Resource
| Id | Histone_ChIP-seq/ENCSR152GST |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR152GST [biosample_summary="Homo sapiens foreskin melanocyte male newborn" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: male newborn output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN953MIE|/analyses/ENCAN953MIE/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed redacted alignments file {ENCFF763XKK|/files/ENCFF763XKK/} processed by ChIP-seq ENCODE3 hg19 pipeline has 18742193 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) 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 redacted alignments file {ENCFF763XKK|/files/ENCFF763XKK/} 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 redacted alignments file {ENCFF763XKK|/files/ENCFF763XKK/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.74. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR152GST | float |
Histone_ChIP-seq_ENCSR152GST |
Histone_ChIP-seq ENCSR152GST [biosample_summary="Homo sapiens foreskin melanocyte male newborn" and target="H3K9ac"]
|
 |
[1.9, 108] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 47479246 | 1.48% | 64958 |
| chr1 | 4308522 | 1.73% | 5883 |
| chr2 | 2679501 | 1.11% | 3744 |
| chr3 | 1836924 | 0.93% | 2528 |
| chr4 | 1580275 | 0.83% | 2166 |
| chr5 | 1675868 | 0.92% | 2293 |
| chr6 | 1834389 | 1.07% | 2470 |
| chr7 | 2458508 | 1.54% | 3424 |
| chr8 | 1748278 | 1.20% | 2211 |
| chr9 | 2439347 | 1.76% | 3256 |
| chr10 | 1755981 | 1.31% | 2533 |
| chr11 | 2976312 | 2.20% | 3994 |
| chr12 | 2062492 | 1.55% | 2879 |
| chr13 | 761894 | 0.67% | 1067 |
| chr14 | 1548715 | 1.45% | 2089 |
| chr15 | 1264916 | 1.24% | 1774 |
| chr16 | 3078106 | 3.41% | 4039 |
| chr17 | 3468236 | 4.17% | 4666 |
| chr18 | 669657 | 0.83% | 926 |
| chr19 | 4530791 | 7.73% | 6085 |
| chr20 | 1493170 | 2.32% | 2131 |
| chr21 | 793975 | 1.70% | 1164 |
| chr22 | 1755279 | 3.45% | 2590 |
| chrX | 739116 | 0.47% | 1017 |
| chrY | 18994 | 0.03% | 29 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 64958 | 220 | 10526 | 730.92 | 543 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF973JPP.bed.gz | 1.36 MB | 58a8a370ac87986b5a202c5dbd5a25ac |
| ENCFF973JPP.tabix.bed.gz | 655.89 KB | c9eafed8ce8b200eb85fd1a11816493d |
| ENCFF973JPP.tabix.bed.gz.tbi | 215.2 KB | 73e99c48152f17da8c5167de398318ae |
| genomic_resource.yaml | 3.21 KB | 6d144e3c921cb1ac6d3b5f7453d1fa45 |
| statistics/ |