DNase-seq_ENCSR887BNC
DNase-seq ENCSR887BNC [biosample_summary="Homo sapiens right renal cortex interstitium tissue male embryo (120 days)"]
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| Id: | DNase-seq/ENCSR887BNC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR887BNC [biosample_summary="Homo sapiens right renal cortex interstitium tissue male embryo (120 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (120 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN942ASR|/analyses/ENCAN942ASR/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF886LAG|/files/ENCFF886LAG/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 28066043 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 {ENCFF967YWH|/files/ENCFF967YWH/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 27874865 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 {ENCFF967YWH|/files/ENCFF967YWH/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) 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/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR887BNC | float |
DNase-seq_ENCSR887BNC |
DNase-seq ENCSR887BNC [biosample_summary="Homo sapiens right renal cortex interstitium tissue male embryo (120 days)"]
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[3, 391] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF883JEC.bed.gz | 717.79 KB | 5fee8c32b8fab202fb4704e56a23a1dc |
| ENCFF883JEC.bed.gz.dvc | 100.0 B | 0e920921b6150b98488a0fbee2a3247b |
| ENCFF883JEC.tabix.bed.gz | 614.25 KB | 885e37ef9a99c9e5fccab5f77ffaf6c7 |
| ENCFF883JEC.tabix.bed.gz.dvc | 106.0 B | 94da0c1121c63ff8a8698ffbc21614c7 |
| ENCFF883JEC.tabix.bed.gz.tbi | 381.33 KB | e10a1e828abefade42e9a008dc85b888 |
| ENCFF883JEC.tabix.bed.gz.tbi.dvc | 110.0 B | da04178b74f85fcd7b1fd949deb7376b |
| genomic_resource.yaml | 3.46 KB | 16f776daa070590ba7e70b7caee15beb |
| genomic_resource_original.yaml | 3.34 KB | 5a9a1c4607cebfba95c2c4ef16f0fea4 |
| statistics/ |