Resource
| Id | Histone_ChIP-seq/ENCSR826UTD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR826UTD [biosample_summary="Homo sapiens PC-3" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN045NDM|/analyses/ENCAN045NDM/} has in progress subobject document {cf98939a-75b4-4530-9380-00be39581529|/documents/cf98939a-75b4-4530-9380-00be39581529/} audit_internal_action: Released analysis {ENCAN045NDM|/analyses/ENCAN045NDM/} 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 {ENCFF092ZKC|/files/ENCFF092ZKC/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF951SHC|/files/ENCFF951SHC/} 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 {ENCFF951SHC|/files/ENCFF951SHC/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.75. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR826UTD | float |
Histone_ChIP-seq_ENCSR826UTD |
Histone_ChIP-seq ENCSR826UTD [biosample_summary="Homo sapiens PC-3" and target="H3K27ac"]
|
 |
[1.54, 90.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 94439910 | 2.94% | 78753 |
| chr1 | 9091525 | 3.65% | 7500 |
| chr2 | 7938486 | 3.28% | 6729 |
| chr3 | 6497812 | 3.28% | 5341 |
| chr4 | 4947496 | 2.60% | 4368 |
| chr5 | 5481874 | 3.02% | 4704 |
| chr6 | 5860446 | 3.43% | 4997 |
| chr7 | 4786174 | 3.00% | 4034 |
| chr8 | 4861529 | 3.35% | 3961 |
| chr9 | 3648708 | 2.64% | 3063 |
| chr10 | 4745622 | 3.55% | 3719 |
| chr11 | 4610817 | 3.41% | 3727 |
| chr12 | 4795270 | 3.60% | 3884 |
| chr13 | 2580467 | 2.26% | 2257 |
| chr14 | 2951565 | 2.76% | 2464 |
| chr15 | 3131480 | 3.07% | 2496 |
| chr16 | 2131202 | 2.36% | 1924 |
| chr17 | 3780910 | 4.54% | 2997 |
| chr18 | 2178414 | 2.71% | 1838 |
| chr19 | 2231258 | 3.81% | 2042 |
| chr20 | 2534733 | 3.93% | 2012 |
| chr21 | 1330968 | 2.85% | 1011 |
| chr22 | 1323116 | 2.60% | 1077 |
| chrX | 3000038 | 1.92% | 2608 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 78753 | 230 | 38845 | 1199.19 | 765 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF204GCA.bed.gz | 2.14 MB | 5b3bbc474f45e290283c1181c6c4769e |
| ENCFF204GCA.tabix.bed.gz | 894.82 KB | 1c2fcfef08341cbcb60c232b9b95738c |
| ENCFF204GCA.tabix.bed.gz.tbi | 287.52 KB | e3d1c68ac33e58f44f2d3242bee87727 |
| genomic_resource.yaml | 3.57 KB | a95fea1d8d61d18a71e2e47c20fbe3b4 |
| statistics/ |