TF_ChIP-seq_ENCSR412CTM
TF_ChIP-seq ENCSR412CTM [biosample_summary="Homo sapiens K562" and target="SUZ12"]
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| Id: | TF_ChIP-seq/ENCSR412CTM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR412CTM [biosamplesummary="Homo sapiens K562" and target="SUZ12"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN600LOB|/analyses/ENCAN600LOB/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_internal_action: File {ENCFF856HYC|/files/ENCFF856HYC/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_warning: Processed alignments file {ENCFF614RBF|/files/ENCFF614RBF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 18259887 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting SUZ12-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 {ENCFF614RBF|/files/ENCFF614RBF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF614RBF|/files/ENCFF614RBF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.34. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF687WTM|/files/ENCFF687WTM/} processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 3.09 and a self consistency ratio of 1.57. 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: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF856HYC|/files/ENCFF856HYC/} processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 3.09 and a self consistency ratio of 1.57. 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. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR412CTM | float |
TF_ChIP-seq_ENCSR412CTM |
TF_ChIP-seq ENCSR412CTM [biosample_summary="Homo sapiens K562" and target="SUZ12"]
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[5.4, 437] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF856HYC.bed.gz | 42.9 KB | 9aeff388cdd3efa63a663f43f6a37be8 |
| ENCFF856HYC.bed.gz.dvc | 99.0 B | f9f35d527e771b1f12a852e0291e605e |
| ENCFF856HYC.tabix.bed.gz | 30.28 KB | de7488f158910906072e8a4abe52f973 |
| ENCFF856HYC.tabix.bed.gz.dvc | 105.0 B | 4a15b88afc5a29a0aa79cc508f4df7d8 |
| ENCFF856HYC.tabix.bed.gz.tbi | 27.31 KB | ace21f0de86df218682ab9891d166ef4 |
| ENCFF856HYC.tabix.bed.gz.tbi.dvc | 109.0 B | c3c39230901b6a894ee0e1ea51e5df73 |
| genomic_resource.yaml | 4.39 KB | 4da49b252b23a8369c4af50b1c1ca254 |
| genomic_resource_original.yaml | 4.29 KB | 3ce1a885af36ce794db8bacb89b30e0e |
| statistics/ |