TF_ChIP-seq_ENCSR505NMN
TF_ChIP-seq ENCSR505NMN [biosample_summary="Homo sapiens MCF-7 stably expressing E2F4" and target="E2F4"]
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| Id: | TF_ChIP-seq/ENCSR505NMN |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR505NMN [biosamplesummary="Homo sapiens MCF-7 stably expressing E2F4" and target="E2F4"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: stably expressing C-terminal eGFP-tagged E2F4 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN792XLM|/analyses/ENCAN792XLM/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN792XLM|/analyses/ENCAN792XLM/} has in progress subobject document {c19088a6-a5c6-4377-9750-dcb6e261b832|/documents/c19088a6-a5c6-4377-9750-dcb6e261b832/} audit_warning: Processed alignments file {ENCFF214CXU|/files/ENCFF214CXU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 14310092 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting E2F4-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 {ENCFF214CXU|/files/ENCFF214CXU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF214CXU|/files/ENCFF214CXU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.76. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF090CEP|/files/ENCFF090CEP/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.06 and a self consistency ratio of 2.05. 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_ENCSR505NMN | float |
TF_ChIP-seq_ENCSR505NMN |
TF_ChIP-seq ENCSR505NMN [biosample_summary="Homo sapiens MCF-7 stably expressing E2F4" and target="E2F4"]
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[6.8, 425] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF090CEP.bed.gz | 22.87 KB | 847fab656252394036b598af7c72547e |
| ENCFF090CEP.bed.gz.dvc | 99.0 B | 6b0c34907b98f0e63f011ea753bb352f |
| ENCFF090CEP.tabix.bed.gz | 17.83 KB | 3896fb2e471cef2c296e1fcccdb21dbd |
| ENCFF090CEP.tabix.bed.gz.dvc | 105.0 B | 9993548ed3238b7d593eff99c7d68351 |
| ENCFF090CEP.tabix.bed.gz.tbi | 13.46 KB | 5e59ba911b610893ad2c755ba3937b25 |
| ENCFF090CEP.tabix.bed.gz.tbi.dvc | 109.0 B | 843f4f149fb4558a2df30950e9c3ba4e |
| genomic_resource.yaml | 3.96 KB | c6f19e08988863a89c3d66b22b77572d |
| genomic_resource_original.yaml | 3.85 KB | 62529c61f9388eff33ee8bb8eb9496ee |
| statistics/ |