Histone_ChIP-seq_ENCSR000DVC
Histone_ChIP-seq ENCSR000DVC [biosample_summary="Homo sapiens fibroblast of lung" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DVC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DVC [biosamplesummary="Homo sapiens fibroblast of lung" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN629ICR|/analyses/ENCAN629ICR/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF426CQE|/files/ENCFF426CQE/} processed by ChIP-seq ENCODE3 hg19 pipeline has 14634910 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 {ENCFF440CVG|/files/ENCFF440CVG/} processed by ChIP-seq ENCODE3 hg19 pipeline has 17343020 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 {ENCFF426CQE|/files/ENCFF426CQE/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF426CQE|/files/ENCFF426CQE/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.88. 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 {ENCFF440CVG|/files/ENCFF440CVG/} 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 {ENCFF440CVG|/files/ENCFF440CVG/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.88. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DVC | float |
Histone_ChIP-seq_ENCSR000DVC |
Histone_ChIP-seq ENCSR000DVC [biosample_summary="Homo sapiens fibroblast of lung" and target="H3K4me3"]
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[1.87, 133] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF069BDK.bed.gz | 1.1 MB | c35e275a231e4507172776e45576c078 |
| ENCFF069BDK.bed.gz.dvc | 101.0 B | 1770b49bf8453c19201f723d57e3a8ca |
| ENCFF069BDK.tabix.bed.gz | 494.56 KB | a371de98503a4e5e0e9c4bc7b65a9fad |
| ENCFF069BDK.tabix.bed.gz.dvc | 106.0 B | 2148f838dade8cd8852cf296df85054e |
| ENCFF069BDK.tabix.bed.gz.tbi | 191.13 KB | 50be8b9fdc1daa4aa65d589f0df7fbb2 |
| ENCFF069BDK.tabix.bed.gz.tbi.dvc | 110.0 B | 3ae38568108d02eed207992e119a26c0 |
| genomic_resource.yaml | 4.99 KB | c08eb82ca6a01c62a2b506239a9582fe |
| genomic_resource_original.yaml | 4.87 KB | 189f7eb07bd0543e884b0edbfc822b4f |
| statistics/ |