DNase-seq_ENCSR082JCE
DNase-seq ENCSR082JCE [biosample_summary="Homo sapiens kidney tissue female embryo (121 days)"]
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| Id: | DNase-seq/ENCSR082JCE |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR082JCE [biosample_summary="Homo sapiens kidney tissue female embryo (121 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (121 days) output_type: peaks audit_warning: Alignment file {ENCFF250ZEN|/files/ENCFF250ZEN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 26118018 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) audit_warning: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF250ZEN|/files/ENCFF250ZEN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR082JCE | float |
DNase-seq_ENCSR082JCE |
DNase-seq ENCSR082JCE [biosample_summary="Homo sapiens kidney tissue female embryo (121 days)"]
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[0.308, 19.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF410WHC.bed.gz | 448.17 KB | ede7ecbf16d0318e2ef3c363bc32b517 |
| ENCFF410WHC.bed.gz.dvc | 100.0 B | 332ea177956469c314aad893562edc38 |
| ENCFF410WHC.tabix.bed.gz | 396.19 KB | 86f69e8a9dbe6817c43b9b27c11c7d1b |
| ENCFF410WHC.tabix.bed.gz.dvc | 106.0 B | 6b468cf3a362936ebdc3c2d8da0f9288 |
| ENCFF410WHC.tabix.bed.gz.tbi | 259.03 KB | 7b139291b9d418cb4ce82172d9c27ccf |
| ENCFF410WHC.tabix.bed.gz.tbi.dvc | 110.0 B | de53206a8e19a8981feb50eb96710b21 |
| genomic_resource.yaml | 2.65 KB | 998ce3ec8bd82a337ee090ff795ece11 |
| genomic_resource_original.yaml | 2.55 KB | 359b90f6b17a2526d818a71b358744be |
| statistics/ |