Resource
| Id | Histone_ChIP-seq/ENCSR587VHH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR587VHH [biosample_summary="Homo sapiens brain microvascular endothelial cell" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Released analysis {ENCAN568LFS|/analyses/ENCAN568LFS/} 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 {ENCFF049TQC|/files/ENCFF049TQC/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF049TQC|/files/ENCFF049TQC/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.54. 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 {ENCFF761ZYL|/files/ENCFF761ZYL/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF761ZYL|/files/ENCFF761ZYL/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.26. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR587VHH | float |
Histone_ChIP-seq_ENCSR587VHH |
Histone_ChIP-seq ENCSR587VHH [biosample_summary="Homo sapiens brain microvascular endothelial cell" and target="H3K36me3"]
|
 |
[1.67, 8.86] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 72886578 | 2.27% | 100404 |
| chr1 | 7544124 | 3.03% | 10140 |
| chr2 | 5346321 | 2.21% | 7911 |
| chr3 | 4362710 | 2.20% | 6367 |
| chr4 | 2536547 | 1.33% | 4012 |
| chr5 | 4028528 | 2.22% | 5670 |
| chr6 | 2966743 | 1.74% | 4522 |
| chr7 | 3484391 | 2.19% | 4881 |
| chr8 | 2371592 | 1.63% | 3635 |
| chr9 | 3194469 | 2.31% | 4026 |
| chr10 | 3116404 | 2.33% | 4288 |
| chr11 | 3788296 | 2.80% | 4987 |
| chr12 | 4145787 | 3.11% | 5526 |
| chr13 | 1416226 | 1.24% | 2187 |
| chr14 | 2388953 | 2.23% | 3421 |
| chr15 | 2730440 | 2.68% | 3820 |
| chr16 | 3419678 | 3.79% | 4390 |
| chr17 | 4385170 | 5.27% | 5638 |
| chr18 | 921548 | 1.15% | 1571 |
| chr19 | 4779583 | 8.15% | 5634 |
| chr20 | 2241971 | 3.48% | 2877 |
| chr21 | 948966 | 2.03% | 1298 |
| chr22 | 2139585 | 4.21% | 2522 |
| chrX | 628546 | 0.40% | 1081 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 100404 | 158 | 18981 | 725.93 | 477 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF784BVN.bed.gz | 2.05 MB | 815eb537049ef81ee0a0c8282212ce09 |
| ENCFF784BVN.tabix.bed.gz | 1.02 MB | b54e4524a845cc2723fbb7110fb1a815 |
| ENCFF784BVN.tabix.bed.gz.tbi | 143.55 KB | cf08008780e12e5c5328546cd3359884 |
| genomic_resource.yaml | 4.09 KB | a12d0114910fabc03b5d8e2e393d7998 |
| statistics/ |