Resource
| Id | ATAC-seq/ENCSR846VLJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR846VLJ [biosample_summary="Homo sapiens sigmoid colon tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN023LDZ|/analyses/ENCAN023LDZ/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN023LDZ|/analyses/ENCAN023LDZ/} has in progress subobject document {fbc1657e-30d2-48c1-aa7e-cb4f3e521531|/documents/fbc1657e-30d2-48c1-aa7e-cb4f3e521531/} 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 {ENCFF656BHJ|/files/ENCFF656BHJ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.832682. 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 {ENCFF656BHJ|/files/ENCFF656BHJ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.85. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR846VLJ | float |
ATAC-seq_ENCSR846VLJ |
ATAC-seq ENCSR846VLJ [biosample_summary="Homo sapiens sigmoid colon tissue female adult (53 years)"]
|
 |
[1.36, 40.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 55560314 | 1.73% | 95919 |
| chr1 | 5394240 | 2.17% | 9162 |
| chr2 | 4391085 | 1.81% | 7656 |
| chr3 | 3422932 | 1.73% | 6052 |
| chr4 | 2349650 | 1.24% | 4223 |
| chr5 | 2763161 | 1.52% | 4869 |
| chr6 | 3052800 | 1.79% | 5304 |
| chr7 | 2820849 | 1.77% | 4870 |
| chr8 | 2343429 | 1.61% | 4129 |
| chr9 | 2551756 | 1.84% | 4429 |
| chr10 | 2867453 | 2.14% | 5134 |
| chr11 | 2922839 | 2.16% | 4924 |
| chr12 | 2707336 | 2.03% | 4675 |
| chr13 | 1270757 | 1.11% | 2272 |
| chr14 | 1782890 | 1.67% | 3120 |
| chr15 | 1892020 | 1.86% | 3250 |
| chr16 | 2025227 | 2.24% | 3367 |
| chr17 | 2737790 | 3.29% | 4536 |
| chr18 | 1124973 | 1.40% | 2023 |
| chr19 | 2189152 | 3.73% | 3452 |
| chr20 | 1531490 | 2.38% | 2669 |
| chr21 | 718874 | 1.54% | 1261 |
| chr22 | 1197656 | 2.36% | 2023 |
| chrX | 1500850 | 0.96% | 2515 |
| chrY | 1105 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 95919 | 150 | 3200 | 579.24 | 483 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF452WBJ.bed.gz | 3.94 MB | fd1d1d63c547809f46652c1f23c8b062 |
| ENCFF452WBJ.tabix.bed.gz | 1.06 MB | 7d7cf2ec86888d9d180491f1ce45f604 |
| ENCFF452WBJ.tabix.bed.gz.tbi | 400.33 KB | 7e14fabf5ec023bea22d6f5c672dba77 |
| genomic_resource.yaml | 2.79 KB | e1ecf910f1cd828b73d99332de994094 |
| statistics/ |