Histone_ChIP-seq_ENCSR000DWV
Histone_ChIP-seq ENCSR000DWV [biosample_summary="Homo sapiens keratinocyte female" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DWV |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DWV [biosamplesummary="Homo sapiens keratinocyte female" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: female output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN463KND|/analyses/ENCAN463KND/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF814APR|/files/ENCFF814APR/} processed by ChIP-seq ENCODE3 hg19 pipeline has 9496750 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_not_compliant: Processed alignments file {ENCFF104YCW|/files/ENCFF104YCW/} processed by ChIP-seq ENCODE3 hg19 pipeline has 9262072 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 {ENCFF814APR|/files/ENCFF814APR/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF814APR|/files/ENCFF814APR/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.38. 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 {ENCFF104YCW|/files/ENCFF104YCW/} 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 {ENCFF104YCW|/files/ENCFF104YCW/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.50. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DWV | float |
Histone_ChIP-seq_ENCSR000DWV |
Histone_ChIP-seq ENCSR000DWV [biosample_summary="Homo sapiens keratinocyte female" and target="H3K4me3"]
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[1.93, 181] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF582JWP.bed.gz | 621.91 KB | 904f7a31945e134aa4fe686594376be1 |
| ENCFF582JWP.bed.gz.dvc | 100.0 B | 81e37b5dd11d3785bbf555d4ccbaf66b |
| ENCFF582JWP.tabix.bed.gz | 263.09 KB | 69d74d8414be7f6daa2d93848eb34981 |
| ENCFF582JWP.tabix.bed.gz.dvc | 106.0 B | f632ea35a1acdbe407c8f122c3824729 |
| ENCFF582JWP.tabix.bed.gz.tbi | 137.35 KB | 91f41d49872193c44a9718cdd4517816 |
| ENCFF582JWP.tabix.bed.gz.tbi.dvc | 110.0 B | 0c1ca2edc7280fac5c8014039b4eb269 |
| genomic_resource.yaml | 5.17 KB | 81c14beaba64c6526e0d404e7ff765e0 |
| genomic_resource_original.yaml | 5.05 KB | b0094672b38a5efc04f83f375b7adbf6 |
| statistics/ |