DNase-seq_ENCSR515DVK
DNase-seq ENCSR515DVK [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (38 years)"]
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| Id: | DNase-seq/ENCSR515DVK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR515DVK [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (38 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (38 years) output_type: peaks audit_warning: Alignment file {ENCFF649KVR|/files/ENCFF649KVR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 29795204 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 {ENCFF649KVR|/files/ENCFF649KVR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR515DVK | float |
DNase-seq_ENCSR515DVK |
DNase-seq ENCSR515DVK [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (38 years)"]
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[0.337, 29.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF819DSS.bed.gz | 304.8 KB | b0c95c477955deb0c8be9fede636224e |
| ENCFF819DSS.bed.gz.dvc | 100.0 B | f1a7bfd60e11f7acbe6c4088d80c1fc2 |
| ENCFF819DSS.tabix.bed.gz | 274.45 KB | f173d56a401617cf92d1e9993922c825 |
| ENCFF819DSS.tabix.bed.gz.dvc | 106.0 B | 3a32e171eaab17d5a7b2c30756e49b26 |
| ENCFF819DSS.tabix.bed.gz.tbi | 172.01 KB | 6ffd844b3df1a2f750816089b09be5ba |
| ENCFF819DSS.tabix.bed.gz.tbi.dvc | 110.0 B | 7b1f12489293b972efdbb0fc9b030deb |
| genomic_resource.yaml | 2.7 KB | c5b7132908469b29d2c691f53a8faed0 |
| genomic_resource_original.yaml | 2.59 KB | 175a5d5560f0808fa3c40f61763b557c |
| statistics/ |