Histone_ChIP-seq_ENCSR453GNY
Histone_ChIP-seq ENCSR453GNY [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell" and target="H3K9me3"]
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| Id: | Histone_ChIP-seq/ENCSR453GNY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR453GNY [biosamplesummary="Homo sapiens CD4-positive, alpha-beta T cell" and target="H3K9me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN809ZWL|/analyses/ENCAN809ZWL/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed unfiltered alignments file {ENCFF810ZXM|/files/ENCFF810ZXM/} processed by ChIP-seq ENCODE3 hg19 pipeline has 34769293 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 redacted unfiltered alignments file {ENCFF971ENT|/files/ENCFF971ENT/} processed by ChIP-seq ENCODE3 hg19 pipeline has 26966218 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 {ENCFF803BLL|/files/ENCFF803BLL/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.82. 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 {ENCFF803BLL|/files/ENCFF803BLL/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.50. 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 redacted alignments file {ENCFF041XFT|/files/ENCFF041XFT/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.84. 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 redacted alignments file {ENCFF041XFT|/files/ENCFF041XFT/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.30. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR453GNY | float |
Histone_ChIP-seq_ENCSR453GNY |
Histone_ChIP-seq ENCSR453GNY [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell" and target="H3K9me3"]
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[1.52, 15.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF491CKX.bed.gz | 721.05 KB | 1b039e8687e06dd862ff3332a083c4ee |
| ENCFF491CKX.bed.gz.dvc | 100.0 B | 7aa044710616b54c4bd74a473a79c4fd |
| ENCFF491CKX.tabix.bed.gz | 361.95 KB | eb7481d72c7d443383f653e22fab943a |
| ENCFF491CKX.tabix.bed.gz.dvc | 106.0 B | 5b35dcea84d235abe2e7ad57c16da5da |
| ENCFF491CKX.tabix.bed.gz.tbi | 178.91 KB | eacf8d16ab1374b7340defdf8351c609 |
| ENCFF491CKX.tabix.bed.gz.tbi.dvc | 110.0 B | f139134bbadbc6c044b8668025bdcb2a |
| genomic_resource.yaml | 5.16 KB | ab9d067d9d82f46156b341b206414c1c |
| genomic_resource_original.yaml | 5.03 KB | 6dca27d6c324fc58c6fa024af82697ad |
| statistics/ |