Resource
| Id | Histone_ChIP-seq/ENCSR668QQL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR668QQL [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 {ENCAN074UTU|/analyses/ENCAN074UTU/} 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 {ENCFF978FLE|/files/ENCFF978FLE/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF978FLE|/files/ENCFF978FLE/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.61. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR668QQL | float |
Histone_ChIP-seq_ENCSR668QQL |
Histone_ChIP-seq ENCSR668QQL [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)" and target="H3K4me3"]
|
 |
[1.74, 84.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 71009433 | 2.21% | 40672 |
| chr1 | 6838533 | 2.75% | 3829 |
| chr2 | 5043403 | 2.08% | 3013 |
| chr3 | 4287374 | 2.16% | 2410 |
| chr4 | 3012721 | 1.58% | 1785 |
| chr5 | 3684573 | 2.03% | 2099 |
| chr6 | 4200377 | 2.46% | 2472 |
| chr7 | 3506850 | 2.20% | 2119 |
| chr8 | 2842574 | 1.96% | 1675 |
| chr9 | 2928818 | 2.12% | 1730 |
| chr10 | 3110788 | 2.32% | 1839 |
| chr11 | 3743559 | 2.77% | 1998 |
| chr12 | 3770464 | 2.83% | 2026 |
| chr13 | 1738160 | 1.52% | 1104 |
| chr14 | 2235157 | 2.09% | 1236 |
| chr15 | 2210059 | 2.17% | 1272 |
| chr16 | 2689516 | 2.98% | 1569 |
| chr17 | 3747003 | 4.50% | 2049 |
| chr18 | 1389821 | 1.73% | 861 |
| chr19 | 4013222 | 6.85% | 2212 |
| chr20 | 1774125 | 2.75% | 1013 |
| chr21 | 727652 | 1.56% | 446 |
| chr22 | 1495493 | 2.94% | 815 |
| chrX | 2019191 | 1.29% | 1100 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 40672 | 190 | 37510 | 1745.9 | 1134 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF424XFG.bed.gz | 1.03 MB | 21c0a6db7456c45b53386487cad5df95 |
| ENCFF424XFG.tabix.bed.gz | 460.29 KB | 382b0f0f717f819481fde73d9ad911ca |
| ENCFF424XFG.tabix.bed.gz.tbi | 224.97 KB | 8c4040fce80d1b0abe78ae5a34b449f8 |
| genomic_resource.yaml | 3.04 KB | 4dec809b0607890b9846b5d5f76e0303 |
| statistics/ |