Histone_ChIP-seq_ENCSR000DUK
Histone_ChIP-seq ENCSR000DUK [biosample_summary="Homo sapiens HFF-Myc originated from foreskin fibroblast" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DUK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DUK [biosamplesummary="Homo sapiens HFF-Myc originated from foreskin fibroblast" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN994XNI|/analyses/ENCAN994XNI/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF263WUK|/files/ENCFF263WUK/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11586898 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 {ENCFF380MQK|/files/ENCFF380MQK/} processed by ChIP-seq ENCODE3 hg19 pipeline has 12873884 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 {ENCFF263WUK|/files/ENCFF263WUK/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF263WUK|/files/ENCFF263WUK/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.20. 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 {ENCFF380MQK|/files/ENCFF380MQK/} 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 alignments file {ENCFF380MQK|/files/ENCFF380MQK/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.65. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DUK | float |
Histone_ChIP-seq_ENCSR000DUK |
Histone_ChIP-seq ENCSR000DUK [biosample_summary="Homo sapiens HFF-Myc originated from foreskin fibroblast" and target="H3K4me3"]
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[2.04, 173] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF801BZV.bed.gz | 660.55 KB | b180e22d4b463cf35a897592e384dd73 |
| ENCFF801BZV.bed.gz.dvc | 100.0 B | 185e2ff05136f6ec10dc03c31dd1d31b |
| ENCFF801BZV.tabix.bed.gz | 281.62 KB | d0c7bb617f93cff6755356931bf86666 |
| ENCFF801BZV.tabix.bed.gz.dvc | 106.0 B | 9f8a4a04c3a33fa7405f12a9e9624589 |
| ENCFF801BZV.tabix.bed.gz.tbi | 142.72 KB | 7f14eaebab5c2cc3db661fd49622c6ee |
| ENCFF801BZV.tabix.bed.gz.tbi.dvc | 110.0 B | cb4a466a713ff884b5eb87fb12d9d214 |
| genomic_resource.yaml | 5.06 KB | d86f5fb50225424a23cb36ab8ebe8d7f |
| genomic_resource_original.yaml | 4.92 KB | a06236e632744feb1f0e551b3a97e30c |
| statistics/ |