Histone_ChIP-seq_ENCSR042RIW
Histone_ChIP-seq ENCSR042RIW [biosample_summary="Homo sapiens sigmoid colon tissue male adult (34 years)" and target="H3K27me3"]
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| Id: | Histone_ChIP-seq/ENCSR042RIW |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR042RIW [biosamplesummary="Homo sapiens sigmoid colon tissue male adult (34 years)" and target="H3K27me3"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (34 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN709DNO|/analyses/ENCAN709DNO/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF454NHC|/files/ENCFF454NHC/} processed by ChIP-seq ENCODE3 hg19 pipeline has 15129849 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-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 {ENCFF454NHC|/files/ENCFF454NHC/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF454NHC|/files/ENCFF454NHC/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.39. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR042RIW | float |
Histone_ChIP-seq_ENCSR042RIW |
Histone_ChIP-seq ENCSR042RIW [biosample_summary="Homo sapiens sigmoid colon tissue male adult (34 years)" and target="H3K27me3"]
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[1.39, 17.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF516BID.bed.gz | 478.2 KB | ee9e5cac8cb3f26430cff08497f19d24 |
| ENCFF516BID.bed.gz.dvc | 100.0 B | efad0e06169b3ec0c8eefcb4ebbb6aa5 |
| ENCFF516BID.tabix.bed.gz | 239.42 KB | adf6024ced84e3a4e486b10ac30624a1 |
| ENCFF516BID.tabix.bed.gz.dvc | 106.0 B | e539c0cf1316268bbc53fa11b0083dcf |
| ENCFF516BID.tabix.bed.gz.tbi | 121.08 KB | cc992ea4f4ea22d9a62ee2f471b282c9 |
| ENCFF516BID.tabix.bed.gz.tbi.dvc | 110.0 B | 9629434ffd26a0e952ebb3cdf6b7efea |
| genomic_resource.yaml | 3.24 KB | 2a0884f5088b79e6af8dcdb7f174a2a8 |
| genomic_resource_original.yaml | 3.1 KB | 204a0341fb7455279d6188a2d43aba79 |
| statistics/ |