Resource
| Id | Histone_ChIP-seq/ENCSR329FXI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR329FXI [biosample_summary="Homo sapiens skeletal muscle tissue tissue female adult (72 years)" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (72 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN250XCI|/analyses/ENCAN250XCI/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed redacted alignments file {ENCFF082LKM|/files/ENCFF082LKM/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 17834233 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27ac-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 {ENCFF082LKM|/files/ENCFF082LKM/} processed by ChIP-seq ENCODE3 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 redacted alignments file {ENCFF082LKM|/files/ENCFF082LKM/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.67. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR329FXI | float |
Histone_ChIP-seq_ENCSR329FXI |
Histone_ChIP-seq ENCSR329FXI [biosample_summary="Homo sapiens skeletal muscle tissue tissue female adult (72 years)" and target="H3K27ac"]
|
 |
[1.81, 123] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 86942459 | 2.70% | 61937 |
| chr1 | 9080713 | 3.65% | 6144 |
| chr1_KI270713v1_random | 511 | 1.25% | 1 |
| chr2 | 6784983 | 2.80% | 4946 |
| chr3 | 5957539 | 3.00% | 4163 |
| chr4 | 3365248 | 1.77% | 2397 |
| chr5 | 4506995 | 2.48% | 3225 |
| chr6 | 5010139 | 2.93% | 3689 |
| chr7 | 3777515 | 2.37% | 2876 |
| chr8 | 3560167 | 2.45% | 2601 |
| chr9 | 3674527 | 2.66% | 2708 |
| chr10 | 4743066 | 3.54% | 3362 |
| chr11 | 4452349 | 3.30% | 3016 |
| chr12 | 4341289 | 3.26% | 3016 |
| chr13 | 1794145 | 1.57% | 1396 |
| chr14 | 2941412 | 2.75% | 2026 |
| chr15 | 3072515 | 3.01% | 2201 |
| chr16 | 3051699 | 3.38% | 2242 |
| chr17 | 4790982 | 5.75% | 3213 |
| chr18 | 1507240 | 1.88% | 1110 |
| chr19 | 3490217 | 5.95% | 2393 |
| chr20 | 2309818 | 3.58% | 1691 |
| chr21 | 964035 | 2.06% | 708 |
| chr22 | 2093484 | 4.12% | 1481 |
| chrUn_GL000219v1 | 1226 | 0.68% | 1 |
| chrX | 1670645 | 1.07% | 1331 |
| 3341 contigs with no values (186084557 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 61937 | 275 | 32433 | 1403.72 | 1005 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF216VYV.bed.gz | 1.48 MB | 54b8c5aa0fd202ba310c1c9e958ec89c |
| ENCFF216VYV.tabix.bed.gz | 677.59 KB | 159ae95fa10641b7c1f4b3fe2b3dd56a |
| ENCFF216VYV.tabix.bed.gz.tbi | 220.56 KB | 63f0559d07cf6c025c08cb82f832b318 |
| genomic_resource.yaml | 3.3 KB | 7916094c4c25fb5454fc57b33dfff202 |
| statistics/ |