Resource
| Id | Histone_ChIP-seq/ENCSR269ULZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR269ULZ [biosample_summary="Homo sapiens cardiac muscle cell originated from RUES2" and target="H3K9me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: embryo output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN801AMI|/analyses/ENCAN801AMI/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed unfiltered alignments file {ENCFF334GUJ|/files/ENCFF334GUJ/} processed by ChIP-seq ENCODE3 hg19 pipeline has 39341160 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. The recommended value is > 45 million, but > 35 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 {ENCFF843MXG|/files/ENCFF843MXG/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF843MXG|/files/ENCFF843MXG/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.12. 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 {ENCFF311UHM|/files/ENCFF311UHM/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF311UHM|/files/ENCFF311UHM/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.23. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR269ULZ | float |
Histone_ChIP-seq_ENCSR269ULZ |
Histone_ChIP-seq ENCSR269ULZ [biosample_summary="Homo sapiens cardiac muscle cell originated from RUES2" and target="H3K9me3"]
|
 |
[1.24, 5.58] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 3054371 | 0.09% | 7242 |
| chr1 | 144222 | 0.06% | 382 |
| chr2 | 136343 | 0.06% | 338 |
| chr3 | 86390 | 0.04% | 248 |
| chr4 | 202688 | 0.11% | 452 |
| chr5 | 114983 | 0.06% | 320 |
| chr6 | 69774 | 0.04% | 219 |
| chr7 | 206640 | 0.13% | 500 |
| chr8 | 120926 | 0.08% | 335 |
| chr9 | 85597 | 0.06% | 205 |
| chr10 | 174422 | 0.13% | 390 |
| chr11 | 122980 | 0.09% | 326 |
| chr12 | 109819 | 0.08% | 276 |
| chr13 | 50887 | 0.04% | 149 |
| chr14 | 84929 | 0.08% | 220 |
| chr15 | 133548 | 0.13% | 284 |
| chr16 | 168702 | 0.19% | 336 |
| chr17 | 41802 | 0.05% | 112 |
| chr18 | 33598 | 0.04% | 97 |
| chr19 | 333871 | 0.57% | 680 |
| chr20 | 39813 | 0.06% | 103 |
| chr21 | 261825 | 0.56% | 367 |
| chr22 | 23426 | 0.05% | 66 |
| chrX | 264579 | 0.17% | 773 |
| chrY | 42607 | 0.07% | 64 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 7242 | 195 | 5201 | 421.76 | 338 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF817HHD.bed.gz | 140.7 KB | 429b7bd4b859e262c34ab15c38551bc6 |
| ENCFF817HHD.tabix.bed.gz | 72.54 KB | 13cb67ae349242a87cd0eb46962b0620 |
| ENCFF817HHD.tabix.bed.gz.tbi | 52.1 KB | ff8ed9e0adfa148a30146507232328e9 |
| genomic_resource.yaml | 4.46 KB | 13988fa16049497422916d5494f3dd76 |
| statistics/ |