Resource
| Id | ATAC-seq/ENCSR858GTE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR858GTE [biosample_summary="Homo sapiens HG03442"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN525YPO|/analyses/ENCAN525YPO/} 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 {ENCFF130DND|/files/ENCFF130DND/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.755822. 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 {ENCFF130DND|/files/ENCFF130DND/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.87. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR858GTE | float |
ATAC-seq_ENCSR858GTE |
ATAC-seq ENCSR858GTE [biosample_summary="Homo sapiens HG03442"]
|
 |
[1.45, 44.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 59362798 | 1.85% | 119926 |
| chr1 | 5286639 | 2.12% | 10527 |
| chr2 | 5365589 | 2.22% | 11123 |
| chr3 | 4294231 | 2.17% | 8941 |
| chr4 | 3633684 | 1.91% | 7723 |
| chr5 | 3734797 | 2.06% | 7780 |
| chr6 | 4028008 | 2.36% | 8257 |
| chr7 | 3434212 | 2.16% | 7085 |
| chr8 | 3035657 | 2.09% | 6353 |
| chr9 | 2351560 | 1.70% | 4749 |
| chr10 | 2855346 | 2.13% | 5760 |
| chr11 | 2773187 | 2.05% | 5508 |
| chr12 | 2875342 | 2.16% | 5803 |
| chr13 | 1650671 | 1.44% | 3422 |
| chr14 | 1853957 | 1.73% | 3704 |
| chr15 | 1544208 | 1.51% | 3029 |
| chr16 | 1571911 | 1.74% | 2897 |
| chr17 | 1871794 | 2.25% | 3380 |
| chr18 | 1354318 | 1.69% | 2850 |
| chr19 | 1491777 | 2.54% | 2436 |
| chr20 | 1194514 | 1.85% | 2385 |
| chr21 | 526732 | 1.13% | 992 |
| chr22 | 694201 | 1.37% | 1227 |
| chrX | 1794859 | 1.15% | 3664 |
| chrY | 145604 | 0.25% | 331 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 119926 | 150 | 2707 | 495 | 407 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF474JMH.bed.gz | 4.12 MB | c61d390cc11c15ee9c65767b39b37699 |
| ENCFF474JMH.tabix.bed.gz | 1.28 MB | d2f33990c773b31dee9895c3953fc3a9 |
| ENCFF474JMH.tabix.bed.gz.tbi | 503.52 KB | 8d7f9fbf827f0b8af21846b9569f56ed |
| genomic_resource.yaml | 2.49 KB | 560ee9af65fbc557679d5c395f1bb4de |
| statistics/ |