Histone_ChIP-seq_ENCSR000DVG
Histone_ChIP-seq ENCSR000DVG [biosample_summary="Homo sapiens kidney epithelial cell" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DVG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DVG [biosamplesummary="Homo sapiens kidney epithelial cell" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN644AAA|/analyses/ENCAN644AAA/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN644AAA|/analyses/ENCAN644AAA/} has in progress subobject document {21e57bec-6d47-4f03-aef6-0e2d81f72313|/documents/21e57bec-6d47-4f03-aef6-0e2d81f72313/} audit_warning: Processed alignments file {ENCFF222GZJ|/files/ENCFF222GZJ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 10742571 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 {ENCFF925WTZ|/files/ENCFF925WTZ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 12081735 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 {ENCFF222GZJ|/files/ENCFF222GZJ/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF222GZJ|/files/ENCFF222GZJ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.55. 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 {ENCFF925WTZ|/files/ENCFF925WTZ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 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 {ENCFF925WTZ|/files/ENCFF925WTZ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.17. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DVG | float |
Histone_ChIP-seq_ENCSR000DVG |
Histone_ChIP-seq ENCSR000DVG [biosample_summary="Homo sapiens kidney epithelial cell" and target="H3K4me3"]
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[1.95, 170] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF855GTI.bed.gz | 697.75 KB | d715df6cdbbdc4733b858a3cf303a813 |
| ENCFF855GTI.bed.gz.dvc | 100.0 B | 74e046a94b41b33728c5709b1bbdd7e9 |
| ENCFF855GTI.tabix.bed.gz | 299.58 KB | e66dc41568811abc0518a62ed14a7002 |
| ENCFF855GTI.tabix.bed.gz.dvc | 106.0 B | a5fc4c6237f5b2fbafdd4d7bc70aa2a3 |
| ENCFF855GTI.tabix.bed.gz.tbi | 147.63 KB | d7d9fc39c03e64bd0eaf55643bd686a9 |
| ENCFF855GTI.tabix.bed.gz.tbi.dvc | 110.0 B | 696f856e50056c3ce725932589629e2f |
| genomic_resource.yaml | 5.57 KB | 66470acde1600b6fe6f6e5d83a923ef7 |
| genomic_resource_original.yaml | 5.45 KB | fcb8fc4d2e363681752c79a4d620f65f |
| statistics/ |