Resource
| Id | Histone_ChIP-seq/ENCSR783AXV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR783AXV [biosample_summary="Homo sapiens smooth muscle cell originated from H9" and target="H3K4me2"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: female embryo (5 days) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN734ZEK|/analyses/ENCAN734ZEK/} 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 {ENCFF553PRV|/files/ENCFF553PRV/} processed by ChIP-seq ENCODE3 GRCh38 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 {ENCFF553PRV|/files/ENCFF553PRV/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.38. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR783AXV | float |
Histone_ChIP-seq_ENCSR783AXV |
Histone_ChIP-seq ENCSR783AXV [biosample_summary="Homo sapiens smooth muscle cell originated from H9" and target="H3K4me2"]
|
 |
[1.19, 25.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 139073312 | 4.32% | 121856 |
| chr1 | 12591644 | 5.06% | 10747 |
| chr1_KI270713v1_random | 2600 | 6.38% | 6 |
| chr2 | 11248712 | 4.64% | 10101 |
| chr3 | 9195309 | 4.64% | 8270 |
| chr4 | 7506314 | 3.95% | 6728 |
| chr5 | 8526801 | 4.70% | 7614 |
| chr6 | 9023125 | 5.28% | 7872 |
| chr7 | 7006468 | 4.40% | 6256 |
| chr8 | 6676586 | 4.60% | 6096 |
| chr9 | 5985689 | 4.33% | 5287 |
| chr9_KI270717v1_random | 386 | 0.96% | 1 |
| chr10 | 6632916 | 4.96% | 5911 |
| chr11 | 7287776 | 5.39% | 6220 |
| chr12 | 7037976 | 5.28% | 5875 |
| chr13 | 3743657 | 3.27% | 3555 |
| chr14 | 4662199 | 4.36% | 3964 |
| chr15 | 4626832 | 4.54% | 4037 |
| chr16 | 3976261 | 4.40% | 3466 |
| chr17 | 5797266 | 6.96% | 4606 |
| chr17_GL000205v2_random | 2487 | 1.34% | 3 |
| chr18 | 3391627 | 4.22% | 3121 |
| chr19 | 3996463 | 6.82% | 2969 |
| chr20 | 3172336 | 4.92% | 2878 |
| chr21 | 1650172 | 3.53% | 1521 |
| chr22 | 2086054 | 4.10% | 1802 |
| chr22_KI270733v1_random | 1067 | 0.59% | 4 |
| chrUn_GL000195v1 | 4059 | 2.22% | 7 |
| chrUn_KI270467v1 | 541 | 13.80% | 1 |
| chrX | 3239989 | 2.08% | 2938 |
| 3337 contigs with no values (185671514 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 121856 | 185 | 39703 | 1141.29 | 799 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF329ARL.bed.gz | 3.07 MB | e98e61eafbbf804117b5bf035ca120f5 |
| ENCFF329ARL.tabix.bed.gz | 1.31 MB | 20782a1d64847f56af83adad13cda774 |
| ENCFF329ARL.tabix.bed.gz.tbi | 403.56 KB | ad555cb354b13085a6da691dbe7f5d6d |
| genomic_resource.yaml | 2.76 KB | 77a059de26bbf1abed27d8caf92a2ab1 |
| statistics/ |