DNase-seq_ENCSR261SMF
DNase-seq ENCSR261SMF [biosample_summary="Homo sapiens iPS DF 6.9"]
×
| Id: | DNase-seq/ENCSR261SMF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR261SMF [biosample_summary="Homo sapiens iPS DF 6.9"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_warning: Alignment file {ENCFF123FCM|/files/ENCFF123FCM/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 22082019 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 {ENCFF123FCM|/files/ENCFF123FCM/} 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: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR261SMF | float |
DNase-seq_ENCSR261SMF |
DNase-seq ENCSR261SMF [biosample_summary="Homo sapiens iPS DF 6.9"]
|
|
[0.318, 11] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF668UYX.bed.gz | 417.94 KB | 4dced2e7d5f92207c41578234677487f |
| ENCFF668UYX.bed.gz.dvc | 100.0 B | 8038178d46aacf91ea23a842fdebf1a1 |
| ENCFF668UYX.tabix.bed.gz | 367.42 KB | b8b77c56b95058d184d23cf5e91e71fb |
| ENCFF668UYX.tabix.bed.gz.dvc | 106.0 B | d05377149050591692727eddeb8d77bb |
| ENCFF668UYX.tabix.bed.gz.tbi | 266.7 KB | 89a7e925ad10b90d6f708da80e9b69c6 |
| ENCFF668UYX.tabix.bed.gz.tbi.dvc | 110.0 B | 5026a3b99b487b48f851436bacd11981 |
| genomic_resource.yaml | 2.57 KB | 065d93372458415ac00eadc6b060fb32 |
| genomic_resource_original.yaml | 2.5 KB | f6018dd91490e910d7087cf4ec337566 |
| statistics/ |