Resource
| Id | Histone_ChIP-seq/ENCSR470PLJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR470PLJ [biosample_summary="Homo sapiens HUES64" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN078IXZ|/analyses/ENCAN078IXZ/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN078IXZ|/analyses/ENCAN078IXZ/} has in progress subobject document {b2e237eb-1387-4b74-8a51-0735238443ed|/documents/b2e237eb-1387-4b74-8a51-0735238443ed/} audit_warning: Processed alignments file {ENCFF527MTC|/files/ENCFF527MTC/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19631192 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 alignments file {ENCFF527MTC|/files/ENCFF527MTC/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF527MTC|/files/ENCFF527MTC/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.55. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR470PLJ | float |
Histone_ChIP-seq_ENCSR470PLJ |
Histone_ChIP-seq ENCSR470PLJ [biosample_summary="Homo sapiens HUES64" and target="H3K9ac"]
|
 |
[1.59, 98.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 36697404 | 1.14% | 44463 |
| chr1 | 3645345 | 1.46% | 4359 |
| chr2 | 2537950 | 1.05% | 3009 |
| chr3 | 2178590 | 1.10% | 2583 |
| chr4 | 1580243 | 0.83% | 1828 |
| chr5 | 1835543 | 1.01% | 2197 |
| chr6 | 2263165 | 1.32% | 2574 |
| chr7 | 1823504 | 1.14% | 2254 |
| chr8 | 1368218 | 0.94% | 1744 |
| chr9 | 1469608 | 1.06% | 1820 |
| chr10 | 1540301 | 1.15% | 1888 |
| chr11 | 1907909 | 1.41% | 2271 |
| chr12 | 1974608 | 1.48% | 2317 |
| chr13 | 845978 | 0.74% | 1048 |
| chr14 | 1191271 | 1.11% | 1408 |
| chr15 | 1173372 | 1.15% | 1433 |
| chr16 | 1411280 | 1.56% | 1773 |
| chr17 | 1936133 | 2.33% | 2405 |
| chr18 | 665003 | 0.83% | 827 |
| chr19 | 1999886 | 3.41% | 2496 |
| chr20 | 984745 | 1.53% | 1220 |
| chr21 | 345974 | 0.74% | 430 |
| chr22 | 783638 | 1.54% | 1015 |
| chrX | 1179246 | 0.76% | 1509 |
| chrY | 55894 | 0.10% | 55 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 44463 | 178 | 9767 | 825.35 | 598 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF779CSR.bed.gz | 1.14 MB | 88f0adb578d8e7eddacdca196479d124 |
| ENCFF779CSR.tabix.bed.gz | 496.59 KB | 7c4bf8c0efc61bd14556edde6951a765 |
| ENCFF779CSR.tabix.bed.gz.tbi | 211.58 KB | 5d05371b2efd6a666283bad9cacab7d7 |
| genomic_resource.yaml | 3.41 KB | 7956f29b7f433c41400db9c1d56811a4 |
| statistics/ |