Histone_ChIP-seq_ENCSR000AOX
Histone_ChIP-seq ENCSR000AOX [biosample_summary="Homo sapiens GM12878" and target="H3K9me3"]
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| Id: | Histone_ChIP-seq/ENCSR000AOX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000AOX [biosamplesummary="Homo sapiens GM12878" and target="H3K9me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN588DXB|/analyses/ENCAN588DXB/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed unfiltered alignments file {ENCFF030QXS|/files/ENCFF030QXS/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 17550791 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. 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 unfiltered alignments file {ENCFF335MWA|/files/ENCFF335MWA/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 14579068 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. 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 {ENCFF758GUH|/files/ENCFF758GUH/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF758GUH|/files/ENCFF758GUH/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.50. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000AOX | float |
Histone_ChIP-seq_ENCSR000AOX |
Histone_ChIP-seq ENCSR000AOX [biosample_summary="Homo sapiens GM12878" and target="H3K9me3"]
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[1.78, 11.8] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF218YZR.bed.gz | 322.47 KB | 19d7696f509a79059010733b8e78cfd6 |
| ENCFF218YZR.bed.gz.dvc | 100.0 B | 66126e9ac7dbf4a583644de2b8e37c38 |
| ENCFF218YZR.tabix.bed.gz | 178.73 KB | 08ccb71dc33345fa74d38c47c94f1025 |
| ENCFF218YZR.tabix.bed.gz.dvc | 106.0 B | c935b9d627581b6777e18d57a8d16fa2 |
| ENCFF218YZR.tabix.bed.gz.tbi | 86.57 KB | 2788db0e3f1f260efc3d987d7e677af7 |
| ENCFF218YZR.tabix.bed.gz.tbi.dvc | 109.0 B | e31ba260c51acdd2855c6bcd5a212680 |
| genomic_resource.yaml | 3.68 KB | ade9250cfdb5130b0472bca6639cbcfc |
| genomic_resource_original.yaml | 3.57 KB | 38208d433c45c6d9618a8579bcde4598 |
| statistics/ |