TF_ChIP-seq_ENCSR000BVN
TF_ChIP-seq ENCSR000BVN [biosample_summary="Homo sapiens HepG2" and target="ZEB1"]
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| Id: | TF_ChIP-seq/ENCSR000BVN |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000BVN [biosamplesummary="Homo sapiens HepG2" and target="ZEB1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN319EUY|/analyses/ENCAN319EUY/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_not_compliant: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF060IPX|/files/ENCFF060IPX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 2.35 and a self consistency ratio of 5.48. 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: Processed alignments file {ENCFF868KWA|/files/ENCFF868KWA/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19856716 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZEB1-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 {ENCFF123KTU|/files/ENCFF123KTU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 16938731 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZEB1-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 {ENCFF123KTU|/files/ENCFF123KTU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 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 {ENCFF123KTU|/files/ENCFF123KTU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.67. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BVN | float |
TF_ChIP-seq_ENCSR000BVN |
TF_ChIP-seq ENCSR000BVN [biosample_summary="Homo sapiens HepG2" and target="ZEB1"]
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[5.49, 482] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF060IPX.bed.gz | 258.33 KB | dcef0dbdc070846899e7abb61497f8d1 |
| ENCFF060IPX.bed.gz.dvc | 100.0 B | 2f7520e99f151133506f3f4d9c47a25a |
| ENCFF060IPX.tabix.bed.gz | 194.73 KB | ffdf2189c958073262f188369de55929 |
| ENCFF060IPX.tabix.bed.gz.dvc | 106.0 B | aae8907b0081a904c18fe3aeb553faf3 |
| ENCFF060IPX.tabix.bed.gz.tbi | 88.25 KB | e0281d53049506d31b5ee5951780cc60 |
| ENCFF060IPX.tabix.bed.gz.tbi.dvc | 109.0 B | e6da3086bd3cac2b830d046a9aa48c73 |
| genomic_resource.yaml | 4.2 KB | ec2b3d4b56aa31d1c6b2d06928013399 |
| genomic_resource_original.yaml | 4.11 KB | a4d9489a669e67be24142d0c10528b86 |
| statistics/ |