Resource
| Id | Histone_ChIP-seq/ENCSR590ZSL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR590ZSL [biosample_summary="Homo sapiens SJSA1" and target="H3K4me1"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Released analysis {ENCAN208EBK|/analyses/ENCAN208EBK/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-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 {ENCFF827HTH|/files/ENCFF827HTH/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF827HTH|/files/ENCFF827HTH/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.01. 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 {ENCFF165XGW|/files/ENCFF165XGW/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.93. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR590ZSL | float |
Histone_ChIP-seq_ENCSR590ZSL |
Histone_ChIP-seq ENCSR590ZSL [biosample_summary="Homo sapiens SJSA1" and target="H3K4me1"]
|
 |
[1.22, 21] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 141710176 | 4.40% | 122191 |
| chr1 | 13312353 | 5.35% | 11349 |
| chr2 | 12582647 | 5.20% | 10624 |
| chr3 | 9327312 | 4.70% | 8079 |
| chr4 | 6136472 | 3.23% | 5785 |
| chr5 | 9173029 | 5.05% | 7541 |
| chr6 | 9197727 | 5.38% | 8052 |
| chr7 | 7003470 | 4.40% | 6151 |
| chr8 | 7116363 | 4.90% | 5897 |
| chr9 | 5678875 | 4.10% | 4924 |
| chr10 | 7244544 | 5.41% | 6049 |
| chr11 | 6120735 | 4.53% | 5315 |
| chr12 | 7108985 | 5.33% | 6116 |
| chr13 | 3628881 | 3.17% | 3258 |
| chr14 | 4100446 | 3.83% | 3658 |
| chr15 | 5148835 | 5.05% | 4235 |
| chr16 | 4573830 | 5.06% | 3907 |
| chr17 | 6438134 | 7.73% | 5357 |
| chr18 | 3395894 | 4.23% | 2892 |
| chr19 | 3357995 | 5.73% | 3280 |
| chr20 | 3648565 | 5.66% | 3089 |
| chr21 | 1916108 | 4.10% | 1549 |
| chr22 | 2852942 | 5.61% | 2341 |
| chrX | 2520983 | 1.62% | 2604 |
| chrY | 125051 | 0.22% | 139 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 122191 | 243 | 25013 | 1159.74 | 853 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF762WAB.bed.gz | 3.25 MB | 30e0edeb3cf04c51be92f964ea103fdb |
| ENCFF762WAB.tabix.bed.gz | 1.33 MB | 9bc83ccf0e42d598f1b4e6491ce534e7 |
| ENCFF762WAB.tabix.bed.gz.tbi | 332.05 KB | 37c61f4ee6b1e33957e7ee0d83c2e34d |
| genomic_resource.yaml | 3.32 KB | 33581febb96df0877a43dc7ce4a3aac2 |
| statistics/ |