Resource
| Id | ATAC-seq/ENCSR337UIU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR337UIU [biosample_summary="Homo sapiens stomach tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN141HUN|/analyses/ENCAN141HUN/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN141HUN|/analyses/ENCAN141HUN/} has in progress subobject document {fa700224-68b3-4495-a813-bd26f9eb3669|/documents/fa700224-68b3-4495-a813-bd26f9eb3669/} 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 {ENCFF601PGM|/files/ENCFF601PGM/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.856256. 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 {ENCFF601PGM|/files/ENCFF601PGM/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.87. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR337UIU | float |
ATAC-seq_ENCSR337UIU |
ATAC-seq ENCSR337UIU [biosample_summary="Homo sapiens stomach tissue female adult (53 years)"]
|
 |
[1.4, 35.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 49854689 | 1.55% | 101263 |
| chr1 | 4828309 | 1.94% | 9657 |
| chr2 | 3882967 | 1.60% | 8034 |
| chr3 | 3067447 | 1.55% | 6432 |
| chr4 | 2164673 | 1.14% | 4595 |
| chr5 | 2531903 | 1.39% | 5291 |
| chr6 | 2807314 | 1.64% | 5722 |
| chr7 | 2569813 | 1.61% | 5280 |
| chr8 | 2126986 | 1.47% | 4398 |
| chr9 | 2267642 | 1.64% | 4643 |
| chr10 | 2341018 | 1.75% | 4813 |
| chr11 | 2638087 | 1.95% | 5263 |
| chr12 | 2347316 | 1.76% | 4729 |
| chr13 | 1177287 | 1.03% | 2493 |
| chr14 | 1578311 | 1.47% | 3219 |
| chr15 | 1672196 | 1.64% | 3409 |
| chr16 | 1895839 | 2.10% | 3746 |
| chr17 | 2469774 | 2.97% | 4737 |
| chr18 | 987932 | 1.23% | 2119 |
| chr19 | 2013392 | 3.43% | 3667 |
| chr20 | 1359459 | 2.11% | 2809 |
| chr21 | 688584 | 1.47% | 1389 |
| chr22 | 1133640 | 2.23% | 2265 |
| chrX | 1303045 | 0.84% | 2545 |
| chrY | 1755 | <0.01% | 8 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 101263 | 150 | 2566 | 492.33 | 403 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF880EHI.bed.gz | 3.65 MB | 9a98cc0ba705b60346fefd6e53da6cbe |
| ENCFF880EHI.tabix.bed.gz | 1.1 MB | e3cc997c0f219afb43e3b0c3d780d22f |
| ENCFF880EHI.tabix.bed.gz.tbi | 424.56 KB | 47a2fd86f2f7ee3b816a487968e2db60 |
| genomic_resource.yaml | 2.77 KB | 76bfb1888ffa75f00724f76e29dfabb8 |
| statistics/ |