Histone_ChIP-seq_ENCSR000DXB
Histone_ChIP-seq ENCSR000DXB [biosample_summary="Homo sapiens Panc1" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DXB |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DXB [biosamplesummary="Homo sapiens Panc1" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN566IIP|/analyses/ENCAN566IIP/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF879LKK|/files/ENCFF879LKK/} processed by ChIP-seq ENCODE3 hg19 pipeline has 16185677 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: Processed alignments file {ENCFF859UMC|/files/ENCFF859UMC/} processed by ChIP-seq ENCODE3 hg19 pipeline has 15598483 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 {ENCFF879LKK|/files/ENCFF879LKK/} 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 {ENCFF879LKK|/files/ENCFF879LKK/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.65. 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 {ENCFF859UMC|/files/ENCFF859UMC/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF859UMC|/files/ENCFF859UMC/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.86. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DXB | float |
Histone_ChIP-seq_ENCSR000DXB |
Histone_ChIP-seq ENCSR000DXB [biosample_summary="Homo sapiens Panc1" and target="H3K4me3"]
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[1.74, 132] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF344GEX.bed.gz | 950.63 KB | 856853e182bd597ec5996ca9a80a1c38 |
| ENCFF344GEX.bed.gz.dvc | 100.0 B | 06cb82b28887c6c8ceccf0c8d6f93075 |
| ENCFF344GEX.tabix.bed.gz | 415.22 KB | cc450698aad3a95ee1d2a9f5de2f82d8 |
| ENCFF344GEX.tabix.bed.gz.dvc | 106.0 B | 2e0f92e3380415f06016211242f6ec23 |
| ENCFF344GEX.tabix.bed.gz.tbi | 182.12 KB | 7239a5c1f19331d573444868cd24459d |
| ENCFF344GEX.tabix.bed.gz.tbi.dvc | 110.0 B | b9c9afa18f9aa7eb0ad33e577bce4571 |
| genomic_resource.yaml | 5.25 KB | c5b3ca5b9e26086623e87a3924d2979c |
| genomic_resource_original.yaml | 5.14 KB | aa6257ed75b079c3593531a3fb1f1bab |
| statistics/ |