Resource
| Id | ATAC-seq/ENCSR452COS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR452COS [biosample_summary="Homo sapiens naive thymus-derived CD4-positive, alpha-beta T 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 {ENCAN518WTZ|/analyses/ENCAN518WTZ/} 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 {ENCFF738VXT|/files/ENCFF738VXT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.869837. 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 {ENCFF738VXT|/files/ENCFF738VXT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. 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 {ENCFF263BUK|/files/ENCFF263BUK/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.866411. 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 {ENCFF263BUK|/files/ENCFF263BUK/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR452COS | float |
ATAC-seq_ENCSR452COS |
ATAC-seq ENCSR452COS [biosample_summary="Homo sapiens naive thymus-derived CD4-positive, alpha-beta T cell male adult (50 years)"]
|
 |
[1.2, 45.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 49208269 | 1.53% | 99148 |
| chr1 | 4802600 | 1.93% | 9594 |
| chr2 | 3993959 | 1.65% | 8297 |
| chr3 | 2971863 | 1.50% | 6148 |
| chr4 | 2000518 | 1.05% | 4151 |
| chr5 | 2471214 | 1.36% | 5134 |
| chr6 | 2979333 | 1.74% | 6046 |
| chr7 | 2552185 | 1.60% | 5184 |
| chr8 | 2030332 | 1.40% | 4193 |
| chr9 | 1952325 | 1.41% | 3971 |
| chr10 | 2377553 | 1.78% | 4849 |
| chr11 | 2434861 | 1.80% | 4865 |
| chr12 | 2421629 | 1.82% | 4883 |
| chr13 | 1157658 | 1.01% | 2390 |
| chr14 | 1647276 | 1.54% | 3269 |
| chr15 | 1598498 | 1.57% | 3265 |
| chr16 | 1810930 | 2.00% | 3532 |
| chr17 | 2482974 | 2.98% | 4750 |
| chr18 | 921343 | 1.15% | 1963 |
| chr19 | 2215216 | 3.78% | 4056 |
| chr20 | 1360771 | 2.11% | 2773 |
| chr21 | 672543 | 1.44% | 1281 |
| chr22 | 1074185 | 2.11% | 2068 |
| chrX | 1226033 | 0.79% | 2384 |
| chrY | 52470 | 0.09% | 102 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 99148 | 150 | 3064 | 496.31 | 399 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF685MCV.bed.gz | 3.58 MB | 6b5b0afb9ce986cc04ae84b4ec2371da |
| ENCFF685MCV.tabix.bed.gz | 1.07 MB | 985850748b0a8648b270d86d19f5fdf6 |
| ENCFF685MCV.tabix.bed.gz.tbi | 401.49 KB | 50342a3a0401bbf40222aa11801311f2 |
| genomic_resource.yaml | 3.83 KB | 4f07d4f5a6875407200be3b51e77703b |
| statistics/ |