Histone_ChIP-seq_ENCSR000AMD
Histone_ChIP-seq ENCSR000AMD [biosample_summary="Homo sapiens HepG2" and target="H3K9ac"]
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| Id: | Histone_ChIP-seq/ENCSR000AMD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000AMD [biosamplesummary="Homo sapiens HepG2" and target="H3K9ac"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN607QWC|/analyses/ENCAN607QWC/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF194LQS|/files/ENCFF194LQS/} processed by ChIP-seq ENCODE3 hg19 pipeline has 5184585 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_warning: Processed alignments file {ENCFF243VAM|/files/ENCFF243VAM/} processed by ChIP-seq ENCODE3 hg19 pipeline has 12883462 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) 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 > 0.8 is acceptable. ENCODE processed alignments file {ENCFF194LQS|/files/ENCFF194LQS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.84. 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 alignments file {ENCFF194LQS|/files/ENCFF194LQS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.06. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000AMD | float |
Histone_ChIP-seq_ENCSR000AMD |
Histone_ChIP-seq ENCSR000AMD [biosample_summary="Homo sapiens HepG2" and target="H3K9ac"]
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[1.81, 95.8] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF441EPA.bed.gz | 1.15 MB | 7ab093e8d5dfbb9ff13fe8314c9cf790 |
| ENCFF441EPA.bed.gz.dvc | 101.0 B | ff9de64e91199a6baa42c187d2d5beff |
| ENCFF441EPA.tabix.bed.gz | 507.96 KB | d114c5ad8dca88c15e1fc11dc71a5ea8 |
| ENCFF441EPA.tabix.bed.gz.dvc | 106.0 B | 4d99fa426f5baac9d074ce146151c79b |
| ENCFF441EPA.tabix.bed.gz.tbi | 169.57 KB | 44071946dad2c5bc3889b31b2a3b3ade |
| ENCFF441EPA.tabix.bed.gz.tbi.dvc | 110.0 B | 1c44ea0a28e9303848c6264943bd1b71 |
| genomic_resource.yaml | 3.76 KB | 8c70a8cbbb17c026b1bf0f11e98f275f |
| genomic_resource_original.yaml | 3.66 KB | bb6a629d3acb67574872d32817ff089d |
| statistics/ |