Histone_ChIP-seq_ENCSR888OSH
Histone_ChIP-seq ENCSR888OSH [biosample_summary="Homo sapiens HUES48" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR888OSH |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR888OSH [biosamplesummary="Homo sapiens HUES48" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN332VZR|/analyses/ENCAN332VZR/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN332VZR|/analyses/ENCAN332VZR/} has in progress subobject document {342c0e6e-6108-4a76-aea3-e9a953e76d8d|/documents/342c0e6e-6108-4a76-aea3-e9a953e76d8d/} audit_not_compliant: Processed alignments file {ENCFF462OBO|/files/ENCFF462OBO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 26439629 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 alignments file {ENCFF577NII|/files/ENCFF577NII/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 31471884 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 alignments file {ENCFF462OBO|/files/ENCFF462OBO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF462OBO|/files/ENCFF462OBO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.62. 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 {ENCFF577NII|/files/ENCFF577NII/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF577NII|/files/ENCFF577NII/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.74. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR888OSH | float |
Histone_ChIP-seq_ENCSR888OSH |
Histone_ChIP-seq ENCSR888OSH [biosample_summary="Homo sapiens HUES48" and target="H3K4me1"]
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[1.6, 15.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF380SRX.bed.gz | 4.15 MB | cf0ddeb5c32e5c74d595d2f72cb08114 |
| ENCFF380SRX.bed.gz.dvc | 101.0 B | 24eda0aee2e0255d4a548ada24a63d44 |
| ENCFF380SRX.tabix.bed.gz | 1.89 MB | 3222d4916ba4ed922743cdd153ec42fe |
| ENCFF380SRX.tabix.bed.gz.dvc | 107.0 B | 4446072a2cbf0799840d54a8085a3811 |
| ENCFF380SRX.tabix.bed.gz.tbi | 505.13 KB | af9050425b737bec5fca22b8d10bc2e6 |
| ENCFF380SRX.tabix.bed.gz.tbi.dvc | 110.0 B | b72ceacd29b590151676c531c6e0a858 |
| genomic_resource.yaml | 5.24 KB | 93352ed91a0558bae60b1f5531a43dfa |
| genomic_resource_original.yaml | 5.13 KB | d77d651e61cda194ed0025bb368f3bba |
| statistics/ |