TF_ChIP-seq_ENCSR000ECH
TF_ChIP-seq ENCSR000ECH [biosample_summary="Homo sapiens HeLa-S3" and target="HCFC1"]
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| Id: | TF_ChIP-seq/ENCSR000ECH |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000ECH [biosamplesummary="Homo sapiens HeLa-S3" and target="HCFC1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN987MCK|/analyses/ENCAN987MCK/} has in progress subobject document {3a4d185d-d736-4d61-b870-88c9e209a8e1|/documents/3a4d185d-d736-4d61-b870-88c9e209a8e1/} audit_internal_action: Released analysis {ENCAN987MCK|/analyses/ENCAN987MCK/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF440HPS|/files/ENCFF440HPS/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 14048112 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting HCFC1-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 {ENCFF691IXQ|/files/ENCFF691IXQ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19302695 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting HCFC1-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 {ENCFF691IXQ|/files/ENCFF691IXQ/} 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 {ENCFF691IXQ|/files/ENCFF691IXQ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.60. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF094AXB|/files/ENCFF094AXB/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.17 and a self consistency ratio of 2.10. 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_ENCSR000ECH | float |
TF_ChIP-seq_ENCSR000ECH |
TF_ChIP-seq ENCSR000ECH [biosample_summary="Homo sapiens HeLa-S3" and target="HCFC1"]
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[5.29, 503] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF094AXB.bed.gz | 219.47 KB | f64a601ab24a233d35243f6291dc1b48 |
| ENCFF094AXB.bed.gz.dvc | 100.0 B | 15321ccf333a746474b2e097d5fa1bca |
| ENCFF094AXB.tabix.bed.gz | 158.34 KB | 8bf1a4655c041ddd7889b07ddc97e15c |
| ENCFF094AXB.tabix.bed.gz.dvc | 106.0 B | fd9614a9cfcc834c86adaa410a593e7c |
| ENCFF094AXB.tabix.bed.gz.tbi | 87.84 KB | 7c78504eb832db436e1c29d1f711201e |
| ENCFF094AXB.tabix.bed.gz.tbi.dvc | 109.0 B | d9012af03a565d1bf8ec06318cb14d09 |
| genomic_resource.yaml | 4.42 KB | b23f5fecdaae315acc26fbb5e3ffe818 |
| genomic_resource_original.yaml | 4.32 KB | d1870479a513722b54940760f1326505 |
| statistics/ |