Histone_ChIP-seq_ENCSR386JEL
Histone_ChIP-seq ENCSR386JEL [biosample_summary="Homo sapiens brain tissue female embryo (17 weeks)" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR386JEL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR386JEL [biosamplesummary="Homo sapiens brain tissue female embryo (17 weeks)" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: female embryo (17 weeks) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN549GOL|/analyses/ENCAN549GOL/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed redacted alignments file {ENCFF226JND|/files/ENCFF226JND/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 21940927 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_not_compliant: Processed redacted alignments file {ENCFF623UKD|/files/ENCFF623UKD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 29171834 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 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 redacted alignments file {ENCFF226JND|/files/ENCFF226JND/} processed by ChIP-seq ENCODE3 GRCh38 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 redacted alignments file {ENCFF226JND|/files/ENCFF226JND/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.56. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR386JEL | float |
Histone_ChIP-seq_ENCSR386JEL |
Histone_ChIP-seq ENCSR386JEL [biosample_summary="Homo sapiens brain tissue female embryo (17 weeks)" and target="H3K4me1"]
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[1.84, 12.2] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF272XDQ.bed.gz | 2.18 MB | 5baef7bb26e1f700ca23b14a38b747d9 |
| ENCFF272XDQ.bed.gz.dvc | 101.0 B | dbe6b6b74dde71d0dbe9057d2d300142 |
| ENCFF272XDQ.tabix.bed.gz | 1.15 MB | 74e5216700aaed9ce146406e103d68d2 |
| ENCFF272XDQ.tabix.bed.gz.dvc | 107.0 B | 78c110ce4ed4d32099103b692438edcc |
| ENCFF272XDQ.tabix.bed.gz.tbi | 366.32 KB | eb9a2b338d2dfec7f47024ccbbadc5d9 |
| ENCFF272XDQ.tabix.bed.gz.tbi.dvc | 110.0 B | 71851439e3964d48c9ec9dc6778efcac |
| genomic_resource.yaml | 3.75 KB | acafe684d4d45e830b2a120905e745b6 |
| genomic_resource_original.yaml | 3.62 KB | 16967df52d934e9e820680843e2363ea |
| statistics/ |