DNase-seq_ENCSR588JXI
DNase-seq ENCSR588JXI [biosample_summary="Homo sapiens left renal cortex interstitium tissue male embryo (105 days)"]
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| Id: | DNase-seq/ENCSR588JXI |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR588JXI [biosample_summary="Homo sapiens left renal cortex interstitium tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF027HRH|/files/ENCFF027HRH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 37780261 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 {ENCFF027HRH|/files/ENCFF027HRH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.31. 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_ENCSR588JXI | float |
DNase-seq_ENCSR588JXI |
DNase-seq ENCSR588JXI [biosample_summary="Homo sapiens left renal cortex interstitium tissue male embryo (105 days)"]
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[0.213, 9.14] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF342FLC.bed.gz | 377.21 KB | 06014582660222c58db3375e92069689 |
| ENCFF342FLC.bed.gz.dvc | 100.0 B | e5d8604522adb0d611cd61369e50e706 |
| ENCFF342FLC.tabix.bed.gz | 350.15 KB | 809aa8b4e2779efe6bbe6bb81b8939b9 |
| ENCFF342FLC.tabix.bed.gz.dvc | 106.0 B | 0e7ec92db7d26f5e2619afc92653c6b3 |
| ENCFF342FLC.tabix.bed.gz.tbi | 182.46 KB | 401d5a42f7aefba96eef8049cf9ab12e |
| ENCFF342FLC.tabix.bed.gz.tbi.dvc | 110.0 B | 540a15792075f1e50e00f65089140c57 |
| genomic_resource.yaml | 2.72 KB | d812c503302a1340e292dfa20c3875d5 |
| genomic_resource_original.yaml | 2.6 KB | 191bfc4627fa06f9cfb3f0aefa429b2f |
| statistics/ |