Resource
| Id | Histone_ChIP-seq/ENCSR768YDB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR768YDB [biosample_summary="Homo sapiens dorsolateral prefrontal cortex tissue female adult (88 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (88 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN949FPG|/analyses/ENCAN949FPG/} 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 {ENCFF718ORE|/files/ENCFF718ORE/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF718ORE|/files/ENCFF718ORE/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.64. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR768YDB | float |
Histone_ChIP-seq_ENCSR768YDB |
Histone_ChIP-seq ENCSR768YDB [biosample_summary="Homo sapiens dorsolateral prefrontal cortex tissue female adult (88 years)" and target="H3K4me3"]
|
 |
[1.75, 80] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 78663257 | 2.44% | 43480 |
| chr1 | 7537783 | 3.03% | 4010 |
| chr2 | 5647068 | 2.33% | 3218 |
| chr3 | 4755267 | 2.40% | 2565 |
| chr4 | 3407983 | 1.79% | 1956 |
| chr5 | 4076680 | 2.25% | 2232 |
| chr6 | 4706509 | 2.76% | 2693 |
| chr7 | 3871855 | 2.43% | 2269 |
| chr8 | 3201380 | 2.21% | 1818 |
| chr9 | 3287848 | 2.38% | 1899 |
| chr10 | 3487733 | 2.61% | 1988 |
| chr11 | 4143457 | 3.07% | 2169 |
| chr12 | 4166671 | 3.13% | 2199 |
| chr13 | 1966037 | 1.72% | 1178 |
| chr14 | 2467904 | 2.31% | 1340 |
| chr15 | 2451138 | 2.40% | 1349 |
| chr16 | 2917384 | 3.23% | 1654 |
| chr17 | 4094247 | 4.92% | 2151 |
| chr18 | 1552510 | 1.93% | 928 |
| chr19 | 4315722 | 7.36% | 2270 |
| chr20 | 1962024 | 3.04% | 1106 |
| chr21 | 804264 | 1.72% | 486 |
| chr22 | 1628862 | 3.21% | 856 |
| chrX | 2212931 | 1.42% | 1146 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 43480 | 225 | 39299 | 1809.18 | 1152 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF384NUC.bed.gz | 1.1 MB | fa389c948d2146e9664ceb8305a85225 |
| ENCFF384NUC.tabix.bed.gz | 492.02 KB | 0f164bed06e51ac9eab1950435eee05b |
| ENCFF384NUC.tabix.bed.gz.tbi | 235.09 KB | 748c1f2a236c00a4d6aa33b24d7cbba9 |
| genomic_resource.yaml | 2.84 KB | a5044d49fb2006e2750a630a6b107297 |
| statistics/ |