TF_ChIP-seq_ENCSR000AHD
TF_ChIP-seq ENCSR000AHD [biosample_summary="Homo sapiens MCF-7" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000AHD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000AHD [biosamplesummary="Homo sapiens MCF-7" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN217XPR|/analyses/ENCAN217XPR/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF335UKS|/files/ENCFF335UKS/} processed by ChIP-seq ENCODE3 hg19 pipeline has 14296383 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 {ENCFF335UKS|/files/ENCFF335UKS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF335UKS|/files/ENCFF335UKS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.84. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000AHD | float |
TF_ChIP-seq_ENCSR000AHD |
TF_ChIP-seq ENCSR000AHD [biosample_summary="Homo sapiens MCF-7" and target="CTCF"]
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[4.52, 647] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF586KIH.bed.gz | 894.86 KB | 5a8e504b171a26058efc3a830eef1183 |
| ENCFF586KIH.bed.gz.dvc | 100.0 B | 66c6bc8fc0aec0e01b9b3c5727162d65 |
| ENCFF586KIH.tabix.bed.gz | 655.8 KB | 729b9a8c64dbc50558ae5eb012510f34 |
| ENCFF586KIH.tabix.bed.gz.dvc | 106.0 B | ca00f1ff060dcd3734a5fb41b08b086d |
| ENCFF586KIH.tabix.bed.gz.tbi | 341.75 KB | 89dcd898f0f9616cea8f48718f1d169b |
| ENCFF586KIH.tabix.bed.gz.tbi.dvc | 110.0 B | 3c2c865f9c5393f0b263beb71de628df |
| genomic_resource.yaml | 3.14 KB | d17a73b66037a0feb28650fbce3e904e |
| genomic_resource_original.yaml | 3.04 KB | 5ee0885abe73f5e13c8ca7c074fd74f8 |
| statistics/ |