Resource
| Id | Histone_ChIP-seq/ENCSR313DUH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR313DUH [biosample_summary="Homo sapiens colonic mucosa tissue female adult (41 years)" and target="H3K4me1"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (41 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN235WTN|/analyses/ENCAN235WTN/} 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 {ENCFF337TYN|/files/ENCFF337TYN/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF337TYN|/files/ENCFF337TYN/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.33. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR313DUH | float |
Histone_ChIP-seq_ENCSR313DUH |
Histone_ChIP-seq ENCSR313DUH [biosample_summary="Homo sapiens colonic mucosa tissue female adult (41 years)" and target="H3K4me1"]
|
 |
[1.63, 6.88] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19689759 | 0.61% | 30645 |
| chr1 | 2141186 | 0.86% | 3336 |
| chr2 | 1335499 | 0.55% | 2189 |
| chr3 | 1093633 | 0.55% | 1770 |
| chr4 | 607462 | 0.32% | 1074 |
| chr5 | 861870 | 0.47% | 1380 |
| chr6 | 911608 | 0.53% | 1576 |
| chr7 | 798532 | 0.50% | 1280 |
| chr8 | 687136 | 0.47% | 1133 |
| chr9 | 979539 | 0.71% | 1428 |
| chr10 | 950028 | 0.71% | 1494 |
| chr11 | 1234614 | 0.91% | 1849 |
| chr12 | 955008 | 0.72% | 1466 |
| chr13 | 309664 | 0.27% | 532 |
| chr14 | 739160 | 0.69% | 1124 |
| chr15 | 760458 | 0.75% | 1192 |
| chr16 | 966729 | 1.07% | 1431 |
| chr17 | 1427917 | 1.72% | 2034 |
| chr18 | 301997 | 0.38% | 516 |
| chr19 | 1078118 | 1.84% | 1516 |
| chr20 | 637430 | 0.99% | 944 |
| chr21 | 203318 | 0.44% | 332 |
| chr22 | 633999 | 1.25% | 913 |
| chrX | 74854 | 0.05% | 136 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 30645 | 225 | 6340 | 642.51 | 543 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF489WZM.bed.gz | 613.43 KB | 5c4c43c78e37a342bd02ecdf9007a001 |
| ENCFF489WZM.tabix.bed.gz | 317.1 KB | a6cfde851b1adedf413a4cd82419c8f4 |
| ENCFF489WZM.tabix.bed.gz.tbi | 148.76 KB | 9f870de94f150e31a9d3f684acba6ae7 |
| genomic_resource.yaml | 2.78 KB | e8aff66168f6615fe2486455e345b265 |
| statistics/ |