Resource
| Id | ATAC-seq/ENCSR541KFY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR541KFY [biosample_summary="Homo sapiens WTC11"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN873DEH|/analyses/ENCAN873DEH/} 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 {ENCFF240QKT|/files/ENCFF240QKT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.78632. 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 {ENCFF240QKT|/files/ENCFF240QKT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.79. 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 {ENCFF127KFG|/files/ENCFF127KFG/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.773355. 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 {ENCFF127KFG|/files/ENCFF127KFG/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.77. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR541KFY | float |
ATAC-seq_ENCSR541KFY |
ATAC-seq ENCSR541KFY [biosample_summary="Homo sapiens WTC11"]
|
 |
[1.63, 40.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 105492190 | 3.28% | 171778 |
| chr1 | 9806687 | 3.94% | 15618 |
| chr2 | 8691388 | 3.59% | 14501 |
| chr3 | 6939254 | 3.50% | 11643 |
| chr4 | 5786775 | 3.04% | 10038 |
| chr5 | 6203075 | 3.42% | 10293 |
| chr6 | 6348022 | 3.72% | 10460 |
| chr7 | 5759211 | 3.61% | 9412 |
| chr8 | 4737730 | 3.26% | 7828 |
| chr9 | 4493591 | 3.25% | 7233 |
| chr10 | 5037768 | 3.77% | 8281 |
| chr11 | 5486386 | 4.06% | 8736 |
| chr12 | 4869437 | 3.65% | 7953 |
| chr13 | 3073819 | 2.69% | 5349 |
| chr14 | 3239476 | 3.03% | 5239 |
| chr15 | 3347249 | 3.28% | 5411 |
| chr16 | 3247384 | 3.59% | 5058 |
| chr17 | 4042721 | 4.86% | 6010 |
| chr18 | 2483305 | 3.09% | 4280 |
| chr19 | 3300540 | 5.63% | 4779 |
| chr20 | 2633726 | 4.09% | 4206 |
| chr21 | 1136336 | 2.43% | 1881 |
| chr22 | 1801217 | 3.54% | 2766 |
| chrX | 2890007 | 1.85% | 4578 |
| chrY | 137086 | 0.24% | 225 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 171778 | 150 | 3477 | 614.12 | 521 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF321VDH.bed.gz | 6.27 MB | f177e4e3c746b32a8d764f3f0fbef540 |
| ENCFF321VDH.tabix.bed.gz | 1.86 MB | 1a097e85a25a0197457f44f72e1e7f18 |
| ENCFF321VDH.tabix.bed.gz.tbi | 629.75 KB | 2a8c3c2b682f0229d19accd1929082c9 |
| genomic_resource.yaml | 3.68 KB | 6a0399bc5edbf378701edaad9d26343a |
| statistics/ |