TF_ChIP-seq_ENCSR000EWD
TF_ChIP-seq ENCSR000EWD [biosample_summary="Homo sapiens K562" and target="SETDB1"]
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| Id: | TF_ChIP-seq/ENCSR000EWD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000EWD [biosamplesummary="Homo sapiens K562" and target="SETDB1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN448GDT|/analyses/ENCAN448GDT/} has in progress subobject document {ec98bf22-6fe1-495c-a788-70e58a1fb8f3|/documents/ec98bf22-6fe1-495c-a788-70e58a1fb8f3/} audit_internal_action: Released analysis {ENCAN448GDT|/analyses/ENCAN448GDT/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF653VRH|/files/ENCFF653VRH/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 9748868 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting SETDB1-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_not_compliant: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF319ZYX|/files/ENCFF319ZYX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 2.04 and a self consistency ratio of 8.95. 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: Processed alignments file {ENCFF927KUH|/files/ENCFF927KUH/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 10254303 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting SETDB1-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 {ENCFF927KUH|/files/ENCFF927KUH/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF927KUH|/files/ENCFF927KUH/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.00. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000EWD | float |
TF_ChIP-seq_ENCSR000EWD |
TF_ChIP-seq ENCSR000EWD [biosample_summary="Homo sapiens K562" and target="SETDB1"]
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[4.78, 110] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF319ZYX.bed.gz | 61.78 KB | 765096f42484c59c49079effd27df8e5 |
| ENCFF319ZYX.bed.gz.dvc | 99.0 B | 76bd93fe03dc1aa00ca27da50849044a |
| ENCFF319ZYX.tabix.bed.gz | 50.59 KB | 81adaab893874d8a9286f85c31cb58cc |
| ENCFF319ZYX.tabix.bed.gz.dvc | 105.0 B | bf47411d59228da78dd06dd7d34fa089 |
| ENCFF319ZYX.tabix.bed.gz.tbi | 24.32 KB | 4891da5bde03fdaba9c6d205ad3e52a7 |
| ENCFF319ZYX.tabix.bed.gz.tbi.dvc | 109.0 B | 7e38cd009f8215e9f273b5b62e0db409 |
| genomic_resource.yaml | 4.52 KB | 081a51198784958dc9cfd00b1d4f2ae5 |
| genomic_resource_original.yaml | 4.43 KB | e13501cda760f727430111409feb0063 |
| statistics/ |