Resource
| Id | Histone_ChIP-seq/ENCSR385YCN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR385YCN [biosample_summary="Homo sapiens upper lobe of right lung tissue male adult (60 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (60 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN077CQM|/analyses/ENCAN077CQM/} 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 {ENCFF822ITP|/files/ENCFF822ITP/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 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 {ENCFF822ITP|/files/ENCFF822ITP/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.73. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR385YCN | float |
Histone_ChIP-seq_ENCSR385YCN |
Histone_ChIP-seq ENCSR385YCN [biosample_summary="Homo sapiens upper lobe of right lung tissue male adult (60 years)" and target="H3K4me3"]
|
 |
[1.96, 62] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 50200771 | 1.56% | 28974 |
| chr1 | 5015745 | 2.01% | 2883 |
| chr2 | 3418468 | 1.41% | 1942 |
| chr3 | 2926666 | 1.48% | 1626 |
| chr4 | 2059592 | 1.08% | 1163 |
| chr5 | 2405319 | 1.32% | 1325 |
| chr6 | 2937945 | 1.72% | 1631 |
| chr7 | 2469785 | 1.55% | 1435 |
| chr8 | 1865750 | 1.29% | 1106 |
| chr9 | 2101941 | 1.52% | 1274 |
| chr10 | 2123681 | 1.59% | 1265 |
| chr11 | 2663794 | 1.97% | 1447 |
| chr12 | 2733761 | 2.05% | 1508 |
| chr13 | 1063338 | 0.93% | 639 |
| chr14 | 1604041 | 1.50% | 886 |
| chr15 | 1625240 | 1.59% | 938 |
| chr16 | 1956004 | 2.17% | 1169 |
| chr17 | 2904026 | 3.49% | 1653 |
| chr18 | 844053 | 1.05% | 535 |
| chr19 | 3077521 | 5.25% | 1884 |
| chr20 | 1295061 | 2.01% | 775 |
| chr21 | 520202 | 1.11% | 322 |
| chr22 | 1114933 | 2.19% | 676 |
| chrX | 1416957 | 0.91% | 865 |
| chrY | 56948 | 0.10% | 27 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 28974 | 215 | 16965 | 1732.61 | 1379 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF917VSO.bed.gz | 737.29 KB | 5661cf29a96515c66256563ac855a1c0 |
| ENCFF917VSO.tabix.bed.gz | 328.0 KB | 583a415f0ca5582fa9ee9f9b44257658 |
| ENCFF917VSO.tabix.bed.gz.tbi | 173.74 KB | 616477e801c5983b646384fc7632be9d |
| genomic_resource.yaml | 2.81 KB | 3aed209acd3e4190271326e268562941 |
| statistics/ |