Histone_ChIP-seq_ENCSR000DPI
Histone_ChIP-seq ENCSR000DPI [biosample_summary="Homo sapiens AG04449" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DPI |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DPI [biosamplesummary="Homo sapiens AG04449" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN338RSA|/analyses/ENCAN338RSA/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF243VRS|/files/ENCFF243VRS/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 19199707 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 {ENCFF913YPV|/files/ENCFF913YPV/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 18462223 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 {ENCFF243VRS|/files/ENCFF243VRS/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF243VRS|/files/ENCFF243VRS/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.08. 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 {ENCFF913YPV|/files/ENCFF913YPV/} 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 {ENCFF913YPV|/files/ENCFF913YPV/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.15. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DPI | float |
Histone_ChIP-seq_ENCSR000DPI |
Histone_ChIP-seq ENCSR000DPI [biosample_summary="Homo sapiens AG04449" and target="H3K4me3"]
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[2.01, 92.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF901ZPG.bed.gz | 835.3 KB | fa29b6ce9df5328830f945f95b918f8a |
| ENCFF901ZPG.bed.gz.dvc | 100.0 B | b0a1f213389d720d3dc1b76a3da5b2ad |
| ENCFF901ZPG.tabix.bed.gz | 396.28 KB | d181f17e6e30266dbede7403e3d9e8e5 |
| ENCFF901ZPG.tabix.bed.gz.dvc | 106.0 B | 81db63990acd999d0cb5ef60129d2c07 |
| ENCFF901ZPG.tabix.bed.gz.tbi | 167.46 KB | 059e64dfbd966e727af5410a8f3de13f |
| ENCFF901ZPG.tabix.bed.gz.tbi.dvc | 110.0 B | 105abbc906c01ed77511d1b6a999ddad |
| genomic_resource.yaml | 5.26 KB | 91b4700753dc85c0b5ea7cb83b0ddd17 |
| genomic_resource_original.yaml | 5.15 KB | 44bf2af58dec0375ebfbb88ff33077ee |
| statistics/ |