Resource
| Id | Histone_ChIP-seq/ENCSR098OLN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR098OLN [biosample_summary="Homo sapiens gastrocnemius medialis tissue female adult (51 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: female adult (51 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN160VIW|/analyses/ENCAN160VIW/} 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 {ENCFF110ZHA|/files/ENCFF110ZHA/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF018UTN|/files/ENCFF018UTN/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF018UTN|/files/ENCFF018UTN/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.66. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR098OLN | float |
Histone_ChIP-seq_ENCSR098OLN |
Histone_ChIP-seq ENCSR098OLN [biosample_summary="Homo sapiens gastrocnemius medialis tissue female adult (51 years)" and target="H3K4me3"]
|
 |
[1.46, 110] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 53628540 | 1.67% | 30572 |
| chr1 | 5313296 | 2.13% | 2953 |
| chr2 | 3752937 | 1.55% | 2139 |
| chr3 | 3135397 | 1.58% | 1761 |
| chr4 | 2240451 | 1.18% | 1310 |
| chr5 | 2536445 | 1.40% | 1416 |
| chr6 | 3201929 | 1.87% | 1828 |
| chr7 | 2648450 | 1.66% | 1571 |
| chr8 | 2037143 | 1.40% | 1207 |
| chr9 | 2222307 | 1.61% | 1314 |
| chr10 | 2440875 | 1.82% | 1442 |
| chr11 | 2824786 | 2.09% | 1526 |
| chr12 | 2880539 | 2.16% | 1540 |
| chr13 | 1169238 | 1.02% | 691 |
| chr14 | 1656421 | 1.55% | 917 |
| chr15 | 1719806 | 1.69% | 1005 |
| chr16 | 2040493 | 2.26% | 1201 |
| chr17 | 3039809 | 3.65% | 1690 |
| chr18 | 935479 | 1.16% | 570 |
| chr19 | 3161947 | 5.39% | 1795 |
| chr20 | 1347143 | 2.09% | 773 |
| chr21 | 572602 | 1.23% | 347 |
| chr22 | 1156487 | 2.28% | 689 |
| chrM | 13526 | 81.63% | 6 |
| chrX | 1580465 | 1.01% | 880 |
| chrY | 569 | <0.01% | 1 |
| 3341 contigs with no values (129060516 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 30572 | 245 | 18993 | 1754.17 | 1381 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF591CVB.bed.gz | 888.22 KB | 7033b894beccc14a81e75829fd38aa8d |
| ENCFF591CVB.tabix.bed.gz | 363.66 KB | 4912702affbaf9232bdbf04c00d85f03 |
| ENCFF591CVB.tabix.bed.gz.tbi | 182.77 KB | 4b3c51bcc8083877f510ea95411f3326 |
| genomic_resource.yaml | 3.43 KB | 299a0aeb44245c010ece981eff8395b0 |
| statistics/ |