Histone_ChIP-seq_ENCSR000DQV
Histone_ChIP-seq ENCSR000DQV [biosample_summary="Homo sapiens GM06990" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DQV |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DQV [biosamplesummary="Homo sapiens GM06990" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN863YUF|/analyses/ENCAN863YUF/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF107KVL|/files/ENCFF107KVL/} processed by ChIP-seq ENCODE3 hg19 pipeline has 10205572 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: Processed alignments file {ENCFF798RRY|/files/ENCFF798RRY/} processed by ChIP-seq ENCODE3 hg19 pipeline has 14133852 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 {ENCFF798RRY|/files/ENCFF798RRY/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF798RRY|/files/ENCFF798RRY/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.61. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DQV | float |
Histone_ChIP-seq_ENCSR000DQV |
Histone_ChIP-seq ENCSR000DQV [biosample_summary="Homo sapiens GM06990" and target="H3K4me3"]
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[1.92, 108] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF357ALO.bed.gz | 880.74 KB | 3ec77e0da9f18deedf8843a8ca41af17 |
| ENCFF357ALO.bed.gz.dvc | 100.0 B | 357497fee3799b519223ba75e2a40e22 |
| ENCFF357ALO.tabix.bed.gz | 391.25 KB | 3f0176335702b6dad5fc1ca02e2ad072 |
| ENCFF357ALO.tabix.bed.gz.dvc | 106.0 B | 27b1f678ebe83be7f17f82bb225fa045 |
| ENCFF357ALO.tabix.bed.gz.tbi | 158.47 KB | c4aedf670d545e928e9fe8aa38e8b742 |
| ENCFF357ALO.tabix.bed.gz.tbi.dvc | 110.0 B | 415a104c73445d4ce40512ecd788af42 |
| genomic_resource.yaml | 3.96 KB | b6d44713e9599eab8c3a5a461192d53f |
| genomic_resource_original.yaml | 3.85 KB | 2e733f1a3415fbd92e50229498e42c6b |
| statistics/ |