Resource
| Id | DNase-seq/ENCSR541AVF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR541AVF [biosample_summary="Homo sapiens left lung tissue female embryo (117 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (117 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN283BQK|/analyses/ENCAN283BQK/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF428XKG|/files/ENCFF428XKG/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35679143 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 {ENCFF507MMD|/files/ENCFF507MMD/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35443124 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR541AVF | float |
DNase-seq_ENCSR541AVF |
DNase-seq ENCSR541AVF [biosample_summary="Homo sapiens left lung tissue female embryo (117 days)"]
|
 |
[3, 584] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14765574 | 0.46% | 98107 |
| chr1 | 1317034 | 0.53% | 8759 |
| chr2 | 1228671 | 0.51% | 8163 |
| chr3 | 1002518 | 0.51% | 6650 |
| chr4 | 793245 | 0.42% | 5267 |
| chr5 | 864992 | 0.48% | 5743 |
| chr6 | 906743 | 0.53% | 6026 |
| chr7 | 776474 | 0.49% | 5153 |
| chr8 | 708392 | 0.49% | 4710 |
| chr9 | 612037 | 0.44% | 4068 |
| chr10 | 730540 | 0.55% | 4855 |
| chr11 | 736134 | 0.54% | 4893 |
| chr12 | 718314 | 0.54% | 4776 |
| chr13 | 443243 | 0.39% | 2941 |
| chr14 | 461984 | 0.43% | 3070 |
| chr15 | 469332 | 0.46% | 3118 |
| chr16 | 429426 | 0.48% | 2850 |
| chr17 | 550859 | 0.66% | 3667 |
| chr18 | 357548 | 0.44% | 2379 |
| chr19 | 449980 | 0.77% | 2996 |
| chr20 | 362194 | 0.56% | 2413 |
| chr21 | 166437 | 0.36% | 1108 |
| chr22 | 232289 | 0.46% | 1544 |
| chrX | 446288 | 0.29% | 2952 |
| chrY | 900 | <0.01% | 6 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 98107 | 13 | 450 | 150.5 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF690UKD.bed.gz | 952.4 KB | 6a03d7e55da2e497e10db0fc0b96f927 |
| ENCFF690UKD.tabix.bed.gz | 817.8 KB | 6b7a62047dd6d7f9a7365f61946f41f6 |
| ENCFF690UKD.tabix.bed.gz.tbi | 473.29 KB | beed2d5abcd63beb06bf962807ebe515 |
| genomic_resource.yaml | 2.59 KB | 3416dd7eef62dc1a7572db38130dd010 |
| statistics/ |