Resource
| Id | Histone_ChIP-seq/ENCSR197QXT |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR197QXT [biosample_summary="Homo sapiens PC-3" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN616VIM|/analyses/ENCAN616VIM/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN616VIM|/analyses/ENCAN616VIM/} has in progress subobject document {52763a74-a091-4d64-8ce2-267aa48ad0af|/documents/52763a74-a091-4d64-8ce2-267aa48ad0af/} 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 > 0.8 is acceptable. ENCODE processed alignments file {ENCFF190UZW|/files/ENCFF190UZW/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.82. audit_warning: PBC2 (PCR Bottlenecking Coefficient 2, M1/M2) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking, 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking. PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed alignments file {ENCFF190UZW|/files/ENCFF190UZW/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.42. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR197QXT | float |
Histone_ChIP-seq_ENCSR197QXT |
Histone_ChIP-seq ENCSR197QXT [biosample_summary="Homo sapiens PC-3" and target="H3K9ac"]
|
 |
[1.53, 73.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 60519686 | 1.88% | 53028 |
| chr1 | 5894498 | 2.37% | 5101 |
| chr2 | 4681179 | 1.93% | 4192 |
| chr3 | 3880664 | 1.96% | 3400 |
| chr4 | 2695652 | 1.42% | 2472 |
| chr5 | 3195845 | 1.76% | 2950 |
| chr6 | 3652736 | 2.14% | 3249 |
| chr7 | 3069040 | 1.93% | 2702 |
| chr8 | 2884095 | 1.99% | 2658 |
| chr9 | 2320557 | 1.68% | 2116 |
| chr10 | 2982141 | 2.23% | 2548 |
| chr11 | 3085209 | 2.28% | 2543 |
| chr12 | 3123854 | 2.34% | 2672 |
| chr13 | 1434696 | 1.25% | 1340 |
| chr14 | 1974492 | 1.84% | 1682 |
| chr15 | 1956984 | 1.92% | 1694 |
| chr16 | 1708574 | 1.89% | 1471 |
| chr17 | 2993518 | 3.60% | 2412 |
| chr18 | 1223801 | 1.52% | 1106 |
| chr19 | 2286984 | 3.90% | 1949 |
| chr20 | 1724689 | 2.68% | 1479 |
| chr21 | 862100 | 1.85% | 746 |
| chr22 | 1022211 | 2.01% | 850 |
| chrX | 1866167 | 1.20% | 1696 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 53028 | 259 | 19895 | 1141.28 | 794.5 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF698RYW.bed.gz | 1.44 MB | c40780cf8bd13480e7d7163b576180ec |
| ENCFF698RYW.tabix.bed.gz | 606.42 KB | 2d02b507b44df947360dee269a487848 |
| ENCFF698RYW.tabix.bed.gz.tbi | 214.97 KB | ff58bb716e29736fd4b4af6fdc85e4b3 |
| genomic_resource.yaml | 2.9 KB | 5200fc63f87e05914b7c149e31d330e0 |
| statistics/ |