DNase-seq_ENCSR198JXW
DNase-seq ENCSR198JXW [biosample_summary="Homo sapiens muscle of leg tissue female embryo (85 days)"]
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| Id: | DNase-seq/ENCSR198JXW |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR198JXW [biosample_summary="Homo sapiens muscle of leg tissue female embryo (85 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (85 days) output_type: peaks audit_warning: Alignment file {ENCFF691HJH|/files/ENCFF691HJH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 33611194 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 {ENCFF691HJH|/files/ENCFF691HJH/} 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_ENCSR198JXW | float |
DNase-seq_ENCSR198JXW |
DNase-seq ENCSR198JXW [biosample_summary="Homo sapiens muscle of leg tissue female embryo (85 days)"]
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[0.239, 11.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF240TIB.bed.gz | 493.85 KB | 3869bea07e1431961a0dd039c4b4891c |
| ENCFF240TIB.bed.gz.dvc | 100.0 B | 5458bd3974a173230c0272611e4bb3e1 |
| ENCFF240TIB.tabix.bed.gz | 445.42 KB | 6660e94aea0a022cccc4d0a2a7d9efcd |
| ENCFF240TIB.tabix.bed.gz.dvc | 106.0 B | fbc73c9461c3145a3d248dd32ba2613d |
| ENCFF240TIB.tabix.bed.gz.tbi | 266.31 KB | d7f5c05cf6d37514e9f4d0b174ad86c8 |
| ENCFF240TIB.tabix.bed.gz.tbi.dvc | 110.0 B | b0e20a53f41734d91d115b29e4ecec43 |
| genomic_resource.yaml | 2.67 KB | f19e64523f9b5d9287b9e6f77180524a |
| genomic_resource_original.yaml | 2.56 KB | 6a0b80f0fa379abbddbb4a5987ef2728 |
| statistics/ |