| Id: | DNase-seq/ENCSR724QTW |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR724QTW [biosample_summary="Homo sapiens stimulated activated CD4-positive, alpha-beta T cell male adult (42 years) treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (42 years) treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours output_type: peaks audit_warning: Alignment file {ENCFF482JGP|/files/ENCFF482JGP/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28190626 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 {ENCFF482JGP|/files/ENCFF482JGP/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.31. 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: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR724QTW | float |
DNase-seq_ENCSR724QTW |
DNase-seq ENCSR724QTW [biosample_summary="Homo sapiens stimulated activated CD4-positive, alpha-beta T cell male adult (42 years) treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours"]
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[0.427, 25.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF462CWQ.bed.gz | 334.25 KB | 99d6b8d8fb82ba8427b455840e2ff3a7 |
| ENCFF462CWQ.bed.gz.dvc | 100.0 B | 68f886a12839c7263e67a8ad61234268 |
| ENCFF462CWQ.tabix.bed.gz | 299.87 KB | 02e37986bd88c38fe691d43d04c4054e |
| ENCFF462CWQ.tabix.bed.gz.dvc | 106.0 B | 5ac41c00d862db0f52cf5d77abc6bf0e |
| ENCFF462CWQ.tabix.bed.gz.tbi | 182.64 KB | b37e268817498c2f17961570f14b9425 |
| ENCFF462CWQ.tabix.bed.gz.tbi.dvc | 110.0 B | e4c56fbed1464286b4fd69b3da828303 |
| genomic_resource.yaml | 3.59 KB | 92c047c1d31c7c8ee3b71406927a289f |
| genomic_resource_original.yaml | 3.31 KB | b0976f44e6c46957b435cc79fd6cc094 |
| statistics/ |