TF_ChIP-seq_ENCSR000BQS
TF_ChIP-seq ENCSR000BQS [biosample_summary="Homo sapiens GM12878" and target="REST"]
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| Id: | TF_ChIP-seq/ENCSR000BQS |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000BQS [biosamplesummary="Homo sapiens GM12878" and target="REST"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: File {ENCFF313CII|/files/ENCFF313CII/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_internal_action: Archived analysis {ENCAN442KTA|/analyses/ENCAN442KTA/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF894EID|/files/ENCFF894EID/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 9835931 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting REST-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 {ENCFF569QEN|/files/ENCFF569QEN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 12374820 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting REST-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 {ENCFF569QEN|/files/ENCFF569QEN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.84. 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 {ENCFF569QEN|/files/ENCFF569QEN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.45. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BQS | float |
TF_ChIP-seq_ENCSR000BQS |
TF_ChIP-seq ENCSR000BQS [biosample_summary="Homo sapiens GM12878" and target="REST"]
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[3.46, 521] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF313CII.bed.gz | 117.85 KB | ca4db15a84a95381cc0cb84611326272 |
| ENCFF313CII.bed.gz.dvc | 100.0 B | ceb9663907a20cade0a10e039479f0b6 |
| ENCFF313CII.tabix.bed.gz | 80.17 KB | 5cfe80be1c36d8418a8b1d1a70ccf22d |
| ENCFF313CII.tabix.bed.gz.dvc | 105.0 B | b3e1388a5807f121df016c69c7050614 |
| ENCFF313CII.tabix.bed.gz.tbi | 59.06 KB | b5974b6548836e819dc40a26b09620ea |
| ENCFF313CII.tabix.bed.gz.tbi.dvc | 109.0 B | e8fb54d749326e24563313790e19ee3e |
| genomic_resource.yaml | 3.83 KB | f614d5a98d390f586914378e68a73e3a |
| genomic_resource_original.yaml | 3.73 KB | 9cb0dde862663e53b639e4c78f45bebf |
| statistics/ |