Resource
| Id | ATAC-seq/ENCSR839IAD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR839IAD [biosample_summary="Homo sapiens GM19397"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN637OGA|/analyses/ENCAN637OGA/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN637OGA|/analyses/ENCAN637OGA/} has in progress subobject document {9b0c93b3-95fa-4a80-a4ad-31b77772f33a|/documents/9b0c93b3-95fa-4a80-a4ad-31b77772f33a/} 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 {ENCFF593SBD|/files/ENCFF593SBD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.843603. 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 {ENCFF593SBD|/files/ENCFF593SBD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.84. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR839IAD | float |
ATAC-seq_ENCSR839IAD |
ATAC-seq ENCSR839IAD [biosample_summary="Homo sapiens GM19397"]
|
 |
[1.4, 40.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 49272710 | 1.53% | 85534 |
| chr1 | 4353265 | 1.75% | 7385 |
| chr2 | 4227817 | 1.75% | 7557 |
| chr3 | 3402496 | 1.72% | 6071 |
| chr4 | 2893354 | 1.52% | 5238 |
| chr5 | 3008253 | 1.66% | 5353 |
| chr6 | 3272106 | 1.92% | 5749 |
| chr7 | 2691831 | 1.69% | 4747 |
| chr8 | 2470670 | 1.70% | 4420 |
| chr9 | 1960073 | 1.42% | 3403 |
| chr10 | 2335368 | 1.75% | 4100 |
| chr11 | 2363976 | 1.75% | 4120 |
| chr12 | 2414694 | 1.81% | 4153 |
| chr13 | 1375346 | 1.20% | 2441 |
| chr14 | 1520403 | 1.42% | 2589 |
| chr15 | 1432548 | 1.40% | 2451 |
| chr16 | 1377773 | 1.53% | 2224 |
| chr17 | 1724712 | 2.07% | 2780 |
| chr18 | 1156907 | 1.44% | 2085 |
| chr19 | 1454439 | 2.48% | 2171 |
| chr20 | 1051302 | 1.63% | 1811 |
| chr21 | 516522 | 1.11% | 878 |
| chr22 | 675801 | 1.33% | 1058 |
| chrX | 1473937 | 0.94% | 2526 |
| chrY | 119117 | 0.21% | 224 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 85534 | 150 | 2871 | 576.06 | 490 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF259FJX.bed.gz | 3.47 MB | 26e5e6c5ede3c5583b8d71d78f790746 |
| ENCFF259FJX.tabix.bed.gz | 971.12 KB | 7a4751ec026fb9cb1e8f3a8d0161aefb |
| ENCFF259FJX.tabix.bed.gz.tbi | 405.99 KB | 1074b9bf9e26df2826547d92574eac14 |
| genomic_resource.yaml | 2.71 KB | 93ecf0bcaf366adf5dd96983e275f7ba |
| statistics/ |