Resource
| Id | ATAC-seq/ENCSR718HWW |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR718HWW [biosample_summary="Homo sapiens activated CD8-positive, alpha-beta T cell male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN589AAL|/analyses/ENCAN589AAL/} 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 {ENCFF587ODZ|/files/ENCFF587ODZ/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.747795. 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 {ENCFF587ODZ|/files/ENCFF587ODZ/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.76. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR718HWW | float |
ATAC-seq_ENCSR718HWW |
ATAC-seq ENCSR718HWW [biosample_summary="Homo sapiens activated CD8-positive, alpha-beta T cell male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours"]
|
 |
[1.37, 44] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 56099270 | 1.74% | 101086 |
| chr1 | 5557770 | 2.23% | 9896 |
| chr2 | 4506044 | 1.86% | 8341 |
| chr3 | 3530652 | 1.78% | 6553 |
| chr4 | 2199151 | 1.16% | 4043 |
| chr5 | 2711881 | 1.49% | 5006 |
| chr6 | 3457425 | 2.02% | 6278 |
| chr7 | 2814343 | 1.77% | 5089 |
| chr8 | 2363515 | 1.63% | 4399 |
| chr9 | 2221042 | 1.60% | 4018 |
| chr10 | 2669574 | 2.00% | 4826 |
| chr11 | 2713996 | 2.01% | 4821 |
| chr12 | 2801715 | 2.10% | 4983 |
| chr13 | 1326273 | 1.16% | 2480 |
| chr14 | 1920325 | 1.79% | 3500 |
| chr15 | 1829636 | 1.79% | 3316 |
| chr16 | 2013060 | 2.23% | 3461 |
| chr17 | 2811919 | 3.38% | 4851 |
| chr18 | 1030375 | 1.28% | 1985 |
| chr19 | 2423119 | 4.13% | 3995 |
| chr20 | 1488225 | 2.31% | 2701 |
| chr21 | 745567 | 1.60% | 1301 |
| chr22 | 1211299 | 2.38% | 2088 |
| chrX | 1661971 | 1.07% | 2980 |
| chrY | 90393 | 0.16% | 175 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 101086 | 150 | 2807 | 554.97 | 462 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF739WIV.bed.gz | 3.95 MB | 679465c0cc09302f9e8b38ed5eea5b7c |
| ENCFF739WIV.tabix.bed.gz | 1.1 MB | ea9c99f6e398c634976d6967d786192b |
| ENCFF739WIV.tabix.bed.gz.tbi | 399.03 KB | 2f8b011603272df13f72788d872db91b |
| genomic_resource.yaml | 2.95 KB | 36ad8b06c0d33a4accc7dc5933552fa6 |
| statistics/ |