Resource
| Id | ATAC-seq/ENCSR614JAG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR614JAG [biosample_summary="Homo sapiens naive thymus-derived CD8-positive, alpha-beta T cell male adult (36 years)"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (36 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN823VRQ|/analyses/ENCAN823VRQ/} 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 {ENCFF281QTY|/files/ENCFF281QTY/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.762539. 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 {ENCFF281QTY|/files/ENCFF281QTY/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.78. 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 {ENCFF887IOM|/files/ENCFF887IOM/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.709768. 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 {ENCFF887IOM|/files/ENCFF887IOM/} 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_ENCSR614JAG | float |
ATAC-seq_ENCSR614JAG |
ATAC-seq ENCSR614JAG [biosample_summary="Homo sapiens naive thymus-derived CD8-positive, alpha-beta T cell male adult (36 years)"]
|
 |
[1.23, 47.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 40503982 | 1.26% | 69276 |
| chr1 | 4046019 | 1.63% | 6832 |
| chr2 | 3102930 | 1.28% | 5453 |
| chr3 | 2282408 | 1.15% | 3971 |
| chr4 | 1502853 | 0.79% | 2605 |
| chr5 | 1863648 | 1.03% | 3237 |
| chr6 | 2410281 | 1.41% | 4154 |
| chr7 | 2044157 | 1.28% | 3541 |
| chr8 | 1521799 | 1.05% | 2641 |
| chr9 | 1583203 | 1.14% | 2738 |
| chr10 | 1815214 | 1.36% | 3168 |
| chr11 | 2017045 | 1.49% | 3416 |
| chr12 | 2012166 | 1.51% | 3433 |
| chr13 | 936126 | 0.82% | 1635 |
| chr14 | 1454017 | 1.36% | 2512 |
| chr15 | 1316025 | 1.29% | 2302 |
| chr16 | 1545400 | 1.71% | 2523 |
| chr17 | 2311176 | 2.78% | 3820 |
| chr18 | 696689 | 0.87% | 1242 |
| chr19 | 2078944 | 3.55% | 3338 |
| chr20 | 1111808 | 1.73% | 1922 |
| chr21 | 573928 | 1.23% | 942 |
| chr22 | 976637 | 1.92% | 1640 |
| chrX | 1197069 | 0.77% | 2021 |
| chrY | 104440 | 0.18% | 190 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 69276 | 150 | 2803 | 584.68 | 476 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF555UEL.bed.gz | 2.93 MB | 1510e2e79f158eb1c4b41850a559d458 |
| ENCFF555UEL.tabix.bed.gz | 789.53 KB | 6fbb4c33f09dad54bb22e9e397482eee |
| ENCFF555UEL.tabix.bed.gz.tbi | 307.14 KB | 731fcdb60f247ab825aa1ac8252ef0c7 |
| genomic_resource.yaml | 3.83 KB | b5362df6509710295e34893874117663 |
| statistics/ |