DNase-seq_ENCSR000EKF
DNase-seq ENCSR000EKF [biosample_summary="Homo sapiens endothelial cell of umbilical vein newborn"]
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| Id: | DNase-seq/ENCSR000EKF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000EKF [biosample_summary="Homo sapiens endothelial cell of umbilical vein newborn"] |
| Description: |
status: released biological_replicates: Rep 1 summary: newborn output_type: peaks audit_internal_action: Released analysis {ENCAN390QWY|/analyses/ENCAN390QWY/} has in progress subobject document {2f35d34b-ff7c-4790-b888-2a2f90a0ed0f|/documents/2f35d34b-ff7c-4790-b888-2a2f90a0ed0f/} audit_warning: Alignment file {ENCFF091KTX|/files/ENCFF091KTX/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28233440 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 {ENCFF091KTX|/files/ENCFF091KTX/} processed by DNase-seq ENCODE4 v3.0.0 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_ENCSR000EKF | float |
DNase-seq_ENCSR000EKF |
DNase-seq ENCSR000EKF [biosample_summary="Homo sapiens endothelial cell of umbilical vein newborn"]
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[0.291, 19.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF833UNB.bed.gz | 486.6 KB | e5b8cba744aae4f6295600234b037dc8 |
| ENCFF833UNB.bed.gz.dvc | 100.0 B | 73ed5e8a9f52ecc0baa92044d419ca22 |
| ENCFF833UNB.tabix.bed.gz | 432.82 KB | 0c0a2135822484382543907be7094d53 |
| ENCFF833UNB.tabix.bed.gz.dvc | 106.0 B | 174d03a28c52a07cbeae22ab944b192f |
| ENCFF833UNB.tabix.bed.gz.tbi | 255.49 KB | 2dfb2dcb529fa76cc2df36ade0c3dcb4 |
| ENCFF833UNB.tabix.bed.gz.tbi.dvc | 110.0 B | acd9ffab0e92b56ec01ab2d2ed9562fb |
| genomic_resource.yaml | 2.99 KB | 2f638858edc5d6a5e6d041cdef996c9b |
| genomic_resource_original.yaml | 2.89 KB | d2424e510c6d44eea55e8500bed7b648 |
| statistics/ |