DNase-seq_ENCSR723JLG
DNase-seq ENCSR723JLG [biosample_summary="Homo sapiens natural killer cell female adult (34 years)"]
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| Id: | DNase-seq/ENCSR723JLG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR723JLG [biosample_summary="Homo sapiens natural killer cell female adult (34 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (34 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN805CWU|/analyses/ENCAN805CWU/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF559IYX|/files/ENCFF559IYX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 34817481 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/}) audit_warning: Alignment file {ENCFF368ONB|/files/ENCFF368ONB/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 34533807 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/}) 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 {ENCFF368ONB|/files/ENCFF368ONB/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) 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/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR723JLG | float |
DNase-seq_ENCSR723JLG |
DNase-seq ENCSR723JLG [biosample_summary="Homo sapiens natural killer cell female adult (34 years)"]
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[5, 792] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF897BWP.bed.gz | 549.16 KB | efae57192b49622ad76bd3728ad6c18e |
| ENCFF897BWP.bed.gz.dvc | 100.0 B | 0900fcb547b60a4743831da3d5e8059f |
| ENCFF897BWP.tabix.bed.gz | 472.5 KB | ecd1cbdb9d95772003faff0f8c89fb5f |
| ENCFF897BWP.tabix.bed.gz.dvc | 106.0 B | 41bbe5a848f8709cdd34658da1df076b |
| ENCFF897BWP.tabix.bed.gz.tbi | 273.92 KB | c5ff45001c55e11254a3a4e286b6dbd2 |
| ENCFF897BWP.tabix.bed.gz.tbi.dvc | 110.0 B | 4e1f3e33b4c1fc37e5b6d92a56816ca3 |
| genomic_resource.yaml | 3.4 KB | db758d50734d80bf23ac0ec9b5ea5951 |
| genomic_resource_original.yaml | 3.3 KB | 7259c2c5a10414ab1109dcd3c60e79b1 |
| statistics/ |