TF_ChIP-seq_ENCSR000DTR
TF_ChIP-seq ENCSR000DTR [biosample_summary="Homo sapiens epithelial cell of esophagus" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000DTR |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DTR [biosamplesummary="Homo sapiens epithelial cell of esophagus" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN925JNW|/analyses/ENCAN925JNW/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF707NXH|/files/ENCFF707NXH/} processed by ChIP-seq ENCODE3 hg19 pipeline has 8711079 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CTCF-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 {ENCFF999PXI|/files/ENCFF999PXI/} processed by ChIP-seq ENCODE3 hg19 pipeline has 18413999 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CTCF-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 {ENCFF999PXI|/files/ENCFF999PXI/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF999PXI|/files/ENCFF999PXI/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.85. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DTR | float |
TF_ChIP-seq_ENCSR000DTR |
TF_ChIP-seq ENCSR000DTR [biosample_summary="Homo sapiens epithelial cell of esophagus" and target="CTCF"]
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[4.64, 633] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF528VFN.bed.gz | 771.39 KB | a0f666e95ff0fbc506d613ddf1c48a4a |
| ENCFF528VFN.bed.gz.dvc | 100.0 B | c919291ada9ee11257673a33d8fcd654 |
| ENCFF528VFN.tabix.bed.gz | 581.73 KB | f766d087782a5428a96d3c8a95226e6f |
| ENCFF528VFN.tabix.bed.gz.dvc | 106.0 B | de3d797d97d5d2bf3f04529f86a2543a |
| ENCFF528VFN.tabix.bed.gz.tbi | 302.11 KB | a0fea8ada33e0c45d56860767c35071f |
| ENCFF528VFN.tabix.bed.gz.tbi.dvc | 110.0 B | 785fe2992fc1607e2c51c5b571d763bf |
| genomic_resource.yaml | 4.0 KB | ae9d9e929908accac69da0201655068f |
| genomic_resource_original.yaml | 3.89 KB | e13c52f3f0370261ae66953f59b21efe |
| statistics/ |