Resource
| Id | ATAC-seq/ENCSR283LPH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR283LPH [biosample_summary="Homo sapiens naive thymus-derived CD8-positive, alpha-beta T cell nuclear fraction male adult (30 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (30 years) nuclear fraction output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN130CSF|/analyses/ENCAN130CSF/} 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 {ENCFF411NRH|/files/ENCFF411NRH/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.830139. 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 {ENCFF411NRH|/files/ENCFF411NRH/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.86. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR283LPH | float |
ATAC-seq_ENCSR283LPH |
ATAC-seq ENCSR283LPH [biosample_summary="Homo sapiens naive thymus-derived CD8-positive, alpha-beta T cell nuclear fraction male adult (30 years)"]
|
 |
[1.25, 45.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 41089831 | 1.28% | 61767 |
| chr1 | 4171167 | 1.68% | 6200 |
| chr2 | 3066806 | 1.27% | 4758 |
| chr3 | 2216070 | 1.12% | 3476 |
| chr4 | 1420958 | 0.75% | 2163 |
| chr5 | 1846342 | 1.02% | 2865 |
| chr6 | 2420053 | 1.42% | 3683 |
| chr7 | 2012295 | 1.26% | 3084 |
| chr8 | 1479494 | 1.02% | 2270 |
| chr9 | 1587391 | 1.15% | 2377 |
| chr10 | 1805016 | 1.35% | 2765 |
| chr11 | 2127134 | 1.57% | 3127 |
| chr12 | 2107682 | 1.58% | 3151 |
| chr13 | 896826 | 0.78% | 1403 |
| chr14 | 1509185 | 1.41% | 2304 |
| chr15 | 1361190 | 1.33% | 2142 |
| chr16 | 1596828 | 1.77% | 2303 |
| chr17 | 2452440 | 2.95% | 3527 |
| chr18 | 653722 | 0.81% | 1017 |
| chr19 | 2339012 | 3.99% | 3193 |
| chr20 | 1132559 | 1.76% | 1693 |
| chr21 | 556304 | 1.19% | 817 |
| chr22 | 1035221 | 2.04% | 1500 |
| chrX | 1239238 | 0.79% | 1856 |
| chrY | 56898 | 0.10% | 93 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 61767 | 150 | 3742 | 665.24 | 559 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF349KLY.bed.gz | 2.84 MB | 78476b64eb77c2e48c8c7de071a2abe0 |
| ENCFF349KLY.tabix.bed.gz | 712.41 KB | fb3a9e05098533843cc5e47345d38ba7 |
| ENCFF349KLY.tabix.bed.gz.tbi | 277.04 KB | e42962969f672de2a23e4e9338557446 |
| genomic_resource.yaml | 2.76 KB | f39034363e0059092a875c5ee62d32e3 |
| statistics/ |