | 3436 |
| chr11 | 2089486 | 1.55% | 3545 |
| chr12 | 2109811 | 1.58% | 3574 |
| chr13 | 959892 | 0.84% | 1698 |
| chr14 | 1495642 | 1.40% | 2563 |
| chr15 | 1380959 | 1.35% | 2441 |
| chr16 | 1630980 | 1.81% | 2737 |
| chr17 | 2300817 | 2.76% | 3763 |
| chr18 | 727035 | 0.90% | 1352 |
| chr19 | 2118407 | 3.61% | 3436 |
| chr20 | 1133741 | 1.76% | 2011 |
| chr21 | 556803 | 1.19% | 938 |
| chr22 | 980719 | 1.93% | 1654 |
| chrX | 1219095 | 0.78% | 2068 |
| chrY | 67270 | 0.12% | 127 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 72457 | 150 | 3386 | 580.63 | 477 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF721ZMU.bed.gz | 3.06 MB | 43b8b31fd5041bee100d52e820d3cfaa |
| ENCFF721ZMU.tabix.bed.gz | 826.6 KB | 67226a801e6df984aabb5ac8267fd261 |
| ENCFF721ZMU.tabix.bed.gz.tbi | 317.3 KB | 051129d6a0bd16e6c710c836dd9a7a94 |
| genomic_resource.yaml | 3.72 KB | fa8817c2132f8338ae684ca79d338313 |
| statistics/ |