TF_ChIP-seq_ENCSR872EVQ
TF_ChIP-seq ENCSR872EVQ [biosample_summary="Homo sapiens HepG2" and target="PCBP1"]
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| Id: | TF_ChIP-seq/ENCSR872EVQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR872EVQ [biosamplesummary="Homo sapiens HepG2" and target="PCBP1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN962MPL|/analyses/ENCAN962MPL/} has in progress subobject document {98a1dd87-a227-4ae9-9eb9-15560674c7fb|/documents/98a1dd87-a227-4ae9-9eb9-15560674c7fb/} audit_internal_action: Released analysis {ENCAN962MPL|/analyses/ENCAN962MPL/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF780OJV|/files/ENCFF780OJV/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 11148548 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting PCBP1-human and investigated as a transcription factor 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 {ENCFF146SVH|/files/ENCFF146SVH/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 10944397 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting PCBP1-human and investigated as a transcription factor 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 {ENCFF146SVH|/files/ENCFF146SVH/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF146SVH|/files/ENCFF146SVH/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.87. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF496SMN|/files/ENCFF496SMN/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.03 and a self consistency ratio of 2.03. According to ENCODE standards, having both rescue ratio and self consistency ratio values < 2 is recommended, but having only one of the ratio values < 2 is acceptable. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR872EVQ | float |
TF_ChIP-seq_ENCSR872EVQ |
TF_ChIP-seq ENCSR872EVQ [biosample_summary="Homo sapiens HepG2" and target="PCBP1"]
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[4.06, 219] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF496SMN.bed.gz | 192.57 KB | 4136f91ab2685dfe019493ed85fc67eb |
| ENCFF496SMN.bed.gz.dvc | 100.0 B | 001fdb6e8a6c6db5bf7f94adb4f263d9 |
| ENCFF496SMN.tabix.bed.gz | 160.12 KB | 825608b84c595a4601ec749ad5be0a40 |
| ENCFF496SMN.tabix.bed.gz.dvc | 106.0 B | 86e36d78b1bbdd75e71c21ee33a03799 |
| ENCFF496SMN.tabix.bed.gz.tbi | 75.08 KB | afb9e35f50f5cd35eedf3c9919534248 |
| ENCFF496SMN.tabix.bed.gz.tbi.dvc | 109.0 B | d9e66fcac249befc9d8fc76da93774f5 |
| genomic_resource.yaml | 4.42 KB | 044202cbb4d8b9ac2aaea781affe5ded |
| genomic_resource_original.yaml | 4.32 KB | 3df47e083cc7d3a83d9c1a7e9fb12ccd |
| statistics/ |