TF_ChIP-seq_ENCSR000EIC
TF_ChIP-seq ENCSR000EIC [biosample_summary="Homo sapiens SK-N-SH" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000EIC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000EIC [biosamplesummary="Homo sapiens SK-N-SH" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: File {ENCFF540DWT|/files/ENCFF540DWT/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_internal_action: Archived analysis {ENCAN469WFF|/analyses/ENCAN469WFF/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF430DOC|/files/ENCFF430DOC/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 14675371 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 {ENCFF973FUN|/files/ENCFF973FUN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 18071515 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 {ENCFF430DOC|/files/ENCFF430DOC/} 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 {ENCFF430DOC|/files/ENCFF430DOC/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.86. 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 {ENCFF973FUN|/files/ENCFF973FUN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000EIC | float |
TF_ChIP-seq_ENCSR000EIC |
TF_ChIP-seq ENCSR000EIC [biosample_summary="Homo sapiens SK-N-SH" and target="CTCF"]
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[4.23, 597] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF540DWT.bed.gz | 863.03 KB | 400c814ed87043db0c2602ebcab39556 |
| ENCFF540DWT.bed.gz.dvc | 100.0 B | e4d0bc72fb5ae02afe09c659212ba031 |
| ENCFF540DWT.tabix.bed.gz | 607.77 KB | 6acf8f3c6daa730e1a9dbc2a439284cf |
| ENCFF540DWT.tabix.bed.gz.dvc | 106.0 B | 5bc57de8ff3d9ba7a11c975e7f1b6964 |
| ENCFF540DWT.tabix.bed.gz.tbi | 310.91 KB | 7479e5c94849800220c5dd69bcea022e |
| ENCFF540DWT.tabix.bed.gz.tbi.dvc | 110.0 B | 5fb5c3bfbca0d72a0a4f09ac1e83e41d |
| genomic_resource.yaml | 4.49 KB | 9cde493e7fe8a286b7a339ba200bf359 |
| genomic_resource_original.yaml | 4.39 KB | e122b65ad937e00e6965e3a4d443fefc |
| statistics/ |