DNase-seq_ENCSR536NGW
DNase-seq ENCSR536NGW [biosample_summary="Homo sapiens heart tissue male embryo (96 days)"]
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| Id: | DNase-seq/ENCSR536NGW |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR536NGW [biosample_summary="Homo sapiens heart tissue male embryo (96 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (96 days) output_type: peaks audit_warning: Replicate 1_3 has no significant footprints detected. audit_warning: Alignment file {ENCFF495CNT|/files/ENCFF495CNT/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 24963696 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 {ENCFF495CNT|/files/ENCFF495CNT/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.39. 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_ENCSR536NGW | float |
DNase-seq_ENCSR536NGW |
DNase-seq ENCSR536NGW [biosample_summary="Homo sapiens heart tissue male embryo (96 days)"]
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[0.373, 10.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF227DNW.bed.gz | 179.54 KB | 4b785ea051c340d3100ef231f93b51da |
| ENCFF227DNW.bed.gz.dvc | 100.0 B | 5630550dfdd45ca5faddfd6e7480cc42 |
| ENCFF227DNW.tabix.bed.gz | 163.46 KB | 0b3592e142dff00d8425fcd8dde2c8b5 |
| ENCFF227DNW.tabix.bed.gz.dvc | 106.0 B | 5c3ab5e3e7d8263f2a4564e3fae4cafd |
| ENCFF227DNW.tabix.bed.gz.tbi | 100.42 KB | 17fa49f6babdba65a967977c3dd0a5cb |
| ENCFF227DNW.tabix.bed.gz.tbi.dvc | 110.0 B | 3a98ac9774fd6b9e61bc214d522cd9b5 |
| genomic_resource.yaml | 2.71 KB | 3055905c6bf8ed92aa5cfadbe50de0fe |
| genomic_resource_original.yaml | 2.62 KB | ae8b369347947e19a7a86ec3ae6ab037 |
| statistics/ |