Histone_ChIP-seq_ENCSR906NGD
Histone_ChIP-seq ENCSR906NGD [biosample_summary="Homo sapiens GM23248" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR906NGD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR906NGD [biosamplesummary="Homo sapiens GM23248" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN791ZZC|/analyses/ENCAN791ZZC/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN791ZZC|/analyses/ENCAN791ZZC/} has in progress subobject document {bc67edf6-d23c-49c4-9d7a-2a2a374eb09d|/documents/bc67edf6-d23c-49c4-9d7a-2a2a374eb09d/} audit_not_compliant: Processed alignments file {ENCFF515SNS|/files/ENCFF515SNS/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 29662258 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 {ENCFF718YCJ|/files/ENCFF718YCJ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 31294435 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 {ENCFF515SNS|/files/ENCFF515SNS/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF515SNS|/files/ENCFF515SNS/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.26. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR906NGD | float |
Histone_ChIP-seq_ENCSR906NGD |
Histone_ChIP-seq ENCSR906NGD [biosample_summary="Homo sapiens GM23248" and target="H3K4me1"]
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[1.67, 11.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF314UFY.bed.gz | 3.37 MB | 0fb8571bb5f7a34c88885184305f8472 |
| ENCFF314UFY.bed.gz.dvc | 101.0 B | b21de1d979d64769c70bf34faf15c0b5 |
| ENCFF314UFY.tabix.bed.gz | 1.45 MB | 99549adfd076bd22a20d31809e4517d6 |
| ENCFF314UFY.tabix.bed.gz.dvc | 107.0 B | b9e312d15e6b0497e039ae945d7d5907 |
| ENCFF314UFY.tabix.bed.gz.tbi | 355.31 KB | 21fe0b296f2d7394909499d060acff33 |
| ENCFF314UFY.tabix.bed.gz.tbi.dvc | 110.0 B | 6f69dc5651a4a541102d358045d74eee |
| genomic_resource.yaml | 3.93 KB | 0df0b03197a94db9fd668fd7f6a796f0 |
| genomic_resource_original.yaml | 3.82 KB | 0c36b54c7e054ec48d7165c17bc289b6 |
| statistics/ |