TF_ChIP-seq_ENCSR000DKP
TF_ChIP-seq ENCSR000DKP [biosample_summary="Homo sapiens GM10248" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000DKP |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DKP [biosamplesummary="Homo sapiens GM10248" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN043NJK|/analyses/ENCAN043NJK/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF666BHZ|/files/ENCFF666BHZ/} processed by ChIP-seq ENCODE3 hg19 pipeline has 7373822 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 {ENCFF531PKS|/files/ENCFF531PKS/} processed by ChIP-seq ENCODE3 hg19 pipeline has 12573846 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 {ENCFF531PKS|/files/ENCFF531PKS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF531PKS|/files/ENCFF531PKS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.66. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DKP | float |
TF_ChIP-seq_ENCSR000DKP |
TF_ChIP-seq ENCSR000DKP [biosample_summary="Homo sapiens GM10248" and target="CTCF"]
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[4.07, 280] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF210PLK.bed.gz | 550.21 KB | e0ba950f98c4bcacedd5503af90fa466 |
| ENCFF210PLK.bed.gz.dvc | 100.0 B | d32c7005cbeebc566a28ad339465513b |
| ENCFF210PLK.tabix.bed.gz | 404.55 KB | 5fbcc8a42a420a2efa7ecac7aedfd43b |
| ENCFF210PLK.tabix.bed.gz.dvc | 106.0 B | d84feaee2f9ecfc3d65ed7f0eabfa879 |
| ENCFF210PLK.tabix.bed.gz.tbi | 233.03 KB | 3e3b6c69d9737db428486c1aac7f6439 |
| ENCFF210PLK.tabix.bed.gz.tbi.dvc | 110.0 B | ce58f4fe607eb08f606e3fdefb6e062f |
| genomic_resource.yaml | 3.64 KB | bbc40cc15b8fc35289ad1f45062dc44d |
| genomic_resource_original.yaml | 3.54 KB | 96c44b88802e573b14794f8e30912e32 |
| statistics/ |