Resource
| Id | ATAC-seq/ENCSR400ISH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR400ISH [biosample_summary="Homo sapiens HG02571"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN375JVB|/analyses/ENCAN375JVB/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: NRF (Non Redundant Fraction) is equal to the result of the division of the number of reads after duplicates removal by the total number of reads. An NRF value < 0.7 is poor complexity, between 0.7 and 0.9 is moderate complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF030ITR|/files/ENCFF030ITR/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.803446. audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF030ITR|/files/ENCFF030ITR/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR400ISH | float |
ATAC-seq_ENCSR400ISH |
ATAC-seq ENCSR400ISH [biosample_summary="Homo sapiens HG02571"]
|
 |
[1.48, 31.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 42799686 | 1.33% | 80275 |
| chr1 | 3898469 | 1.57% | 7201 |
| chr2 | 3695770 | 1.53% | 7127 |
| chr3 | 3019873 | 1.52% | 5863 |
| chr4 | 2389141 | 1.26% | 4695 |
| chr5 | 2580938 | 1.42% | 5005 |
| chr6 | 2895401 | 1.70% | 5523 |
| chr7 | 2400284 | 1.51% | 4583 |
| chr8 | 2090174 | 1.44% | 4082 |
| chr9 | 1667266 | 1.20% | 3108 |
| chr10 | 2029854 | 1.52% | 3858 |
| chr11 | 2058813 | 1.52% | 3854 |
| chr12 | 2119943 | 1.59% | 3941 |
| chr13 | 1143611 | 1.00% | 2197 |
| chr14 | 1311103 | 1.22% | 2430 |
| chr15 | 1166448 | 1.14% | 2133 |
| chr16 | 1225112 | 1.36% | 2117 |
| chr17 | 1538158 | 1.85% | 2621 |
| chr18 | 941183 | 1.17% | 1842 |
| chr19 | 1287699 | 2.20% | 2020 |
| chr20 | 884811 | 1.37% | 1627 |
| chr21 | 430515 | 0.92% | 763 |
| chr22 | 570640 | 1.12% | 944 |
| chrX | 1454000 | 0.93% | 2739 |
| chrY | 480 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 80275 | 150 | 2818 | 533.16 | 432 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF781HFK.bed.gz | 3.09 MB | 19f19c48dbfa3bbfe257702a82ab78a9 |
| ENCFF781HFK.tabix.bed.gz | 898.46 KB | 2a34dca1f36296b45926e55ffb37b5b9 |
| ENCFF781HFK.tabix.bed.gz.tbi | 378.67 KB | f0d3074463f88b40eaf2a4477bea3026 |
| genomic_resource.yaml | 2.49 KB | f37e402ae55aabd26523cebb9a5518da |
| statistics/ |