Resource
| Id | ATAC-seq/ENCSR594TMY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR594TMY [biosample_summary="Homo sapiens HG03521"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN406QRJ|/analyses/ENCAN406QRJ/} 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 {ENCFF129JFT|/files/ENCFF129JFT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.704659. 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 {ENCFF129JFT|/files/ENCFF129JFT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.73. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR594TMY | float |
ATAC-seq_ENCSR594TMY |
ATAC-seq ENCSR594TMY [biosample_summary="Homo sapiens HG03521"]
|
 |
[1.5, 46.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 45792321 | 1.42% | 91297 |
| chr1 | 4243588 | 1.70% | 8293 |
| chr2 | 3980126 | 1.64% | 8271 |
| chr3 | 3173299 | 1.60% | 6587 |
| chr4 | 2595232 | 1.36% | 5525 |
| chr5 | 2774914 | 1.53% | 5749 |
| chr6 | 3091318 | 1.81% | 6232 |
| chr7 | 2597581 | 1.63% | 5268 |
| chr8 | 2267300 | 1.56% | 4680 |
| chr9 | 1828148 | 1.32% | 3654 |
| chr10 | 2185286 | 1.63% | 4394 |
| chr11 | 2238125 | 1.66% | 4469 |
| chr12 | 2281972 | 1.71% | 4530 |
| chr13 | 1238863 | 1.08% | 2593 |
| chr14 | 1364352 | 1.27% | 2621 |
| chr15 | 1279733 | 1.25% | 2501 |
| chr16 | 1315166 | 1.46% | 2378 |
| chr17 | 1600859 | 1.92% | 2839 |
| chr18 | 1026660 | 1.28% | 2178 |
| chr19 | 1332944 | 2.27% | 2096 |
| chr20 | 984019 | 1.53% | 1915 |
| chr21 | 417105 | 0.89% | 777 |
| chr22 | 581663 | 1.14% | 1008 |
| chrX | 1298508 | 0.83% | 2528 |
| chrY | 95560 | 0.17% | 211 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 91297 | 150 | 2707 | 501.58 | 405 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF735PGH.bed.gz | 3.2 MB | 1e40dca794c72cbf99ed8113761b8d75 |
| ENCFF735PGH.tabix.bed.gz | 1002.36 KB | 5eea168cd9d7c817425b5781d7fe6012 |
| ENCFF735PGH.tabix.bed.gz.tbi | 433.11 KB | 2e24a6c70b987517367d0f438b709cb5 |
| genomic_resource.yaml | 2.49 KB | 8ec4efb6801fb65076a70ce05ad3bbdd |
| statistics/ |