Histone_ChIP-seq_ENCSR000DXJ
Histone_ChIP-seq ENCSR000DXJ [biosample_summary="Homo sapiens bronchial epithelial cell" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DXJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DXJ [biosamplesummary="Homo sapiens bronchial epithelial cell" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN195UZK|/analyses/ENCAN195UZK/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF360NXO|/files/ENCFF360NXO/} processed by ChIP-seq ENCODE3 hg19 pipeline has 10733133 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 {ENCFF463GGH|/files/ENCFF463GGH/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11469246 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 {ENCFF360NXO|/files/ENCFF360NXO/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF360NXO|/files/ENCFF360NXO/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.89. 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 {ENCFF463GGH|/files/ENCFF463GGH/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF463GGH|/files/ENCFF463GGH/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.05. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DXJ | float |
Histone_ChIP-seq_ENCSR000DXJ |
Histone_ChIP-seq ENCSR000DXJ [biosample_summary="Homo sapiens bronchial epithelial cell" and target="H3K4me3"]
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[1.91, 152] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF772YDC.bed.gz | 648.17 KB | 2a16853fdfc1704145610914a8efc124 |
| ENCFF772YDC.bed.gz.dvc | 100.0 B | 97ac64b020186e3495c4759b36b5e52f |
| ENCFF772YDC.tabix.bed.gz | 274.51 KB | 4519295b7434349757e1cc2221b435a0 |
| ENCFF772YDC.tabix.bed.gz.dvc | 106.0 B | 8677e77690e5c7dc6c275082bb68d1b6 |
| ENCFF772YDC.tabix.bed.gz.tbi | 143.24 KB | 05b57acd9c5dc0a8fcd994b37b0570f9 |
| ENCFF772YDC.tabix.bed.gz.tbi.dvc | 110.0 B | 6d235fca1eb28cf6416357e7039bd8ce |
| genomic_resource.yaml | 5.31 KB | 17d8cea53da77c444ab626359f9a9f15 |
| genomic_resource_original.yaml | 5.18 KB | 1fa2032ad1d9376879e597bc0fa24cae |
| statistics/ |