TF_ChIP-seq_ENCSR000AMF
TF_ChIP-seq ENCSR000AMF [biosample_summary="Homo sapiens H1" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000AMF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000AMF [biosamplesummary="Homo sapiens H1" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN131JVJ|/analyses/ENCAN131JVJ/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF391MCN|/files/ENCFF391MCN/} processed by ChIP-seq ENCODE3 hg19 pipeline has 19866604 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 {ENCFF391MCN|/files/ENCFF391MCN/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF391MCN|/files/ENCFF391MCN/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.02. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000AMF | float |
TF_ChIP-seq_ENCSR000AMF |
TF_ChIP-seq ENCSR000AMF [biosample_summary="Homo sapiens H1" and target="CTCF"]
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[3.16, 289] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF093VEE.bed.gz | 1.01 MB | 4bf159bd7c7771fc8890a7a55a989001 |
| ENCFF093VEE.bed.gz.dvc | 101.0 B | 5a074f55d1d9d5ba8be78d3d5c59f0e8 |
| ENCFF093VEE.tabix.bed.gz | 794.49 KB | 73d5004b17bc82b343abfa0e06613fcf |
| ENCFF093VEE.tabix.bed.gz.dvc | 106.0 B | 2915ea681a51baf10284e2e74ee9f199 |
| ENCFF093VEE.tabix.bed.gz.tbi | 395.44 KB | b34c755cd581aed77cc61855b835e9d0 |
| ENCFF093VEE.tabix.bed.gz.tbi.dvc | 110.0 B | 87eeb7f38a376f81eacb97fd7f34ff7d |
| genomic_resource.yaml | 3.13 KB | fe345b713f0c43803dee4f34e74282c9 |
| genomic_resource_original.yaml | 3.04 KB | bb97913194d17300c676a2dcac9b70af |
| statistics/ |