Resource
| Id | Histone_ChIP-seq/ENCSR032CAS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR032CAS [biosample_summary="Homo sapiens brain microvascular endothelial cell" and target="H3K27me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Released analysis {ENCAN826XZQ|/analyses/ENCAN826XZQ/} 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 {ENCFF422LYM|/files/ENCFF422LYM/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.80. 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 {ENCFF422LYM|/files/ENCFF422LYM/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 4.86. 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 {ENCFF220CLZ|/files/ENCFF220CLZ/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF220CLZ|/files/ENCFF220CLZ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.60. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR032CAS | float |
Histone_ChIP-seq_ENCSR032CAS |
Histone_ChIP-seq ENCSR032CAS [biosample_summary="Homo sapiens brain microvascular endothelial cell" and target="H3K27me3"]
|
 |
[1.73, 9.19] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19856763 | 0.62% | 30024 |
| chr1 | 2113027 | 0.85% | 3363 |
| chr2 | 1476702 | 0.61% | 2200 |
| chr3 | 1053554 | 0.53% | 1731 |
| chr4 | 730976 | 0.38% | 998 |
| chr5 | 923317 | 0.51% | 1386 |
| chr6 | 1011836 | 0.59% | 1502 |
| chr7 | 1079498 | 0.68% | 1434 |
| chr8 | 681360 | 0.47% | 976 |
| chr9 | 1147632 | 0.83% | 1657 |
| chr10 | 1052362 | 0.79% | 1494 |
| chr11 | 1209809 | 0.90% | 1968 |
| chr12 | 923733 | 0.69% | 1343 |
| chr13 | 372163 | 0.33% | 528 |
| chr14 | 494981 | 0.46% | 713 |
| chr15 | 689265 | 0.68% | 1084 |
| chr16 | 631127 | 0.70% | 970 |
| chr17 | 1316901 | 1.58% | 1872 |
| chr18 | 328107 | 0.41% | 494 |
| chr19 | 688114 | 1.17% | 1023 |
| chr20 | 797288 | 1.24% | 1221 |
| chr21 | 303021 | 0.65% | 440 |
| chr22 | 680907 | 1.34% | 1299 |
| chrX | 151083 | 0.10% | 328 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 30024 | 140 | 14758 | 661.36 | 372 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF732VIJ.bed.gz | 575.66 KB | 400f2a2c4577a91664d04e71cb092e59 |
| ENCFF732VIJ.tabix.bed.gz | 303.51 KB | 7d9e769970071dad0200e8e843affaf3 |
| ENCFF732VIJ.tabix.bed.gz.tbi | 86.65 KB | 08fceea1a21d7cffb9525dfe1ed37f19 |
| genomic_resource.yaml | 4.09 KB | d3fa5c76eae34219fcd569849b188fd7 |
| statistics/ |