DNase-seq_ENCSR856QJX
DNase-seq ENCSR856QJX [biosample_summary="Homo sapiens adrenal gland tissue male embryo (85 days)"]
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| Id: | DNase-seq/ENCSR856QJX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR856QJX [biosample_summary="Homo sapiens adrenal gland tissue male embryo (85 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (85 days) output_type: peaks audit_warning: Alignment file {ENCFF022KTP|/files/ENCFF022KTP/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 32314013 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 {ENCFF022KTP|/files/ENCFF022KTP/} 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_ENCSR856QJX | float |
DNase-seq_ENCSR856QJX |
DNase-seq ENCSR856QJX [biosample_summary="Homo sapiens adrenal gland tissue male embryo (85 days)"]
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[0.248, 10.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF744JJO.bed.gz | 428.0 KB | 8f488c5e079aa057cddecc756c7662db |
| ENCFF744JJO.bed.gz.dvc | 100.0 B | 62cb8a17b3b7b417387bb61ecb9a492f |
| ENCFF744JJO.tabix.bed.gz | 382.21 KB | 56e6198fbee3e0a0cf1567ad2be5c2fa |
| ENCFF744JJO.tabix.bed.gz.dvc | 106.0 B | 1e6454a0b6580b793e3c03b04e8eeba3 |
| ENCFF744JJO.tabix.bed.gz.tbi | 244.44 KB | 6786124a5f920497087de3ff9087ffd0 |
| ENCFF744JJO.tabix.bed.gz.tbi.dvc | 110.0 B | 8656624fa51ca5e34dcb602f28bd71c7 |
| genomic_resource.yaml | 2.66 KB | 45ec4565e06319b40b6b1743773910a7 |
| genomic_resource_original.yaml | 2.56 KB | 925e3ec5a0ade9883bfa5ad4c4553db4 |
| statistics/ |