DNase-seq_ENCSR860NDZ
DNase-seq ENCSR860NDZ [biosample_summary="Homo sapiens small intestine tissue female embryo (105 days)"]
×
| Id: | DNase-seq/ENCSR860NDZ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR860NDZ [biosample_summary="Homo sapiens small intestine tissue female embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF764WEH|/files/ENCFF764WEH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 39579658 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 {ENCFF764WEH|/files/ENCFF764WEH/} 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_ENCSR860NDZ | float |
DNase-seq_ENCSR860NDZ |
DNase-seq ENCSR860NDZ [biosample_summary="Homo sapiens small intestine tissue female embryo (105 days)"]
|
|
[0.203, 16.8] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF642RJM.bed.gz | 718.25 KB | 1b31fbcf0174b0398e650ec1d6a55f3b |
| ENCFF642RJM.bed.gz.dvc | 100.0 B | 428f4f929802fd8b71b12a3b2f3702ba |
| ENCFF642RJM.tabix.bed.gz | 639.7 KB | 3f1688f64cf1d25e388465552efdc3dc |
| ENCFF642RJM.tabix.bed.gz.dvc | 106.0 B | e2b5e731cdfdbb2049c9274a5ec64ecb |
| ENCFF642RJM.tabix.bed.gz.tbi | 355.75 KB | 5039a780da1ed5f7a525d878fb5806f4 |
| ENCFF642RJM.tabix.bed.gz.tbi.dvc | 110.0 B | 8b1983a4ae61df8a19f4410f35d02e89 |
| genomic_resource.yaml | 2.68 KB | 1e5d231e1ff2f0b09aa9f560fa8a81e3 |
| genomic_resource_original.yaml | 2.57 KB | 8994e161c4f17adb5a7f98ef4f712718 |
| statistics/ |