Resource
| Id | Histone_ChIP-seq/ENCSR584RKY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR584RKY [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (90 or above years) with mild cognitive impairment output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN988GRL|/analyses/ENCAN988GRL/} 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 {ENCFF316BSS|/files/ENCFF316BSS/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF316BSS|/files/ENCFF316BSS/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.05. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR584RKY | float |
Histone_ChIP-seq_ENCSR584RKY |
Histone_ChIP-seq ENCSR584RKY [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)" and target="H3K4me3"]
|
 |
[1.85, 93.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 72057237 | 2.24% | 38007 |
| chr1 | 6880722 | 2.76% | 3561 |
| chr2 | 5198597 | 2.15% | 2807 |
| chr3 | 4375125 | 2.21% | 2255 |
| chr4 | 3187133 | 1.68% | 1733 |
| chr5 | 3808325 | 2.10% | 2016 |
| chr6 | 4284500 | 2.51% | 2310 |
| chr7 | 3596520 | 2.26% | 2009 |
| chr8 | 2948619 | 2.03% | 1568 |
| chr9 | 2966486 | 2.14% | 1596 |
| chr10 | 3201145 | 2.39% | 1731 |
| chr11 | 3736359 | 2.77% | 1891 |
| chr12 | 3782811 | 2.84% | 1905 |
| chr13 | 1849522 | 1.62% | 1065 |
| chr14 | 2285179 | 2.13% | 1171 |
| chr15 | 2232905 | 2.19% | 1186 |
| chr16 | 2639500 | 2.92% | 1436 |
| chr17 | 3714001 | 4.46% | 1845 |
| chr18 | 1457232 | 1.81% | 817 |
| chr19 | 3870009 | 6.60% | 1984 |
| chr20 | 1776940 | 2.76% | 910 |
| chr21 | 727829 | 1.56% | 410 |
| chr22 | 1475948 | 2.90% | 743 |
| chrX | 2061830 | 1.32% | 1058 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 38007 | 270 | 36024 | 1895.89 | 1312 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF794FGI.bed.gz | 1012.71 KB | 8a8a63bc0d47ee2a57c3beac22435aeb |
| ENCFF794FGI.tabix.bed.gz | 437.96 KB | 576e87ab6fc0c060ff113102d624a20c |
| ENCFF794FGI.tabix.bed.gz.tbi | 222.0 KB | 9c6bd7569481d60c0b3bfe402be7bbce |
| genomic_resource.yaml | 3.04 KB | 0fe980b66340bd9102ace872a685e06e |
| statistics/ |