TF_ChIP-seq_ENCSR000DUM
TF_ChIP-seq ENCSR000DUM [biosample_summary="Homo sapiens HFF-Myc originated from foreskin fibroblast" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000DUM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DUM [biosamplesummary="Homo sapiens HFF-Myc originated from foreskin fibroblast" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN573DVY|/analyses/ENCAN573DVY/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_internal_action: File {ENCFF750KVF|/files/ENCFF750KVF/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_warning: Processed alignments file {ENCFF115QJZ|/files/ENCFF115QJZ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 12421450 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 {ENCFF208QQC|/files/ENCFF208QQC/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 16628933 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 {ENCFF115QJZ|/files/ENCFF115QJZ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF115QJZ|/files/ENCFF115QJZ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.47. 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 {ENCFF208QQC|/files/ENCFF208QQC/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF208QQC|/files/ENCFF208QQC/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.84. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DUM | float |
TF_ChIP-seq_ENCSR000DUM |
TF_ChIP-seq ENCSR000DUM [biosample_summary="Homo sapiens HFF-Myc originated from foreskin fibroblast" and target="CTCF"]
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[5.05, 628] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF750KVF.bed.gz | 636.53 KB | 1d2b07e126b8f68833a01e56d447c465 |
| ENCFF750KVF.bed.gz.dvc | 100.0 B | c78af1721ac07715553812a32d1acaf2 |
| ENCFF750KVF.tabix.bed.gz | 497.11 KB | acf926374992c751547f94aadda2ff4a |
| ENCFF750KVF.tabix.bed.gz.dvc | 106.0 B | 94b34e003d8a21983668620f3a423884 |
| ENCFF750KVF.tabix.bed.gz.tbi | 264.15 KB | e1ea6b584cdd49ff1325a1591ecc2c03 |
| ENCFF750KVF.tabix.bed.gz.tbi.dvc | 110.0 B | 05d38ef43138351622cca376a5d76f30 |
| genomic_resource.yaml | 5.23 KB | ea9ef1c496ea58b82d53e3216ffa5388 |
| genomic_resource_original.yaml | 5.1 KB | 12e41af1746556974448f7cc350dc88b |
| statistics/ |