Histone_ChIP-seq_ENCSR011CSR
Histone_ChIP-seq ENCSR011CSR [biosample_summary="Homo sapiens NCI-H929" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR011CSR |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR011CSR [biosamplesummary="Homo sapiens NCI-H929" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN615YBZ|/analyses/ENCAN615YBZ/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF097EKR|/files/ENCFF097EKR/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline has 25211425 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_not_compliant: Processed alignments file {ENCFF617CAT|/files/ENCFF617CAT/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline has 14837573 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 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 {ENCFF097EKR|/files/ENCFF097EKR/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 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 {ENCFF097EKR|/files/ENCFF097EKR/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.56. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR011CSR | float |
Histone_ChIP-seq_ENCSR011CSR |
Histone_ChIP-seq ENCSR011CSR [biosample_summary="Homo sapiens NCI-H929" and target="H3K4me1"]
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[1.55, 12.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF664LXA.bed.gz | 2.43 MB | bbc1748077ebccc2865fe3b599f1c9bd |
| ENCFF664LXA.bed.gz.dvc | 101.0 B | 550fe9c24e62843daea8876aac5c1d09 |
| ENCFF664LXA.tabix.bed.gz | 1.07 MB | ba70a1a8ec7904f3dc5e9771042836c7 |
| ENCFF664LXA.tabix.bed.gz.dvc | 107.0 B | 2213b944a83e7a650f1c18c59da95ef5 |
| ENCFF664LXA.tabix.bed.gz.tbi | 362.19 KB | 57282e0ccafcfdfb32cd25ce0ffbeaf3 |
| ENCFF664LXA.tabix.bed.gz.tbi.dvc | 110.0 B | 37e3be82372b4bd584cdc14ca929caf4 |
| genomic_resource.yaml | 3.9 KB | 49e394427f508cad86b3e65504048af4 |
| genomic_resource_original.yaml | 3.79 KB | 0ccc98084af6c957025385f6cb1e70e9 |
| statistics/ |