| Id: | ATAC-seq/ENCSR335XRZ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR335XRZ [biosample_summary="Homo sapiens stimulated activated effector memory CD8-positive, alpha-beta T cell male adult (36 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (36 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN673BMZ|/analyses/ENCAN673BMZ/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: Alignment file {ENCFF551AJL|/files/ENCFF551AJL/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has 19338751 usable fragments. According to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline should have > 25 million usable fragments. 20-25 million is acceptable and < 15 million is not compliant. 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 {ENCFF551AJL|/files/ENCFF551AJL/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.600727. audit_not_compliant: 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 {ENCFF551AJL|/files/ENCFF551AJL/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.57. audit_warning: PBC2 (PCR Bottlenecking Coefficient 2, M1/M2) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking, 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking. PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed file {ENCFF551AJL|/files/ENCFF551AJL/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC2 value of 2.14. 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 {ENCFF741HOD|/files/ENCFF741HOD/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.749362. 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 {ENCFF741HOD|/files/ENCFF741HOD/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.75. |
| Labels: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR335XRZ | float |
ATAC-seq_ENCSR335XRZ |
ATAC-seq ENCSR335XRZ [biosample_summary="Homo sapiens stimulated activated effector memory CD8-positive, alpha-beta T cell male adult (36 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours"]
|
 |
[1.43, 32.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF211AMR.bed.gz | 3.46 MB | ec36c8af0a7f1adc9a72c5655875d413 |
| ENCFF211AMR.bed.gz.dvc | 101.0 B | ac6dcd2ac0c0302e8bc5a18ca8db7019 |
| ENCFF211AMR.tabix.bed.gz | 995.82 KB | bf28ff348285c7a332836572e81ecf49 |
| ENCFF211AMR.tabix.bed.gz.dvc | 107.0 B | aea5907e084c6967803b1cf7c5b16f0c |
| ENCFF211AMR.tabix.bed.gz.tbi | 405.98 KB | 738a0ba4e0bb2c928dd08246a5b38720 |
| ENCFF211AMR.tabix.bed.gz.tbi.dvc | 110.0 B | 6a3caa6b4c83e6157e788c0661cb49a4 |
| genomic_resource.yaml | 5.78 KB | 49b8f15b337c1fcfa3abd13ecd311e38 |
| genomic_resource_original.yaml | 5.48 KB | 79bd45d57e80ae03854d229a0358671e |
| statistics/ |