Histone_ChIP-seq_ENCSR000APK
Histone_ChIP-seq ENCSR000APK [biosample_summary="Homo sapiens osteoblast" and target="H3K4me2"]
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| Id: | Histone_ChIP-seq/ENCSR000APK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000APK [biosamplesummary="Homo sapiens osteoblast" and target="H3K4me2"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN631RME|/analyses/ENCAN631RME/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF204IFH|/files/ENCFF204IFH/} processed by ChIP-seq ENCODE3 hg19 pipeline has 8649672 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me2-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 {ENCFF939UEF|/files/ENCFF939UEF/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF939UEF|/files/ENCFF939UEF/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.33. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000APK | float |
Histone_ChIP-seq_ENCSR000APK |
Histone_ChIP-seq ENCSR000APK [biosample_summary="Homo sapiens osteoblast" and target="H3K4me2"]
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[1.64, 61.2] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF605FCR.bed.gz | 2.55 MB | 03830ca2f3cf999cf3e34231be729e58 |
| ENCFF605FCR.bed.gz.dvc | 101.0 B | c63a869bd4819f22ca8fec5cac9894ea |
| ENCFF605FCR.tabix.bed.gz | 1.1 MB | 78ff5f4dbcfe5c574301d137b294a121 |
| ENCFF605FCR.tabix.bed.gz.dvc | 107.0 B | 87cd90620b82b62e668e6b3f38148e40 |
| ENCFF605FCR.tabix.bed.gz.tbi | 366.84 KB | b5ee97981b29b0a937cbeca574a54def |
| ENCFF605FCR.tabix.bed.gz.tbi.dvc | 110.0 B | 765ac5ca1274807fd5147be9050f3133 |
| genomic_resource.yaml | 3.18 KB | a894b2fd58aa656ed41bd4c69d1ec1d0 |
| genomic_resource_original.yaml | 3.07 KB | 12a6cb4cd7d836bb4c120347b02507a5 |
| statistics/ |