DNase-seq_ENCSR278FHC
DNase-seq ENCSR278FHC [biosample_summary="Homo sapiens testis tissue male embryo"]
×
| Id: | DNase-seq/ENCSR278FHC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR278FHC [biosample_summary="Homo sapiens testis tissue male embryo"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo output_type: peaks audit_warning: Alignment file {ENCFF771NTS|/files/ENCFF771NTS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 25806247 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 {ENCFF771NTS|/files/ENCFF771NTS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR278FHC | float |
DNase-seq_ENCSR278FHC |
DNase-seq ENCSR278FHC [biosample_summary="Homo sapiens testis tissue male embryo"]
|
|
[0.272, 30] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF320BJH.bed.gz | 454.89 KB | f834232860f2deec79e7b24aac5d425e |
| ENCFF320BJH.bed.gz.dvc | 100.0 B | 3ee71e0372abe7687cc05e3e5da297c0 |
| ENCFF320BJH.tabix.bed.gz | 405.87 KB | 3e55d6cc369321246100880113e624bb |
| ENCFF320BJH.tabix.bed.gz.dvc | 106.0 B | 2acc47229c481ee8aa2d8ea65b7ca1c3 |
| ENCFF320BJH.tabix.bed.gz.tbi | 253.1 KB | 4234a39bd2e8f7c41058b3005a8346bf |
| ENCFF320BJH.tabix.bed.gz.tbi.dvc | 110.0 B | e7b045ea7a9fe27c819f74e872acaecf |
| genomic_resource.yaml | 2.59 KB | 12a9ee2f0a9ea2bf174205c62eb06711 |
| genomic_resource_original.yaml | 2.5 KB | 3c82226140a3dbfd9602ddf9c9d3c2d7 |
| statistics/ |