Resource
| Id | Histone_ChIP-seq/ENCSR889TEU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR889TEU [biosample_summary="Homo sapiens with Alzheimer''s disease, Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years)" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (87 years) with Alzheimer's disease, Cognitive impairment output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN518NQU|/analyses/ENCAN518NQU/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} 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 {ENCFF505FPU|/files/ENCFF505FPU/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF505FPU|/files/ENCFF505FPU/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.41. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR889TEU | float |
Histone_ChIP-seq_ENCSR889TEU |
Histone_ChIP-seq ENCSR889TEU [biosample_summary="Homo sapiens with Alzheimer''s disease, Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years)" and target="H3K27ac"]
|
 |
[1.67, 26.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 152020441 | 4.73% | 106250 |
| chr1 | 15044075 | 6.04% | 10091 |
| chr2 | 11286919 | 4.66% | 8237 |
| chr3 | 9551895 | 4.82% | 6801 |
| chr4 | 6286586 | 3.30% | 4666 |
| chr5 | 8438474 | 4.65% | 6106 |
| chr6 | 8000285 | 4.68% | 5795 |
| chr7 | 7120904 | 4.47% | 5422 |
| chr8 | 6274643 | 4.32% | 4533 |
| chr9 | 7345630 | 5.31% | 4934 |
| chr10 | 7831310 | 5.85% | 5270 |
| chr11 | 9169513 | 6.79% | 5936 |
| chr12 | 7847247 | 5.89% | 5563 |
| chr13 | 3699582 | 3.23% | 2727 |
| chr14 | 5119155 | 4.78% | 3549 |
| chr15 | 5306350 | 5.20% | 3602 |
| chr16 | 5204983 | 5.76% | 3644 |
| chr17 | 8110906 | 9.74% | 5153 |
| chr18 | 3093453 | 3.85% | 2256 |
| chr19 | 5661318 | 9.66% | 3774 |
| chr20 | 4284753 | 6.65% | 2897 |
| chr21 | 1626659 | 3.48% | 1200 |
| chr22 | 3562715 | 7.01% | 2353 |
| chrX | 2153086 | 1.38% | 1741 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 106250 | 225 | 84027 | 1430.78 | 836 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF024XNY.bed.gz | 2.34 MB | 67cbc384589b8b06c86d9ec3baad04b2 |
| ENCFF024XNY.tabix.bed.gz | 1.11 MB | 3bc879592c528f5c5eb9680e2352cbbe |
| ENCFF024XNY.tabix.bed.gz.tbi | 285.02 KB | 1cf5f31bb68029bb118a1eb54749dab3 |
| genomic_resource.yaml | 3.08 KB | 7f45df495381575a6843c677201f4f86 |
| statistics/ |