Resource
| Id | ATAC-seq/ENCSR499ASS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR499ASS [biosample_summary="Homo sapiens PC-3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN146VQB|/analyses/ENCAN146VQB/} has in progress subobject document {63b9939d-67e9-409a-8a77-7f711c77c83d|/documents/63b9939d-67e9-409a-8a77-7f711c77c83d/} audit_internal_action: Released analysis {ENCAN146VQB|/analyses/ENCAN146VQB/} 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 {ENCFF024FNF|/files/ENCFF024FNF/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.897536. 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 {ENCFF516GDK|/files/ENCFF516GDK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.890324. 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 {ENCFF516GDK|/files/ENCFF516GDK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.89. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR499ASS | float |
ATAC-seq_ENCSR499ASS |
ATAC-seq ENCSR499ASS [biosample_summary="Homo sapiens PC-3"]
|
 |
[1.42, 40.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 98940459 | 3.08% | 169280 |
| chr1 | 9795579 | 3.93% | 16427 |
| chr2 | 8224403 | 3.40% | 14264 |
| chr3 | 7308024 | 3.69% | 12646 |
| chr4 | 4940288 | 2.60% | 8970 |
| chr5 | 5779765 | 3.18% | 10138 |
| chr6 | 5388988 | 3.16% | 9367 |
| chr7 | 5912341 | 3.71% | 10106 |
| chr8 | 5329890 | 3.67% | 9095 |
| chr9 | 3373105 | 2.44% | 5811 |
| chr10 | 4942604 | 3.69% | 8416 |
| chr11 | 4767433 | 3.53% | 7915 |
| chr12 | 4875724 | 3.66% | 8412 |
| chr13 | 2639425 | 2.31% | 4795 |
| chr14 | 3614716 | 3.38% | 6118 |
| chr15 | 2743439 | 2.69% | 4679 |
| chr16 | 2321904 | 2.57% | 3755 |
| chr17 | 3857689 | 4.63% | 6168 |
| chr18 | 2331427 | 2.90% | 4197 |
| chr19 | 2687204 | 4.58% | 4212 |
| chr20 | 2537797 | 3.94% | 4350 |
| chr21 | 1323618 | 2.83% | 2220 |
| chr22 | 1343959 | 2.64% | 2188 |
| chrX | 2896689 | 1.86% | 5018 |
| chrY | 4448 | 0.01% | 13 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 169280 | 150 | 3274 | 584.48 | 484 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF811MOZ.bed.gz | 6.37 MB | fa195d5fda6af1d58f51099f40661c3a |
| ENCFF811MOZ.tabix.bed.gz | 1.83 MB | d989c9933ec4f028599b43823af03ff3 |
| ENCFF811MOZ.tabix.bed.gz.tbi | 571.04 KB | 12f4053950e92c2bbd4efa08bc97bcf9 |
| genomic_resource.yaml | 3.23 KB | c444132a9ce2ca2d2adc3d6c44f3856e |
| statistics/ |