Resource
| Id | ATAC-seq/ENCSR940YDN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR940YDN [biosample_summary="Homo sapiens HG03159"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN166LQN|/analyses/ENCAN166LQN/} 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 {ENCFF998WJT|/files/ENCFF998WJT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.851829. 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 {ENCFF998WJT|/files/ENCFF998WJT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.85. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR940YDN | float |
ATAC-seq_ENCSR940YDN |
ATAC-seq ENCSR940YDN [biosample_summary="Homo sapiens HG03159"]
|
 |
[1.41, 45.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 56469881 | 1.76% | 103701 |
| chr1 | 4991193 | 2.00% | 9063 |
| chr2 | 5033485 | 2.08% | 9561 |
| chr3 | 4079979 | 2.06% | 7772 |
| chr4 | 3546844 | 1.86% | 6801 |
| chr5 | 3536126 | 1.95% | 6723 |
| chr6 | 3894683 | 2.28% | 7265 |
| chr7 | 3184787 | 2.00% | 5955 |
| chr8 | 2871855 | 1.98% | 5441 |
| chr9 | 2195034 | 1.59% | 4002 |
| chr10 | 2686485 | 2.01% | 4928 |
| chr11 | 2702197 | 2.00% | 4863 |
| chr12 | 2790948 | 2.09% | 5063 |
| chr13 | 1543922 | 1.35% | 2918 |
| chr14 | 1620908 | 1.51% | 2894 |
| chr15 | 1525642 | 1.50% | 2739 |
| chr16 | 1451753 | 1.61% | 2417 |
| chr17 | 1738246 | 2.09% | 2872 |
| chr18 | 1326846 | 1.65% | 2552 |
| chr19 | 1432535 | 2.44% | 2159 |
| chr20 | 1124147 | 1.74% | 2048 |
| chr21 | 518958 | 1.11% | 892 |
| chr22 | 618914 | 1.22% | 984 |
| chrX | 2053924 | 1.32% | 3788 |
| chrY | 470 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 103701 | 150 | 2792 | 544.55 | 451 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF143WNQ.bed.gz | 4.13 MB | c368a1717a95e5ddb9242a1fb887c804 |
| ENCFF143WNQ.tabix.bed.gz | 1.15 MB | a75f1f9bf208febb339b390639a508b4 |
| ENCFF143WNQ.tabix.bed.gz.tbi | 460.83 KB | f5330000b7e819403a70b3dce6de83e2 |
| genomic_resource.yaml | 2.49 KB | 7fe5d3c0466f8bd8f27c6ac44d1fdff0 |
| statistics/ |