Resource
| Id | ATAC-seq/ENCSR392YGP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR392YGP [biosample_summary="Homo sapiens effector memory CD8-positive, alpha-beta T cell male adult (33 years)"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (33 years) output_type: replicated peaks audit_internal_action: Released analysis {ENCAN513GMX|/analyses/ENCAN513GMX/} 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 {ENCFF260GQZ|/files/ENCFF260GQZ/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.845097. 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 {ENCFF260GQZ|/files/ENCFF260GQZ/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.87. 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 {ENCFF409UEH|/files/ENCFF409UEH/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.858971. 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 {ENCFF409UEH|/files/ENCFF409UEH/} 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_ENCSR392YGP | float |
ATAC-seq_ENCSR392YGP |
ATAC-seq ENCSR392YGP [biosample_summary="Homo sapiens effector memory CD8-positive, alpha-beta T cell male adult (33 years)"]
|
 |
[1.23, 50.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 40887311 | 1.27% | 74834 |
| chr1 | 4093077 | 1.64% | 7395 |
| chr2 | 3090782 | 1.28% | 5834 |
| chr3 | 2363473 | 1.19% | 4411 |
| chr4 | 1487313 | 0.78% | 2764 |
| chr5 | 1924336 | 1.06% | 3620 |
| chr6 | 2506508 | 1.47% | 4635 |
| chr7 | 2025140 | 1.27% | 3765 |
| chr8 | 1581715 | 1.09% | 2973 |
| chr9 | 1613929 | 1.17% | 2966 |
| chr10 | 1931928 | 1.44% | 3579 |
| chr11 | 2051136 | 1.52% | 3691 |
| chr12 | 2038370 | 1.53% | 3692 |
| chr13 | 924840 | 0.81% | 1731 |
| chr14 | 1421865 | 1.33% | 2617 |
| chr15 | 1332715 | 1.31% | 2513 |
| chr16 | 1598157 | 1.77% | 2812 |
| chr17 | 2251726 | 2.70% | 3941 |
| chr18 | 725456 | 0.90% | 1394 |
| chr19 | 2078573 | 3.55% | 3526 |
| chr20 | 1106710 | 1.72% | 2031 |
| chr21 | 525244 | 1.12% | 947 |
| chr22 | 953173 | 1.88% | 1681 |
| chrX | 1195814 | 0.77% | 2191 |
| chrY | 65331 | 0.11% | 125 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 74834 | 150 | 2716 | 546.37 | 438 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF541PYT.bed.gz | 2.91 MB | c8e5f679a4c8784a36aa6d8cd109bc6c |
| ENCFF541PYT.tabix.bed.gz | 846.48 KB | c21aeaa7d8e41c79418f7f025baa76f8 |
| ENCFF541PYT.tabix.bed.gz.tbi | 316.88 KB | 04070a52b6c32c0380bfe6b74fc0b887 |
| genomic_resource.yaml | 3.81 KB | 56db7e390f7be951e01fe7d038941ed5 |
| statistics/ |