DNase-seq_ENCSR949JYS
DNase-seq ENCSR949JYS [biosample_summary="Homo sapiens muscle of arm tissue male embryo (105 days)"]
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| Id: | DNase-seq/ENCSR949JYS |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR949JYS [biosample_summary="Homo sapiens muscle of arm tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN561IBI|/analyses/ENCAN561IBI/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF641FDH|/files/ENCFF641FDH/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35625295 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 {ENCFF999DLM|/files/ENCFF999DLM/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35394128 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 {ENCFF999DLM|/files/ENCFF999DLM/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR949JYS | float |
DNase-seq_ENCSR949JYS |
DNase-seq ENCSR949JYS [biosample_summary="Homo sapiens muscle of arm tissue male embryo (105 days)"]
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[3, 482] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF308QRZ.bed.gz | 690.74 KB | 6233f56e2da721d8672fd7af49691667 |
| ENCFF308QRZ.bed.gz.dvc | 100.0 B | 7f2fa631979fd00e2f946793b56ab9e5 |
| ENCFF308QRZ.tabix.bed.gz | 591.58 KB | 77b89258c7d7418d7de88d8500a9540c |
| ENCFF308QRZ.tabix.bed.gz.dvc | 106.0 B | 36baa9e6025ba4ec048d72407ac92c6c |
| ENCFF308QRZ.tabix.bed.gz.tbi | 327.92 KB | 9cf790eee6f6d2cb3933fc67cca1f3d6 |
| ENCFF308QRZ.tabix.bed.gz.tbi.dvc | 110.0 B | 2840c5d8775f870358d0a9a10329c08d |
| genomic_resource.yaml | 3.4 KB | b203ce850d9d36fc827248b1d11a5708 |
| genomic_resource_original.yaml | 3.3 KB | cf0a2baf376da73faa83223a6c2cf0ab |
| statistics/ |