Resource
| Id | DNase-seq/ENCSR759UNY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR759UNY [biosample_summary="Homo sapiens tongue tissue female embryo (59 days) and female embryo (76 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (59 days) female embryo (76 days) output_type: peaks 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 {ENCFF388YEP|/files/ENCFF388YEP/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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: 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 {ENCFF177QSE|/files/ENCFF177QSE/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.29. 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 |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR759UNY | float |
DNase-seq_ENCSR759UNY |
DNase-seq ENCSR759UNY [biosample_summary="Homo sapiens tongue tissue female embryo (59 days) and female embryo (76 days)"]
|
 |
[0.0209, 18.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 49873254 | 1.55% | 234128 |
| chr1 | 4432359 | 1.78% | 20558 |
| chr2 | 4139243 | 1.71% | 19491 |
| chr3 | 3254984 | 1.64% | 15242 |
| chr4 | 2605099 | 1.37% | 12292 |
| chr5 | 2787127 | 1.54% | 13028 |
| chr6 | 3054043 | 1.79% | 14205 |
| chr7 | 2527790 | 1.59% | 11998 |
| chr8 | 2362481 | 1.63% | 11081 |
| chr9 | 2158479 | 1.56% | 10107 |
| chr10 | 2589138 | 1.94% | 12051 |
| chr11 | 2493189 | 1.85% | 11768 |
| chr12 | 2378656 | 1.78% | 11136 |
| chr13 | 1461834 | 1.28% | 6824 |
| chr14 | 1653689 | 1.54% | 7659 |
| chr15 | 1622420 | 1.59% | 7645 |
| chr16 | 1540623 | 1.71% | 7353 |
| chr17 | 1996752 | 2.40% | 9389 |
| chr18 | 1164127 | 1.45% | 5502 |
| chr19 | 1402667 | 2.39% | 6537 |
| chr20 | 1297061 | 2.01% | 6163 |
| chr21 | 639268 | 1.37% | 2988 |
| chr22 | 883738 | 1.74% | 4183 |
| chrX | 1427325 | 0.91% | 6920 |
| chrY | 1162 | <0.01% | 8 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 234128 | 1 | 1080 | 213.02 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF804XTZ.bed.gz | 2.47 MB | e9f9984a73c39f6eb08da053d7434015 |
| ENCFF804XTZ.tabix.bed.gz | 2.28 MB | 014cd668f571df6ceb49e9e684de4d4c |
| ENCFF804XTZ.tabix.bed.gz.tbi | 700.29 KB | 4bd125e39b0ce21a2f60abefd7f8dcd9 |
| genomic_resource.yaml | 2.98 KB | d828071b84d8a7763f6a7d291996f7c5 |
| statistics/ |