TF_ChIP-seq_ENCSR872ZHM
TF_ChIP-seq ENCSR872ZHM [biosample_summary="Homo sapiens HepG2" and target="KDM5A"]
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| Id: | TF_ChIP-seq/ENCSR872ZHM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR872ZHM [biosamplesummary="Homo sapiens HepG2" and target="KDM5A"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN050WOT|/analyses/ENCAN050WOT/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} 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 {ENCFF978GRX|/files/ENCFF978GRX/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.82. 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 {ENCFF978GRX|/files/ENCFF978GRX/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.39. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF805ACY|/files/ENCFF805ACY/}, {ENCFF115ROR|/files/ENCFF115ROR/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.42 and a self consistency ratio of 3.56. 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 {ENCFF243FMU|/files/ENCFF243FMU/}, {ENCFF880BTU|/files/ENCFF880BTU/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.42 and a self consistency ratio of 3.56. 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_ENCSR872ZHM | float |
TF_ChIP-seq_ENCSR872ZHM |
TF_ChIP-seq ENCSR872ZHM [biosample_summary="Homo sapiens HepG2" and target="KDM5A"]
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[9.15, 619] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF880BTU.bed.gz | 280.04 KB | 4afe059a7155dc6fadc302a1f266a711 |
| ENCFF880BTU.bed.gz.dvc | 100.0 B | a0a474375c61e3bc9adad92d2346ed73 |
| ENCFF880BTU.tabix.bed.gz | 216.18 KB | d807fbcea939716278f2b5a2d3af105a |
| ENCFF880BTU.tabix.bed.gz.dvc | 106.0 B | 646844e60dd277851e07361dee0767aa |
| ENCFF880BTU.tabix.bed.gz.tbi | 80.14 KB | 7270166d3da66148929da0092b0df38f |
| ENCFF880BTU.tabix.bed.gz.tbi.dvc | 109.0 B | 8f26ea098883f3343e567777b8f0f330 |
| genomic_resource.yaml | 3.78 KB | dd045dff6605cc4d1f25769770253309 |
| genomic_resource_original.yaml | 3.68 KB | c5d68c8cfff49d4331525fe3211d2eef |
| statistics/ |