Resource
| Id | ATAC-seq/ENCSR241VGH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR241VGH [biosample_summary="Homo sapiens GM18502"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN388WIC|/analyses/ENCAN388WIC/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: 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 {ENCFF854BZA|/files/ENCFF854BZA/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.660281. 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 {ENCFF854BZA|/files/ENCFF854BZA/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.72. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR241VGH | float |
ATAC-seq_ENCSR241VGH |
ATAC-seq ENCSR241VGH [biosample_summary="Homo sapiens GM18502"]
|
 |
[1.37, 42.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 63563937 | 1.98% | 112480 |
| chr1 | 5490525 | 2.21% | 9523 |
| chr2 | 5667694 | 2.34% | 10320 |
| chr3 | 4614260 | 2.33% | 8454 |
| chr4 | 3934835 | 2.07% | 7317 |
| chr5 | 3958109 | 2.18% | 7192 |
| chr6 | 4354148 | 2.55% | 7748 |
| chr7 | 3649476 | 2.29% | 6577 |
| chr8 | 3290245 | 2.27% | 6034 |
| chr9 | 2444642 | 1.77% | 4307 |
| chr10 | 2978574 | 2.23% | 5290 |
| chr11 | 2960657 | 2.19% | 5193 |
| chr12 | 3166513 | 2.38% | 5530 |
| chr13 | 1867451 | 1.63% | 3421 |
| chr14 | 1940093 | 1.81% | 3378 |
| chr15 | 1677870 | 1.65% | 2913 |
| chr16 | 1632416 | 1.81% | 2661 |
| chr17 | 1975409 | 2.37% | 3142 |
| chr18 | 1515193 | 1.89% | 2761 |
| chr19 | 1551029 | 2.65% | 2258 |
| chr20 | 1286615 | 2.00% | 2266 |
| chr21 | 599645 | 1.28% | 996 |
| chr22 | 722104 | 1.42% | 1112 |
| chrX | 2286083 | 1.47% | 4086 |
| chrY | 351 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 112480 | 150 | 3045 | 565.11 | 468 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF453GXR.bed.gz | 4.58 MB | eccb628743fade6e6216bb48e4989300 |
| ENCFF453GXR.tabix.bed.gz | 1.24 MB | f4f8720a49ffef4c081c63cada449ccc |
| ENCFF453GXR.tabix.bed.gz.tbi | 469.39 KB | 970a72dfb9dfdeaa72e0ffcba297aa88 |
| genomic_resource.yaml | 2.49 KB | 933a912559913590a5310f1a3566fa24 |
| statistics/ |