Histone_ChIP-seq_ENCSR000DWF
Histone_ChIP-seq ENCSR000DWF [biosample_summary="Homo sapiens LNCaP clone FGC" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DWF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DWF [biosamplesummary="Homo sapiens LNCaP clone FGC" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN146MKZ|/analyses/ENCAN146MKZ/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN146MKZ|/analyses/ENCAN146MKZ/} has in progress subobject document {ad9c34c3-c7c9-4fe5-bf74-395d10982562|/documents/ad9c34c3-c7c9-4fe5-bf74-395d10982562/} audit_warning: Processed alignments file {ENCFF934RQP|/files/ENCFF934RQP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 13431325 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 {ENCFF303WWR|/files/ENCFF303WWR/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 15852615 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 {ENCFF934RQP|/files/ENCFF934RQP/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF934RQP|/files/ENCFF934RQP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.25. 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 {ENCFF303WWR|/files/ENCFF303WWR/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF303WWR|/files/ENCFF303WWR/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.31. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DWF | float |
Histone_ChIP-seq_ENCSR000DWF |
Histone_ChIP-seq ENCSR000DWF [biosample_summary="Homo sapiens LNCaP clone FGC" and target="H3K4me3"]
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[1.84, 174] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF586HAM.bed.gz | 694.45 KB | 28643b679bd78766df8d267f4ab81573 |
| ENCFF586HAM.bed.gz.dvc | 100.0 B | 41015a1560b9623332672bb728f3234e |
| ENCFF586HAM.tabix.bed.gz | 302.49 KB | 818e5f3b146a345ca2c2c3bb99e7bba8 |
| ENCFF586HAM.tabix.bed.gz.dvc | 106.0 B | 73372e4e41e0efd60e051415431bb4a1 |
| ENCFF586HAM.tabix.bed.gz.tbi | 156.91 KB | 295f3c36c8bb79853d2da4f0b3054840 |
| ENCFF586HAM.tabix.bed.gz.tbi.dvc | 110.0 B | eea5d3a412e2245b79164584de0e18e9 |
| genomic_resource.yaml | 5.25 KB | 42eb6504e07a276df332ac8990ea17f1 |
| genomic_resource_original.yaml | 5.13 KB | a21ab48fd7987acd185c422546d1f22b |
| statistics/ |