Histone_ChIP-seq_ENCSR000ATH
Histone_ChIP-seq ENCSR000ATH [biosample_summary="Homo sapiens osteoblast" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000ATH |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000ATH [biosamplesummary="Homo sapiens osteoblast" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 2, Rep 3 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN872QNS|/analyses/ENCAN872QNS/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF164SGX|/files/ENCFF164SGX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 8095546 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 {ENCFF877XAA|/files/ENCFF877XAA/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 16452393 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 {ENCFF877XAA|/files/ENCFF877XAA/} processed by ChIP-seq ENCODE3 GRCh38 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 {ENCFF877XAA|/files/ENCFF877XAA/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.17. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ATH | float |
Histone_ChIP-seq_ENCSR000ATH |
Histone_ChIP-seq ENCSR000ATH [biosample_summary="Homo sapiens osteoblast" and target="H3K4me3"]
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[1.78, 94] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF261AED.bed.gz | 1.13 MB | 15b00e00c9c041403803dd8dee0027ed |
| ENCFF261AED.bed.gz.dvc | 101.0 B | 50732710ea2156d6e27ed8d04b2a3cab |
| ENCFF261AED.tabix.bed.gz | 502.72 KB | 24cee5f451510048850bf6a324a6e34b |
| ENCFF261AED.tabix.bed.gz.dvc | 106.0 B | 3a86fc63c5873e8ebcc170885e97a15f |
| ENCFF261AED.tabix.bed.gz.tbi | 235.83 KB | c1ab7aaced9b3a4ebaa096e3fcf088d7 |
| ENCFF261AED.tabix.bed.gz.tbi.dvc | 110.0 B | 97b109b8cb6eb4624e06fc08536d202c |
| genomic_resource.yaml | 3.68 KB | 1eea0c468ea2fe2fb14a68c8453dd303 |
| genomic_resource_original.yaml | 3.57 KB | 53fb4c190831b8dc2a05ac240281cac9 |
| statistics/ |