Histone_ChIP-seq_ENCSR129NCV
Histone_ChIP-seq ENCSR129NCV [biosample_summary="Homo sapiens stomach tissue male adult (34 years)" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR129NCV |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR129NCV [biosamplesummary="Homo sapiens stomach tissue male adult (34 years)" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (34 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN063GPO|/analyses/ENCAN063GPO/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF417COB|/files/ENCFF417COB/} processed by ChIP-seq ENCODE3 hg19 pipeline has 17858999 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-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 {ENCFF417COB|/files/ENCFF417COB/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF417COB|/files/ENCFF417COB/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.35. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR129NCV | float |
Histone_ChIP-seq_ENCSR129NCV |
Histone_ChIP-seq ENCSR129NCV [biosample_summary="Homo sapiens stomach tissue male adult (34 years)" and target="H3K4me3"]
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[1.78, 61] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF651VPB.bed.gz | 738.0 KB | f3076ea64a26404ba17eaaa08de3b43c |
| ENCFF651VPB.bed.gz.dvc | 100.0 B | 1c2776649aba7e9cab0800968d07753c |
| ENCFF651VPB.tabix.bed.gz | 323.5 KB | 9b2a9357f07cece1eedbb924c235da1d |
| ENCFF651VPB.tabix.bed.gz.dvc | 106.0 B | 48bcb159a8b0ead31fe311e00f5c5f0d |
| ENCFF651VPB.tabix.bed.gz.tbi | 158.31 KB | 730403b648230a9b030eb9093e1f6e8b |
| ENCFF651VPB.tabix.bed.gz.tbi.dvc | 110.0 B | 632927038fa1feb6ebd2392a217d75a6 |
| genomic_resource.yaml | 3.21 KB | 79a940e57209586d14240ee55476dbcc |
| genomic_resource_original.yaml | 3.08 KB | 4dd9f377fb4a21a033579b6b0a83bf39 |
| statistics/ |