Resource
| Id | ATAC-seq/ENCSR641KNU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR641KNU [biosample_summary="Homo sapiens GM21825"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN895KSJ|/analyses/ENCAN895KSJ/} 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 {ENCFF512LHW|/files/ENCFF512LHW/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.891091. 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 {ENCFF512LHW|/files/ENCFF512LHW/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.90. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR641KNU | float |
ATAC-seq_ENCSR641KNU |
ATAC-seq ENCSR641KNU [biosample_summary="Homo sapiens GM21825"]
|
 |
[1.45, 41.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 51066156 | 1.59% | 98313 |
| chr1 | 4622656 | 1.86% | 8724 |
| chr2 | 4329607 | 1.79% | 8565 |
| chr3 | 3511363 | 1.77% | 6994 |
| chr4 | 2736565 | 1.44% | 5556 |
| chr5 | 3010263 | 1.66% | 6004 |
| chr6 | 3423568 | 2.00% | 6679 |
| chr7 | 2808241 | 1.76% | 5529 |
| chr8 | 2450827 | 1.69% | 4907 |
| chr9 | 2028042 | 1.47% | 3899 |
| chr10 | 2481640 | 1.85% | 4799 |
| chr11 | 2439319 | 1.81% | 4682 |
| chr12 | 2527658 | 1.90% | 4808 |
| chr13 | 1350032 | 1.18% | 2663 |
| chr14 | 1587815 | 1.48% | 2960 |
| chr15 | 1518841 | 1.49% | 2870 |
| chr16 | 1533508 | 1.70% | 2720 |
| chr17 | 1913301 | 2.30% | 3350 |
| chr18 | 1122589 | 1.40% | 2312 |
| chr19 | 1557985 | 2.66% | 2498 |
| chr20 | 1133197 | 1.76% | 2198 |
| chr21 | 532319 | 1.14% | 975 |
| chr22 | 749360 | 1.47% | 1274 |
| chrX | 1696755 | 1.09% | 3344 |
| chrY | 705 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 98313 | 150 | 2844 | 519.42 | 421 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF312JVA.bed.gz | 3.67 MB | 37dcd848363536da57f2fb75004b1338 |
| ENCFF312JVA.tabix.bed.gz | 1.07 MB | adfcc59aa7a4efc345a6202bd6305daf |
| ENCFF312JVA.tabix.bed.gz.tbi | 429.81 KB | 7f0626e876dbfef38aeba0a88e42d703 |
| genomic_resource.yaml | 2.49 KB | 136e6e5258e1646e6f5cb8e00e775776 |
| statistics/ |