TF_ChIP-seq_ENCSR000ALJ
TF_ChIP-seq ENCSR000ALJ [biosample_summary="Homo sapiens keratinocyte female" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000ALJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000ALJ [biosamplesummary="Homo sapiens keratinocyte female" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2, Rep 3 summary: female output_type: conservative IDR thresholded peaks audit_error: Processed alignments file {ENCFF012QCG|/files/ENCFF012QCG/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 4824171 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_error: Processed alignments file {ENCFF035SXH|/files/ENCFF035SXH/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 3833119 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_error: Processed alignments file {ENCFF756YJE|/files/ENCFF756YJE/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 2529297 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_internal_action: Released analysis {ENCAN431RTN|/analyses/ENCAN431RTN/} has in progress subobject document {ff88aa16-be9d-480c-9bdd-745949c896db|/documents/ff88aa16-be9d-480c-9bdd-745949c896db/} audit_internal_action: Released analysis {ENCAN431RTN|/analyses/ENCAN431RTN/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} 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 {ENCFF012QCG|/files/ENCFF012QCG/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF012QCG|/files/ENCFF012QCG/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.45. 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 {ENCFF756YJE|/files/ENCFF756YJE/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF756YJE|/files/ENCFF756YJE/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.69. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000ALJ | float |
TF_ChIP-seq_ENCSR000ALJ |
TF_ChIP-seq ENCSR000ALJ [biosample_summary="Homo sapiens keratinocyte female" and target="CTCF"]
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[2, 447] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF351YOQ.bed.gz | 670.69 KB | 3a1cc7e961c8f040a65bfb44c5428d8a |
| ENCFF351YOQ.bed.gz.dvc | 100.0 B | c2a5b9f90968138c183b5758c8b8aed3 |
| ENCFF351YOQ.tabix.bed.gz | 523.3 KB | c4e26b6ff40f75b718f3f0e3123587c2 |
| ENCFF351YOQ.tabix.bed.gz.dvc | 106.0 B | 8153d6559568445083518d445ec35b38 |
| ENCFF351YOQ.tabix.bed.gz.tbi | 260.1 KB | 10f2eb0a17fb4558e2c02c8565fc6900 |
| ENCFF351YOQ.tabix.bed.gz.tbi.dvc | 110.0 B | 55524db9e2dd10f0bd414c71ea0ad568 |
| genomic_resource.yaml | 5.58 KB | f58c148a3cc8880f7f4a08d0dd150fc7 |
| genomic_resource_original.yaml | 5.48 KB | ffcf54bf0370ff148145c054b57eb678 |
| statistics/ |