Resource
| Id | Histone_ChIP-seq/ENCSR052WRV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR052WRV [biosample_summary="Homo sapiens DOHH2" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN169FCZ|/analyses/ENCAN169FCZ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-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 {ENCFF067ZVJ|/files/ENCFF067ZVJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF067ZVJ|/files/ENCFF067ZVJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.37. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR052WRV | float |
Histone_ChIP-seq_ENCSR052WRV |
Histone_ChIP-seq ENCSR052WRV [biosample_summary="Homo sapiens DOHH2" and target="H3K4me3"]
|
 |
[1.65, 74.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 71672015 | 2.23% | 47683 |
| chr1 | 6649932 | 2.67% | 4317 |
| chr2 | 5473927 | 2.26% | 3746 |
| chr3 | 4508947 | 2.27% | 2962 |
| chr4 | 2917711 | 1.53% | 1917 |
| chr5 | 3401570 | 1.87% | 2244 |
| chr6 | 4331376 | 2.54% | 2794 |
| chr7 | 3666667 | 2.30% | 2556 |
| chr8 | 2999648 | 2.07% | 1975 |
| chr9 | 2834758 | 2.05% | 1884 |
| chr10 | 3161504 | 2.36% | 2193 |
| chr11 | 3553025 | 2.63% | 2269 |
| chr12 | 3867720 | 2.90% | 2594 |
| chr13 | 1670535 | 1.46% | 1077 |
| chr14 | 2480258 | 2.32% | 1602 |
| chr15 | 2271211 | 2.23% | 1495 |
| chr16 | 2663646 | 2.95% | 1789 |
| chr17 | 3725233 | 4.47% | 2407 |
| chr18 | 1245891 | 1.55% | 868 |
| chr19 | 3741627 | 6.38% | 2515 |
| chr20 | 1898738 | 2.95% | 1341 |
| chr21 | 744107 | 1.59% | 479 |
| chr22 | 1823211 | 3.59% | 1247 |
| chrX | 1935912 | 1.24% | 1337 |
| chrY | 104861 | 0.18% | 75 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 47683 | 215 | 17929 | 1503.09 | 1004 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF897GSA.bed.gz | 1.28 MB | f29d88871da9a940bcc482ac133dbc6e |
| ENCFF897GSA.tabix.bed.gz | 547.43 KB | 92e79befac8587a836a0aecee46af1b9 |
| ENCFF897GSA.tabix.bed.gz.tbi | 183.19 KB | d02c03b2119cda6b8019c9b917d90e04 |
| genomic_resource.yaml | 2.66 KB | e91d9a08caa1a509b05ebd9364c3621e |
| statistics/ |