DNase-seq_ENCSR000EMM
DNase-seq ENCSR000EMM [biosample_summary="Homo sapiens naive thymus-derived CD4-positive, alpha-beta T cell female adult (35 years)"]
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| Id: | DNase-seq/ENCSR000EMM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000EMM [biosample_summary="Homo sapiens naive thymus-derived CD4-positive, alpha-beta T cell female adult (35 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (35 years) output_type: peaks audit_error: Alignment file {ENCFF252OHE|/files/ENCFF252OHE/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 19615721 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_error: 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 {ENCFF252OHE|/files/ENCFF252OHE/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.23. 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_ENCSR000EMM | float |
DNase-seq_ENCSR000EMM |
DNase-seq ENCSR000EMM [biosample_summary="Homo sapiens naive thymus-derived CD4-positive, alpha-beta T cell female adult (35 years)"]
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[0.358, 17] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF191VQI.bed.gz | 197.43 KB | 9644eb24959b70108a24946f8002310e |
| ENCFF191VQI.bed.gz.dvc | 100.0 B | 11098108021068ff7b092a61903b23dd |
| ENCFF191VQI.tabix.bed.gz | 176.28 KB | 7a3faa0226359d8ecb587b46987ba4b8 |
| ENCFF191VQI.tabix.bed.gz.dvc | 106.0 B | ded72fdaa6b4cf27ca2372299e8dbaab |
| ENCFF191VQI.tabix.bed.gz.tbi | 134.58 KB | 2fe80e8db204ea22d9901cdbb8003e88 |
| ENCFF191VQI.tabix.bed.gz.tbi.dvc | 110.0 B | 444cccf63cb924adc065c603fd98a204 |
| genomic_resource.yaml | 2.76 KB | 365a5e4297a9fb9e8da3e8df74e11eba |
| genomic_resource_original.yaml | 2.63 KB | 39e235a3f4261ccda990b177787e8a5a |
| statistics/ |