DNase-seq_ENCSR974TXT
DNase-seq ENCSR974TXT [biosample_summary="Homo sapiens left kidney tissue female embryo (110 days)"]
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| Id: | DNase-seq/ENCSR974TXT |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR974TXT [biosample_summary="Homo sapiens left kidney tissue female embryo (110 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (110 days) output_type: peaks audit_warning: Alignment file {ENCFF359EXU|/files/ENCFF359EXU/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 34718490 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 {ENCFF359EXU|/files/ENCFF359EXU/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR974TXT | float |
DNase-seq_ENCSR974TXT |
DNase-seq ENCSR974TXT [biosample_summary="Homo sapiens left kidney tissue female embryo (110 days)"]
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[0.231, 8.18] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF774RGC.bed.gz | 390.6 KB | ffc021fb89199bd60ec82f008d013c43 |
| ENCFF774RGC.bed.gz.dvc | 100.0 B | 94d4fa2c441d29b1440781178b331212 |
| ENCFF774RGC.tabix.bed.gz | 360.49 KB | 740f5b33d246e95aea80bf0fdbc477ef |
| ENCFF774RGC.tabix.bed.gz.dvc | 106.0 B | 01f0889ff16b5877948592ad987ed2ee |
| ENCFF774RGC.tabix.bed.gz.tbi | 194.41 KB | 6eaa769cd9803ab606eb66bf814cc884 |
| ENCFF774RGC.tabix.bed.gz.tbi.dvc | 110.0 B | 9c72bcd8dffc752fb528b212637747f7 |
| genomic_resource.yaml | 2.67 KB | 84e3557a8febc527809667c137f061fd |
| genomic_resource_original.yaml | 2.56 KB | 32a57c1366d64a2f99748bdfcffdae59 |
| statistics/ |