TF_ChIP-seq_ENCSR473SUA
TF_ChIP-seq ENCSR473SUA [biosample_summary="Homo sapiens A549" and target="ESRRA"]
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| Id: | TF_ChIP-seq/ENCSR473SUA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR473SUA [biosamplesummary="Homo sapiens A549" and target="ESRRA"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN796SKI|/analyses/ENCAN796SKI/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_internal_action: File {ENCFF558UWY|/files/ENCFF558UWY/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_warning: Processed alignments file {ENCFF542CFD|/files/ENCFF542CFD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 19483567 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ESRRA-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 {ENCFF549LBG|/files/ENCFF549LBG/} processed by ChIP-seq ENCODE3 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 {ENCFF549LBG|/files/ENCFF549LBG/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.97. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF558UWY|/files/ENCFF558UWY/}, {ENCFF273CDX|/files/ENCFF273CDX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 1.31 and a self consistency ratio of 2.15. 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. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF276YNK|/files/ENCFF276YNK/}, {ENCFF100SME|/files/ENCFF100SME/} processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 1.31 and a self consistency ratio of 2.15. 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_ENCSR473SUA | float |
TF_ChIP-seq_ENCSR473SUA |
TF_ChIP-seq ENCSR473SUA [biosample_summary="Homo sapiens A549" and target="ESRRA"]
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[5.11, 252] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF558UWY.bed.gz | 46.53 KB | bc9d46a5e84ad11d35c428d736fadeb5 |
| ENCFF558UWY.bed.gz.dvc | 99.0 B | 417890b186c3be15eedd38f4cc7bf2d5 |
| ENCFF558UWY.tabix.bed.gz | 31.58 KB | beb85d53f4effabd75d5185cfdd01fde |
| ENCFF558UWY.tabix.bed.gz.dvc | 105.0 B | f06c987e001a4ef3de87958eb991e55b |
| ENCFF558UWY.tabix.bed.gz.tbi | 28.39 KB | 1f6f4bdc14323489f433ea2f996a4d3e |
| ENCFF558UWY.tabix.bed.gz.tbi.dvc | 109.0 B | 376c04f2d96501e89260474c865a31cd |
| genomic_resource.yaml | 4.46 KB | 8842184828de315a1f67b59144e0dbab |
| genomic_resource_original.yaml | 4.37 KB | 9f770498f6c1d0884878247dba9e2480 |
| statistics/ |