Histone_ChIP-seq_ENCSR473TDG
Histone_ChIP-seq ENCSR473TDG [biosample_summary="Homo sapiens Karpas-422" and target="H3K9me2"]
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| Id: | Histone_ChIP-seq/ENCSR473TDG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR473TDG [biosamplesummary="Homo sapiens Karpas-422" and target="H3K9me2"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN453LUD|/analyses/ENCAN453LUD/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF938RGB|/files/ENCFF938RGB/} processed by ChIP-seq ENCODE3 hg19 pipeline has 15088592 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me2-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 {ENCFF691ZTN|/files/ENCFF691ZTN/} processed by ChIP-seq ENCODE3 hg19 pipeline has 20500287 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me2-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 {ENCFF938RGB|/files/ENCFF938RGB/} 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 {ENCFF938RGB|/files/ENCFF938RGB/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.16. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR473TDG | float |
Histone_ChIP-seq_ENCSR473TDG |
Histone_ChIP-seq ENCSR473TDG [biosample_summary="Homo sapiens Karpas-422" and target="H3K9me2"]
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[1.72, 6.44] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF891APA.bed.gz | 117.54 KB | ad0ddb14ac72c8eb9a1d850f790a041c |
| ENCFF891APA.bed.gz.dvc | 100.0 B | 9454f679b64c6fa64054dbd61d24b98c |
| ENCFF891APA.tabix.bed.gz | 61.31 KB | 6338854b07e6b16de1ee85f67662e474 |
| ENCFF891APA.tabix.bed.gz.dvc | 105.0 B | f891373b88920d0ec445f89ba670c5ce |
| ENCFF891APA.tabix.bed.gz.tbi | 55.75 KB | 8c4b4ff0131a4afc28f5b5e7d27003d5 |
| ENCFF891APA.tabix.bed.gz.tbi.dvc | 109.0 B | 9d5c510810ac6144783c582210783f88 |
| genomic_resource.yaml | 3.68 KB | 5c58abeadf7fe12670484e27708788f1 |
| genomic_resource_original.yaml | 3.57 KB | c564eef5df506da71551e2d00ba8422a |
| statistics/ |