TF_ChIP-seq_ENCSR000DPP
TF_ChIP-seq ENCSR000DPP [biosample_summary="Homo sapiens AG09309" and target="CTCF"]
×
| Id: | TF_ChIP-seq/ENCSR000DPP |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DPP [biosamplesummary="Homo sapiens AG09309" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN541RHH|/analyses/ENCAN541RHH/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF217RCW|/files/ENCFF217RCW/} processed by ChIP-seq ENCODE3 hg19 pipeline has 8908568 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 {ENCFF004OMB|/files/ENCFF004OMB/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11618596 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 {ENCFF004OMB|/files/ENCFF004OMB/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF004OMB|/files/ENCFF004OMB/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.44. |
| Labels: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DPP | float |
TF_ChIP-seq_ENCSR000DPP |
TF_ChIP-seq ENCSR000DPP [biosample_summary="Homo sapiens AG09309" and target="CTCF"]
|
|
[3.65, 469] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF622DUX.bed.gz | 694.54 KB | 0d3d0dc20ceb418bf2381474049dad66 |
| ENCFF622DUX.bed.gz.dvc | 100.0 B | 34e2bfcc96ac6d69338986777cb43bc6 |
| ENCFF622DUX.tabix.bed.gz | 529.99 KB | c79653794e79aa3df590b232b5f37712 |
| ENCFF622DUX.tabix.bed.gz.dvc | 106.0 B | 965f20e02891d8950611632d514377b0 |
| ENCFF622DUX.tabix.bed.gz.tbi | 279.02 KB | 07e8d655742ee828a4dd8ffcd049bc4d |
| ENCFF622DUX.tabix.bed.gz.tbi.dvc | 110.0 B | 5128860bead5bcd4136d319c08b3b8e8 |
| genomic_resource.yaml | 3.94 KB | 7278a58a83a5e00d58a6895ef0fe0c72 |
| genomic_resource_original.yaml | 3.84 KB | 4ca41f4006c47c11ff2b2e2f5c391c50 |
| statistics/ |