DNase-seq_ENCSR188JLO
DNase-seq ENCSR188JLO [biosample_summary="Homo sapiens small intestine tissue male embryo (105 days)"]
×
| Id: | DNase-seq/ENCSR188JLO |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR188JLO [biosample_summary="Homo sapiens small intestine tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks 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 {ENCFF395WTZ|/files/ENCFF395WTZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.24. 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/}) audit_warning: Alignment file {ENCFF395WTZ|/files/ENCFF395WTZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 39925715 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/}) |
| Labels: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR188JLO | float |
DNase-seq_ENCSR188JLO |
DNase-seq ENCSR188JLO [biosample_summary="Homo sapiens small intestine tissue male embryo (105 days)"]
|
|
[0.201, 13.2] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF630RAO.bed.gz | 424.76 KB | 5da7bcc87a78d159b55c5fc96868e8c0 |
| ENCFF630RAO.bed.gz.dvc | 100.0 B | 5880914cb82d33a32869726b6ab84759 |
| ENCFF630RAO.tabix.bed.gz | 379.29 KB | aefb7c59b65e9e2bc4ba38b4d9020e22 |
| ENCFF630RAO.tabix.bed.gz.dvc | 106.0 B | 167869e5478a6ebdeee602964c61beaf |
| ENCFF630RAO.tabix.bed.gz.tbi | 238.61 KB | bd355c5fbcf2348d3813f5c0f80f1ae8 |
| ENCFF630RAO.tabix.bed.gz.tbi.dvc | 110.0 B | 47a8fd98a90d66224ea0d3bbad7e0d41 |
| genomic_resource.yaml | 2.67 KB | 24a523aa4ca5c5acb88523aab9352606 |
| genomic_resource_original.yaml | 2.56 KB | ee924c2d79639df121184768eeaa34ff |
| statistics/ |