DNase-seq_ENCSR679IFH
DNase-seq ENCSR679IFH [biosample_summary="Homo sapiens spleen tissue embryo (112 days)"]
×
| Id: | DNase-seq/ENCSR679IFH |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR679IFH [biosample_summary="Homo sapiens spleen tissue embryo (112 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: embryo (112 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN893QMM|/analyses/ENCAN893QMM/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF898APF|/files/ENCFF898APF/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 28411299 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/}) audit_warning: Alignment file {ENCFF701NOD|/files/ENCFF701NOD/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 28196873 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/}) 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 {ENCFF701NOD|/files/ENCFF701NOD/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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/}) |
| Labels: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR679IFH | float |
DNase-seq_ENCSR679IFH |
DNase-seq ENCSR679IFH [biosample_summary="Homo sapiens spleen tissue embryo (112 days)"]
|
|
[3, 1.64e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF376YIY.bed.gz | 661.1 KB | adc8b41a68ad1d4948bad23a186ef132 |
| ENCFF376YIY.bed.gz.dvc | 100.0 B | dfcac88ecec3d6cac8b7ada1e3028716 |
| ENCFF376YIY.tabix.bed.gz | 565.13 KB | 89e431f2c83dc6a0aeda77f54b24047e |
| ENCFF376YIY.tabix.bed.gz.dvc | 106.0 B | c28f5c7cd9b950d76e895d6f2bc691ed |
| ENCFF376YIY.tabix.bed.gz.tbi | 369.95 KB | bb2094512054b361307d81688dd0b23d |
| ENCFF376YIY.tabix.bed.gz.tbi.dvc | 110.0 B | cab9ca2a35d6e11d5b4f5559593f0490 |
| genomic_resource.yaml | 3.35 KB | 516c83bdc299dc014385000c65820ef7 |
| genomic_resource_original.yaml | 3.26 KB | a48455e601d259321834d91b14cf33dc |
| statistics/ |