Resource
| Id | ATAC-seq/ENCSR422SUG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR422SUG [biosample_summary="Homo sapiens MCF-7"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN088EGP|/analyses/ENCAN088EGP/} has in progress subobject document {9f6b7347-450e-41a0-8e20-62425f71ce55|/documents/9f6b7347-450e-41a0-8e20-62425f71ce55/} audit_internal_action: Released analysis {ENCAN088EGP|/analyses/ENCAN088EGP/} 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 {ENCFF607OSL|/files/ENCFF607OSL/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.821827. 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 {ENCFF607OSL|/files/ENCFF607OSL/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.83. 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 {ENCFF772EFK|/files/ENCFF772EFK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.836058. 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 {ENCFF772EFK|/files/ENCFF772EFK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.84. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR422SUG | float |
ATAC-seq_ENCSR422SUG |
ATAC-seq ENCSR422SUG [biosample_summary="Homo sapiens MCF-7"]
|
 |
[1.34, 42.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 80883226 | 2.51% | 149216 |
| chr1 | 7388845 | 2.97% | 13356 |
| chr2 | 6519750 | 2.69% | 12152 |
| chr3 | 5185204 | 2.61% | 9768 |
| chr4 | 2972114 | 1.56% | 5778 |
| chr5 | 4497435 | 2.48% | 8494 |
| chr6 | 4576036 | 2.68% | 8456 |
| chr7 | 4333743 | 2.72% | 8092 |
| chr8 | 3979500 | 2.74% | 7464 |
| chr9 | 3352880 | 2.42% | 6194 |
| chr10 | 3917369 | 2.93% | 7296 |
| chr11 | 3590968 | 2.66% | 6502 |
| chr12 | 3837138 | 2.88% | 6985 |
| chr13 | 1593627 | 1.39% | 3068 |
| chr14 | 3037453 | 2.84% | 5611 |
| chr15 | 3058769 | 3.00% | 5631 |
| chr16 | 3084265 | 3.41% | 5450 |
| chr17 | 4084456 | 4.91% | 7152 |
| chr18 | 1204928 | 1.50% | 2408 |
| chr19 | 2778104 | 4.74% | 4710 |
| chr20 | 3073217 | 4.77% | 5764 |
| chr21 | 1081460 | 2.32% | 1980 |
| chr22 | 1410656 | 2.78% | 2558 |
| chrX | 2322601 | 1.49% | 4340 |
| chrY | 2708 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 149216 | 150 | 2984 | 542.05 | 445 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF821OEF.bed.gz | 5.67 MB | c0aa2f211c56fb5716e580ea3644a9a7 |
| ENCFF821OEF.tabix.bed.gz | 1.61 MB | 818fa48d0809259a8ec27ac8181f0fec |
| ENCFF821OEF.tabix.bed.gz.tbi | 548.12 KB | 66529ceaf349ff75bd8a922535c0e8a4 |
| genomic_resource.yaml | 3.9 KB | b034973b171b64ea249a7c73cf93e70b |
| statistics/ |