TF_ChIP-seq_ENCSR009MBP
TF_ChIP-seq ENCSR009MBP [biosample_summary="Homo sapiens GM12878" and target="HSF1"]
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| Id: | TF_ChIP-seq/ENCSR009MBP |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR009MBP [biosamplesummary="Homo sapiens GM12878" and target="HSF1"] |
| Description: |
status: archived biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN966UCU|/analyses/ENCAN966UCU/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF139IMF|/files/ENCFF139IMF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 18063640 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting HSF1-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 {ENCFF139IMF|/files/ENCFF139IMF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.82. 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 {ENCFF139IMF|/files/ENCFF139IMF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 5.41. 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 {ENCFF778CYP|/files/ENCFF778CYP/} processed by ChIP-seq ENCODE3 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 {ENCFF778CYP|/files/ENCFF778CYP/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.02. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR009MBP | float |
TF_ChIP-seq_ENCSR009MBP |
TF_ChIP-seq ENCSR009MBP [biosample_summary="Homo sapiens GM12878" and target="HSF1"]
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[5.05, 404] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF603BID.bed.gz | 51.73 KB | cbc96d465bf981c3babae0da23db72fe |
| ENCFF603BID.bed.gz.dvc | 99.0 B | a0fc5703e1170f87dd9df79bfe422063 |
| ENCFF603BID.tabix.bed.gz | 34.54 KB | 73e3b6edf85458349f02272f98e8d650 |
| ENCFF603BID.tabix.bed.gz.dvc | 105.0 B | d468a263217d27934d37bcb484fc5b7c |
| ENCFF603BID.tabix.bed.gz.tbi | 29.25 KB | d0a551732aec3ddd3d825e99126203ea |
| ENCFF603BID.tabix.bed.gz.tbi.dvc | 109.0 B | 5efa0b8c8b17e36d5fc2654f1710beb5 |
| genomic_resource.yaml | 4.45 KB | 61181fde308f67967b5870f5f93a2ec2 |
| genomic_resource_original.yaml | 4.35 KB | a224bf832c793f4c3ba40e74adaca1e8 |
| statistics/ |