TF_ChIP-seq_ENCSR238QRG
TF_ChIP-seq ENCSR238QRG [biosample_summary="Homo sapiens HepG2" and target="TBX3"]
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| Id: | TF_ChIP-seq/ENCSR238QRG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR238QRG [biosamplesummary="Homo sapiens HepG2" and target="TBX3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN264GQQ|/analyses/ENCAN264GQQ/} 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 {ENCFF274SQL|/files/ENCFF274SQL/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF274SQL|/files/ENCFF274SQL/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.81. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF574YMJ|/files/ENCFF574YMJ/}, {ENCFF852LYH|/files/ENCFF852LYH/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.80 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 {ENCFF312IIZ|/files/ENCFF312IIZ/}, {ENCFF580ZML|/files/ENCFF580ZML/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.80 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_ENCSR238QRG | float |
TF_ChIP-seq_ENCSR238QRG |
TF_ChIP-seq ENCSR238QRG [biosample_summary="Homo sapiens HepG2" and target="TBX3"]
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[22.4, 5.23e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF574YMJ.bed.gz | 276.73 KB | 63c5da4fc3c3ea560d12f4ffd7394112 |
| ENCFF574YMJ.bed.gz.dvc | 100.0 B | 6f8c4edecb9c9b9e99fdb2a9e3593325 |
| ENCFF574YMJ.tabix.bed.gz | 192.45 KB | 296ff8ee3b2388170b11f5bb48b96811 |
| ENCFF574YMJ.tabix.bed.gz.dvc | 106.0 B | 63d90c3579268ba84d411dca568cbc93 |
| ENCFF574YMJ.tabix.bed.gz.tbi | 109.02 KB | e70b6a5fc52e4a4a3051597ccf9326f6 |
| ENCFF574YMJ.tabix.bed.gz.tbi.dvc | 110.0 B | 16dcad8abb9eeab88c0af26c676936f4 |
| genomic_resource.yaml | 4.08 KB | 174889f04be1830e528699257a5cf952 |
| genomic_resource_original.yaml | 3.99 KB | 455369c156c122539877f30367473248 |
| statistics/ |