Resource
| Id | Histone_ChIP-seq/ENCSR486NDF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR486NDF [biosample_summary="Homo sapiens pancreas tissue female adult (30 years)" and target="H3K27me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (30 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN890WGO|/analyses/ENCAN890WGO/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN890WGO|/analyses/ENCAN890WGO/} has in progress subobject document {c16df680-abeb-4bba-94aa-4b11991b2782|/documents/c16df680-abeb-4bba-94aa-4b11991b2782/} audit_not_compliant: Processed alignments file {ENCFF155GUI|/files/ENCFF155GUI/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 34583271 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) 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 {ENCFF155GUI|/files/ENCFF155GUI/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF155GUI|/files/ENCFF155GUI/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.92. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR486NDF | float |
Histone_ChIP-seq_ENCSR486NDF |
Histone_ChIP-seq ENCSR486NDF [biosample_summary="Homo sapiens pancreas tissue female adult (30 years)" and target="H3K27me3"]
|
 |
[1.96, 6.68] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 1500695 | 0.05% | 5678 |
| chr1 | 69061 | 0.03% | 265 |
| chr2 | 90404 | 0.04% | 342 |
| chr3 | 58512 | 0.03% | 223 |
| chr4 | 68781 | 0.04% | 261 |
| chr5 | 77454 | 0.04% | 293 |
| chr6 | 73166 | 0.04% | 275 |
| chr7 | 61484 | 0.04% | 234 |
| chr8 | 74129 | 0.05% | 283 |
| chr9 | 55387 | 0.04% | 216 |
| chr10 | 55821 | 0.04% | 220 |
| chr11 | 46725 | 0.03% | 182 |
| chr12 | 77796 | 0.06% | 286 |
| chr13 | 34510 | 0.03% | 132 |
| chr14 | 35230 | 0.03% | 138 |
| chr15 | 41930 | 0.04% | 159 |
| chr16 | 62220 | 0.07% | 231 |
| chr17 | 36750 | 0.04% | 136 |
| chr18 | 45178 | 0.06% | 172 |
| chr19 | 33121 | 0.06% | 118 |
| chr20 | 41719 | 0.06% | 150 |
| chr21 | 18312 | 0.04% | 66 |
| chr22 | 12766 | 0.03% | 44 |
| chrX | 330239 | 0.21% | 1252 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 5678 | 185 | 2012 | 264.3 | 240 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF203NYA.bed.gz | 98.42 KB | b5fce99e44971c91633d5add78dacdd2 |
| ENCFF203NYA.tabix.bed.gz | 54.72 KB | f40c3735df9f56ba93678072157506e9 |
| ENCFF203NYA.tabix.bed.gz.tbi | 54.27 KB | 786b535602302710575275eb6488ccf1 |
| genomic_resource.yaml | 3.47 KB | 870fd982433d54702c709e836c02dc8a |
| statistics/ |