Resource
| Id | Histone_ChIP-seq/ENCSR403PEI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR403PEI [biosample_summary="Homo sapiens esophagus muscularis mucosa 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 {ENCAN761BYF|/analyses/ENCAN761BYF/} 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 {ENCFF552EIR|/files/ENCFF552EIR/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF552EIR|/files/ENCFF552EIR/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.32. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR403PEI | float |
Histone_ChIP-seq_ENCSR403PEI |
Histone_ChIP-seq ENCSR403PEI [biosample_summary="Homo sapiens esophagus muscularis mucosa tissue female adult (51 years)" and target="H3K4me3"]
|
 |
[1.3, 106] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 53230143 | 1.65% | 30485 |
| chr1 | 5264677 | 2.11% | 2958 |
| chr2 | 3650534 | 1.51% | 2112 |
| chr3 | 3050976 | 1.54% | 1717 |
| chr4 | 2247757 | 1.18% | 1265 |
| chr5 | 2497582 | 1.38% | 1382 |
| chr6 | 3007995 | 1.76% | 1701 |
| chr7 | 2635925 | 1.65% | 1572 |
| chr8 | 1992962 | 1.37% | 1162 |
| chr9 | 2273902 | 1.64% | 1331 |
| chr10 | 2403757 | 1.80% | 1450 |
| chr11 | 2836609 | 2.10% | 1553 |
| chr12 | 2845289 | 2.13% | 1581 |
| chr13 | 1135582 | 0.99% | 683 |
| chr14 | 1693048 | 1.58% | 944 |
| chr15 | 1738089 | 1.70% | 988 |
| chr16 | 2012689 | 2.23% | 1175 |
| chr17 | 3004526 | 3.61% | 1686 |
| chr18 | 895790 | 1.11% | 550 |
| chr19 | 3244244 | 5.53% | 1887 |
| chr20 | 1390930 | 2.16% | 813 |
| chr21 | 563531 | 1.21% | 357 |
| chr22 | 1227731 | 2.42% | 722 |
| chrM | 10383 | 62.67% | 4 |
| chrX | 1604472 | 1.03% | 890 |
| chrY | 1163 | <0.01% | 2 |
| 3341 contigs with no values (129060516 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 30485 | 250 | 32278 | 1746.11 | 1383 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF821CCT.bed.gz | 880.14 KB | 2f6d2043b03a742a5312cf359bee0a22 |
| ENCFF821CCT.tabix.bed.gz | 361.57 KB | 1dd0749b050e4c7ce6e9514b3066fa91 |
| ENCFF821CCT.tabix.bed.gz.tbi | 187.8 KB | 7d5379ea7e7373984fb8db04c46ec3b7 |
| genomic_resource.yaml | 2.81 KB | 0f6f342a15d5216f35992a45a0046ada |
| statistics/ |