Resource
| Id | ATAC-seq/ENCSR580JBA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR580JBA [biosample_summary="Homo sapiens GM18868"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN349GYU|/analyses/ENCAN349GYU/} 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 {ENCFF138ZQZ|/files/ENCFF138ZQZ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.818968. 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 {ENCFF138ZQZ|/files/ENCFF138ZQZ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.82. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR580JBA | float |
ATAC-seq_ENCSR580JBA |
ATAC-seq ENCSR580JBA [biosample_summary="Homo sapiens GM18868"]
|
 |
[1.46, 47.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 75518755 | 2.35% | 146947 |
| chr1 | 6309986 | 2.53% | 12161 |
| chr2 | 6704878 | 2.77% | 13215 |
| chr3 | 5694658 | 2.87% | 11358 |
| chr4 | 5163111 | 2.71% | 10299 |
| chr5 | 4915594 | 2.71% | 9675 |
| chr6 | 5248741 | 3.07% | 10257 |
| chr7 | 4476855 | 2.81% | 8728 |
| chr8 | 3988019 | 2.75% | 7935 |
| chr9 | 3009867 | 2.17% | 5906 |
| chr10 | 3605480 | 2.69% | 7018 |
| chr11 | 3344248 | 2.48% | 6382 |
| chr12 | 3637810 | 2.73% | 7049 |
| chr13 | 2496479 | 2.18% | 4955 |
| chr14 | 2343305 | 2.19% | 4489 |
| chr15 | 1999937 | 1.96% | 3832 |
| chr16 | 1760141 | 1.95% | 3276 |
| chr17 | 1970748 | 2.37% | 3631 |
| chr18 | 1886324 | 2.35% | 3746 |
| chr19 | 1417695 | 2.42% | 2340 |
| chr20 | 1429476 | 2.22% | 2789 |
| chr21 | 688846 | 1.47% | 1291 |
| chr22 | 711083 | 1.40% | 1297 |
| chrX | 2457002 | 1.57% | 4775 |
| chrY | 258472 | 0.45% | 543 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 146947 | 150 | 2981 | 513.92 | 431 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF755FSW.bed.gz | 5.44 MB | 66c492fe9d0fad1456135510714f0ffb |
| ENCFF755FSW.tabix.bed.gz | 1.6 MB | 093cdd3469438d2bd54fdc04fd14105e |
| ENCFF755FSW.tabix.bed.gz.tbi | 554.76 KB | cd481024cae1e62b61740293a8d88b3f |
| genomic_resource.yaml | 2.49 KB | 000a96fa5f4c6b26e5aeef83d8e53f3f |
| statistics/ |