TF_ChIP-seq_ENCSR418RRF
TF_ChIP-seq ENCSR418RRF [biosample_summary="Homo sapiens H1" and target="KDM1A"]
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| Id: | TF_ChIP-seq/ENCSR418RRF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR418RRF [biosamplesummary="Homo sapiens H1" and target="KDM1A"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN824WML|/analyses/ENCAN824WML/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_internal_action: File {ENCFF562OAN|/files/ENCFF562OAN/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. 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 {ENCFF098PQX|/files/ENCFF098PQX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF098PQX|/files/ENCFF098PQX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.93. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF439SAK|/files/ENCFF439SAK/}, {ENCFF339AAM|/files/ENCFF339AAM/} processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 1.55 and a self consistency ratio of 3.38. 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. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF562OAN|/files/ENCFF562OAN/}, {ENCFF412MLF|/files/ENCFF412MLF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 1.55 and a self consistency ratio of 3.38. 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_ENCSR418RRF | float |
TF_ChIP-seq_ENCSR418RRF |
TF_ChIP-seq ENCSR418RRF [biosample_summary="Homo sapiens H1" and target="KDM1A"]
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[8.09, 412] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF562OAN.bed.gz | 351.83 KB | 3a4ecb92e0a2dd51a44be48fae9384af |
| ENCFF562OAN.bed.gz.dvc | 100.0 B | b9ce34eb491106448a6e5e084f795876 |
| ENCFF562OAN.tabix.bed.gz | 281.15 KB | 1efe736cf3c06b9d0564cd8ec3efb7d4 |
| ENCFF562OAN.tabix.bed.gz.dvc | 106.0 B | ebcefa77d404b0be449fa06c7ca20628 |
| ENCFF562OAN.tabix.bed.gz.tbi | 134.82 KB | 28ba9dacc73be56525626a39c7e76be9 |
| ENCFF562OAN.tabix.bed.gz.tbi.dvc | 110.0 B | 487d932dfd08ee2f89998b145d8e4bc6 |
| genomic_resource.yaml | 3.96 KB | 1abbef9d748de8429f679ad8e984bccb |
| genomic_resource_original.yaml | 3.86 KB | 4fa88fd53140d17f9e96538bf777f290 |
| statistics/ |