Resource
| Id | ATAC-seq/ENCSR530XBF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR530XBF [biosample_summary="Homo sapiens pancreas tissue female child (16 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female child (16 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN964CSW|/analyses/ENCAN964CSW/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN964CSW|/analyses/ENCAN964CSW/} has in progress subobject document {993a71f3-0822-461c-8c0e-43af51c720e0|/documents/993a71f3-0822-461c-8c0e-43af51c720e0/} 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 {ENCFF773JMT|/files/ENCFF773JMT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.834453. 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 {ENCFF773JMT|/files/ENCFF773JMT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.87. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR530XBF | float |
ATAC-seq_ENCSR530XBF |
ATAC-seq ENCSR530XBF [biosample_summary="Homo sapiens pancreas tissue female child (16 years)"]
|
 |
[1.28, 48.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 99866066 | 3.10% | 172040 |
| chr1 | 9705205 | 3.90% | 16400 |
| chr2 | 8051014 | 3.32% | 14206 |
| chr3 | 6181292 | 3.12% | 11104 |
| chr4 | 4580089 | 2.41% | 8325 |
| chr5 | 5237705 | 2.89% | 9333 |
| chr6 | 5874887 | 3.44% | 10251 |
| chr7 | 5232840 | 3.28% | 9098 |
| chr8 | 4402552 | 3.03% | 7828 |
| chr9 | 4277092 | 3.09% | 7295 |
| chr10 | 5096608 | 3.81% | 8915 |
| chr11 | 4985983 | 3.69% | 8397 |
| chr12 | 4759067 | 3.57% | 8224 |
| chr13 | 2518722 | 2.20% | 4491 |
| chr14 | 3325488 | 3.11% | 5705 |
| chr15 | 3479471 | 3.41% | 5891 |
| chr16 | 3456229 | 3.83% | 5642 |
| chr17 | 4557281 | 5.47% | 7275 |
| chr18 | 2127151 | 2.65% | 3827 |
| chr19 | 3419632 | 5.83% | 5177 |
| chr20 | 2643673 | 4.10% | 4595 |
| chr21 | 1368587 | 2.93% | 2277 |
| chr22 | 2065650 | 4.06% | 3320 |
| chrX | 2516542 | 1.61% | 4451 |
| chrY | 3306 | 0.01% | 13 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 172040 | 150 | 4047 | 580.48 | 446 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF029YUG.bed.gz | 6.72 MB | 4891fbf65921102204b7f7fa3d916eeb |
| ENCFF029YUG.tabix.bed.gz | 1.87 MB | 610ca7e03df21f8566660eb2e8dc6de9 |
| ENCFF029YUG.tabix.bed.gz.tbi | 538.57 KB | ee2d13ea8b32da8c4d4922d4a1527975 |
| genomic_resource.yaml | 2.78 KB | 8a1a457b4c4465cf599943280b8896f0 |
| statistics/ |