TF_ChIP-seq_ENCSR000DUS
TF_ChIP-seq ENCSR000DUS [biosample_summary="Homo sapiens mammary epithelial cell female" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000DUS |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DUS [biosamplesummary="Homo sapiens mammary epithelial cell female" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: female output_type: optimal IDR thresholded peaks audit_internal_action: File {ENCFF493HJH|/files/ENCFF493HJH/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_internal_action: Archived analysis {ENCAN002RMD|/analyses/ENCAN002RMD/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF346OGN|/files/ENCFF346OGN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 12468195 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CTCF-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 {ENCFF559BCH|/files/ENCFF559BCH/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 13576670 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CTCF-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 {ENCFF346OGN|/files/ENCFF346OGN/} processed by ChIP-seq ENCODE3 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 {ENCFF346OGN|/files/ENCFF346OGN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.08. 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 {ENCFF559BCH|/files/ENCFF559BCH/} 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 {ENCFF559BCH|/files/ENCFF559BCH/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.49. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DUS | float |
TF_ChIP-seq_ENCSR000DUS |
TF_ChIP-seq ENCSR000DUS [biosample_summary="Homo sapiens mammary epithelial cell female" and target="CTCF"]
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[3.87, 537] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF493HJH.bed.gz | 857.95 KB | 5d821a780af7f8f55050e670e0de57e3 |
| ENCFF493HJH.bed.gz.dvc | 100.0 B | c46721e67887b578812c895a5fe35ca1 |
| ENCFF493HJH.tabix.bed.gz | 653.28 KB | 288cde7d66c25db10443d0a0389e3efb |
| ENCFF493HJH.tabix.bed.gz.dvc | 106.0 B | 71de145e5cc91a2a4f558e74c150b8a1 |
| ENCFF493HJH.tabix.bed.gz.tbi | 332.56 KB | 3f07a63ff02cfcf96971ad6bf05f174d |
| ENCFF493HJH.tabix.bed.gz.tbi.dvc | 110.0 B | 59edffed415eb4bc84d28f6da7253215 |
| genomic_resource.yaml | 5.36 KB | 36a0aef68e381dc9c05adaa3c85d7f51 |
| genomic_resource_original.yaml | 5.25 KB | 1bed6633621a12d3b85e1636babaab51 |
| statistics/ |