Resource
| Id | ATAC-seq/ENCSR924SDV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR924SDV [biosample_summary="Homo sapiens GM18498"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN548VPB|/analyses/ENCAN548VPB/} 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 {ENCFF935PGL|/files/ENCFF935PGL/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.727533. 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 {ENCFF935PGL|/files/ENCFF935PGL/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.81. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR924SDV | float |
ATAC-seq_ENCSR924SDV |
ATAC-seq ENCSR924SDV [biosample_summary="Homo sapiens GM18498"]
|
 |
[1.33, 29.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 62377609 | 1.94% | 111255 |
| chr1 | 5595376 | 2.25% | 9866 |
| chr2 | 5410250 | 2.23% | 9897 |
| chr3 | 4400910 | 2.22% | 8132 |
| chr4 | 3818122 | 2.01% | 7120 |
| chr5 | 3855292 | 2.12% | 7064 |
| chr6 | 4245305 | 2.49% | 7635 |
| chr7 | 3467469 | 2.18% | 6292 |
| chr8 | 3159017 | 2.18% | 5827 |
| chr9 | 2469578 | 1.78% | 4441 |
| chr10 | 2950605 | 2.21% | 5281 |
| chr11 | 2934937 | 2.17% | 5184 |
| chr12 | 3093896 | 2.32% | 5443 |
| chr13 | 1821172 | 1.59% | 3340 |
| chr14 | 1896352 | 1.77% | 3307 |
| chr15 | 1725998 | 1.69% | 3046 |
| chr16 | 1666573 | 1.84% | 2757 |
| chr17 | 2078031 | 2.50% | 3345 |
| chr18 | 1492861 | 1.86% | 2765 |
| chr19 | 1616272 | 2.76% | 2367 |
| chr20 | 1308952 | 2.03% | 2307 |
| chr21 | 576865 | 1.23% | 977 |
| chr22 | 774738 | 1.52% | 1230 |
| chrX | 1863821 | 1.19% | 3319 |
| chrY | 155217 | 0.27% | 313 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 111255 | 150 | 2972 | 560.67 | 463 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF717TCQ.bed.gz | 4.41 MB | b7a2a2b82c9b5aeedd1e489e1e0f8ad2 |
| ENCFF717TCQ.tabix.bed.gz | 1.21 MB | 7b4e89efea6e9d4a6a3df460bec084a5 |
| ENCFF717TCQ.tabix.bed.gz.tbi | 470.44 KB | f2996bf48eb3761285a8faccc596cbb3 |
| genomic_resource.yaml | 2.49 KB | 7724b5db5d97e6ade4984ca5b01f7eb1 |
| statistics/ |