Resource
| Id | Histone_ChIP-seq/ENCSR532STE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR532STE [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (83 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (83 years) with mild cognitive impairment output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN808FLA|/analyses/ENCAN808FLA/} 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 {ENCFF732KBA|/files/ENCFF732KBA/} 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 {ENCFF732KBA|/files/ENCFF732KBA/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.84. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR532STE | float |
Histone_ChIP-seq_ENCSR532STE |
Histone_ChIP-seq ENCSR532STE [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (83 years)" and target="H3K4me3"]
|
 |
[1.75, 69.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 74888074 | 2.33% | 40554 |
| chr1 | 7234212 | 2.91% | 3855 |
| chr2 | 5353480 | 2.21% | 2975 |
| chr3 | 4494144 | 2.27% | 2363 |
| chr4 | 3206647 | 1.69% | 1734 |
| chr5 | 3886294 | 2.14% | 2061 |
| chr6 | 4421292 | 2.59% | 2441 |
| chr7 | 3693765 | 2.32% | 2119 |
| chr8 | 3046077 | 2.10% | 1686 |
| chr9 | 3060265 | 2.21% | 1729 |
| chr10 | 3305131 | 2.47% | 1860 |
| chr11 | 3951814 | 2.93% | 2054 |
| chr12 | 3997098 | 3.00% | 2057 |
| chr13 | 1839010 | 1.61% | 1064 |
| chr14 | 2336647 | 2.18% | 1236 |
| chr15 | 2337272 | 2.29% | 1285 |
| chr16 | 2796837 | 3.10% | 1553 |
| chr17 | 3917820 | 4.71% | 2067 |
| chr18 | 1472983 | 1.83% | 844 |
| chr19 | 4171330 | 7.12% | 2187 |
| chr20 | 1871238 | 2.90% | 1027 |
| chr21 | 778083 | 1.67% | 452 |
| chr22 | 1603178 | 3.15% | 829 |
| chrX | 2113457 | 1.35% | 1076 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 40554 | 235 | 37703 | 1846.63 | 1204 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF959JIF.bed.gz | 1.01 MB | 034f0e16482255b7049f1ee0371cabd8 |
| ENCFF959JIF.tabix.bed.gz | 454.66 KB | ba6931f819c743bda45f47ca2d03c2a2 |
| ENCFF959JIF.tabix.bed.gz.tbi | 225.4 KB | 2259aa90431ae0081dade6319edd9fc0 |
| genomic_resource.yaml | 2.99 KB | 21dd3989fd71dad5ff372607d40cdc81 |
| statistics/ |