Histone_ChIP-seq_ENCSR000FCG
Histone_ChIP-seq ENCSR000FCG [biosample_summary="Homo sapiens HEK293" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR000FCG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000FCG [biosamplesummary="Homo sapiens HEK293" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN159UNJ|/analyses/ENCAN159UNJ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF909ESY|/files/ENCFF909ESY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 7514960 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. 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 alignments file {ENCFF115NAM|/files/ENCFF115NAM/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 25033797 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. 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 {ENCFF909ESY|/files/ENCFF909ESY/} processed by ChIP-seq ENCODE3 GRCh38 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 {ENCFF909ESY|/files/ENCFF909ESY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.67. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000FCG | float |
Histone_ChIP-seq_ENCSR000FCG |
Histone_ChIP-seq ENCSR000FCG [biosample_summary="Homo sapiens HEK293" and target="H3K4me1"]
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[1.77, 17.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF301UTR.bed.gz | 1.49 MB | 8d8f9bec479ab88e1cd75e36ba648907 |
| ENCFF301UTR.bed.gz.dvc | 101.0 B | a923ce4d7ae995bf983874f455f938fd |
| ENCFF301UTR.tabix.bed.gz | 773.27 KB | 7533e6ec2eaf5b9b6f6a81e512993133 |
| ENCFF301UTR.tabix.bed.gz.dvc | 106.0 B | 74f0276da3b2083b29294e37b414bcb9 |
| ENCFF301UTR.tabix.bed.gz.tbi | 266.22 KB | 4f403a9fb426aa74452286b69ba679a0 |
| ENCFF301UTR.tabix.bed.gz.tbi.dvc | 110.0 B | 17781f56431493f6eaa7d49faaf6f6a9 |
| genomic_resource.yaml | 3.67 KB | ced329d60084f45074a9c7ad21c5b162 |
| genomic_resource_original.yaml | 3.57 KB | fd8ac7dfbab1d143759975c6cd0dec5c |
| statistics/ |