Resource
| Id | ATAC-seq/ENCSR917WJS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR917WJS [biosample_summary="Homo sapiens GM18909"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN854FSU|/analyses/ENCAN854FSU/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: 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 {ENCFF572IWC|/files/ENCFF572IWC/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.670782. 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 {ENCFF572IWC|/files/ENCFF572IWC/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.80. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR917WJS | float |
ATAC-seq_ENCSR917WJS |
ATAC-seq ENCSR917WJS [biosample_summary="Homo sapiens GM18909"]
|
 |
[1.42, 34.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 60671587 | 1.89% | 109876 |
| chr1 | 5318884 | 2.14% | 9496 |
| chr2 | 5315801 | 2.19% | 9924 |
| chr3 | 4309059 | 2.17% | 8016 |
| chr4 | 3706494 | 1.95% | 7034 |
| chr5 | 3717625 | 2.05% | 6947 |
| chr6 | 4135061 | 2.42% | 7552 |
| chr7 | 3456717 | 2.17% | 6407 |
| chr8 | 3079477 | 2.12% | 5720 |
| chr9 | 2414018 | 1.74% | 4401 |
| chr10 | 2887877 | 2.16% | 5240 |
| chr11 | 2884769 | 2.14% | 5131 |
| chr12 | 2970978 | 2.23% | 5325 |
| chr13 | 1686579 | 1.47% | 3111 |
| chr14 | 1889430 | 1.77% | 3364 |
| chr15 | 1645791 | 1.61% | 2950 |
| chr16 | 1599130 | 1.77% | 2651 |
| chr17 | 1964573 | 2.36% | 3211 |
| chr18 | 1444027 | 1.80% | 2716 |
| chr19 | 1536604 | 2.62% | 2260 |
| chr20 | 1254703 | 1.95% | 2268 |
| chr21 | 562522 | 1.20% | 981 |
| chr22 | 709505 | 1.40% | 1145 |
| chrX | 2181163 | 1.40% | 4023 |
| chrY | 800 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 109876 | 150 | 2939 | 552.18 | 453 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF983UBQ.bed.gz | 4.33 MB | 4113cf8082b351038df196dee5c87776 |
| ENCFF983UBQ.tabix.bed.gz | 1.2 MB | 3fb9eb853c127fbc0a3933eb10cc4be6 |
| ENCFF983UBQ.tabix.bed.gz.tbi | 465.06 KB | eeb4877af38582fa3f1e1fa55d03e295 |
| genomic_resource.yaml | 2.49 KB | 837373e9cbb0e8dd5ffbe03a41d013c8 |
| statistics/ |