TF_ChIP-seq_ENCSR000BPL
TF_ChIP-seq ENCSR000BPL [biosample_summary="Homo sapiens SK-N-MC" and target="POLR2AphosphoS5"]
×
| Id: | TF_ChIP-seq/ENCSR000BPL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000BPL [biosamplesummary="Homo sapiens SK-N-MC" and target="POLR2AphosphoS5"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN670HFU|/analyses/ENCAN670HFU/} has in progress subobject document {a37a6b7b-9f46-4907-adf2-e9d42e99510c|/documents/a37a6b7b-9f46-4907-adf2-e9d42e99510c/} audit_internal_action: Released analysis {ENCAN670HFU|/analyses/ENCAN670HFU/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF830JTI|/files/ENCFF830JTI/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 14240675 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting POLR2AphosphoS5-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 {ENCFF854PCK|/files/ENCFF854PCK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 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 {ENCFF854PCK|/files/ENCFF854PCK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.54. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF638SXR|/files/ENCFF638SXR/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 2.15 and a self consistency ratio of 1.05. 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: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BPL | float |
TF_ChIP-seq_ENCSR000BPL |
TF_ChIP-seq ENCSR000BPL [biosample_summary="Homo sapiens SK-N-MC" and target="POLR2AphosphoS5"]
|
|
[7.88, 536] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF638SXR.bed.gz | 528.63 KB | 816c44349ee70754d890a33e75d9f9cd |
| ENCFF638SXR.bed.gz.dvc | 100.0 B | 6417c5b0414634f8a23a1eb476016d96 |
| ENCFF638SXR.tabix.bed.gz | 400.05 KB | 04f5a247a78e84250a9816eae5c0b277 |
| ENCFF638SXR.tabix.bed.gz.dvc | 106.0 B | f0aec67cd189a50d2e2e4e2c20c230f4 |
| ENCFF638SXR.tabix.bed.gz.tbi | 160.38 KB | b0051e78b9d1b27b63d44476c5cde73a |
| ENCFF638SXR.tabix.bed.gz.tbi.dvc | 110.0 B | cd632f390673d79bc28d240e790723af |
| genomic_resource.yaml | 4.26 KB | ec93143689d9ae5daff4f09463c007a5 |
| genomic_resource_original.yaml | 4.16 KB | ec245143d910ad6c3877d98ec296fedf |
| statistics/ |