Resource
| Id | ATAC-seq/ENCSR376YMU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR376YMU [biosample_summary="Homo sapiens HG03439"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN593KEC|/analyses/ENCAN593KEC/} has in progress subobject document {e7fa7f12-9fec-45dc-a526-b595554d5069|/documents/e7fa7f12-9fec-45dc-a526-b595554d5069/} audit_internal_action: Released analysis {ENCAN593KEC|/analyses/ENCAN593KEC/} 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 {ENCFF326QXM|/files/ENCFF326QXM/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.888688. 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 {ENCFF326QXM|/files/ENCFF326QXM/} 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_ENCSR376YMU | float |
ATAC-seq_ENCSR376YMU |
ATAC-seq ENCSR376YMU [biosample_summary="Homo sapiens HG03439"]
|
 |
[1.46, 27.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 48415055 | 1.50% | 87818 |
| chr1 | 4370579 | 1.76% | 7786 |
| chr2 | 4150107 | 1.71% | 7754 |
| chr3 | 3355842 | 1.69% | 6340 |
| chr4 | 2728058 | 1.43% | 5349 |
| chr5 | 2889389 | 1.59% | 5433 |
| chr6 | 3220733 | 1.89% | 5870 |
| chr7 | 2703147 | 1.70% | 5048 |
| chr8 | 2385907 | 1.64% | 4487 |
| chr9 | 1956221 | 1.41% | 3555 |
| chr10 | 2268720 | 1.70% | 4181 |
| chr11 | 2287715 | 1.69% | 4100 |
| chr12 | 2429672 | 1.82% | 4328 |
| chr13 | 1376521 | 1.20% | 2601 |
| chr14 | 1527495 | 1.43% | 2683 |
| chr15 | 1337817 | 1.31% | 2356 |
| chr16 | 1404117 | 1.55% | 2316 |
| chr17 | 1778599 | 2.14% | 2894 |
| chr18 | 1084766 | 1.35% | 2083 |
| chr19 | 1491946 | 2.55% | 2240 |
| chr20 | 1031100 | 1.60% | 1832 |
| chr21 | 507074 | 1.09% | 877 |
| chr22 | 702149 | 1.38% | 1143 |
| chrX | 1322320 | 0.85% | 2353 |
| chrY | 105061 | 0.18% | 209 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 87818 | 150 | 2937 | 551.31 | 448 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF612NLR.bed.gz | 3.44 MB | c6162983c6e60969177cbd214caa5621 |
| ENCFF612NLR.tabix.bed.gz | 981.25 KB | 127cdf3de507c51fd7e8eed1dd82ec03 |
| ENCFF612NLR.tabix.bed.gz.tbi | 422.65 KB | 6e1c9a635d4a3dfb96e63859cc12eaf0 |
| genomic_resource.yaml | 2.71 KB | 21e3eb63d508ecb7c3265f3a974cb96c |
| statistics/ |