Histone_ChIP-seq_ENCSR536SZD
Histone_ChIP-seq ENCSR536SZD [biosample_summary="Homo sapiens NCI-H929" and target="H3F3A"]
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| Id: | Histone_ChIP-seq/ENCSR536SZD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR536SZD [biosamplesummary="Homo sapiens NCI-H929" and target="H3F3A"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN700AAK|/analyses/ENCAN700AAK/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF678EEL|/files/ENCFF678EEL/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 27903305 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3F3A-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: Processed alignments file {ENCFF806GPM|/files/ENCFF806GPM/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 35871436 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3F3A-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 alignments file {ENCFF806GPM|/files/ENCFF806GPM/} processed by ChIP-seq ENCODE4 v1.6.1 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 alignments file {ENCFF806GPM|/files/ENCFF806GPM/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.93. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR536SZD | float |
Histone_ChIP-seq_ENCSR536SZD |
Histone_ChIP-seq ENCSR536SZD [biosample_summary="Homo sapiens NCI-H929" and target="H3F3A"]
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[1.52, 9.46] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF718YSW.bed.gz | 493.64 KB | f506a726f7423f73763b850fd3b3385b |
| ENCFF718YSW.bed.gz.dvc | 100.0 B | a9068cd875796ddc048f62fd1a4f83eb |
| ENCFF718YSW.tabix.bed.gz | 232.9 KB | 3d9ef76185e896ce0f0631f5a73cc1f4 |
| ENCFF718YSW.tabix.bed.gz.dvc | 106.0 B | 6fa81505076a61dd33aa7ab75bcad54d |
| ENCFF718YSW.tabix.bed.gz.tbi | 97.05 KB | 20f31340f152480d5f8135ebdd389f71 |
| ENCFF718YSW.tabix.bed.gz.tbi.dvc | 109.0 B | 18b7bde06073a0aacb96187d4f01521e |
| genomic_resource.yaml | 3.69 KB | 95095a7b31610ebc16b07dbd98fa061d |
| genomic_resource_original.yaml | 3.58 KB | 3d8bdbfbb070551ec6171ab4deab95e7 |
| statistics/ |