Resource
| Id | TF_ChIP-seq/ENCSR000BHB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | TF_ChIP-seq ENCSR000BHB [biosample_summary="Homo sapiens GM12878" and target="EP300"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN604RWD|/analyses/ENCAN604RWD/} has in progress subobject document {4795c43b-6a44-4de7-9bf2-481e7ca44f02|/documents/4795c43b-6a44-4de7-9bf2-481e7ca44f02/} audit_internal_action: Released analysis {ENCAN604RWD|/analyses/ENCAN604RWD/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF569VGS|/files/ENCFF569VGS/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 6278401 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting EP300-human and investigated as a transcription factor 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_not_compliant: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF707DWY|/files/ENCFF707DWY/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 2.09 and a self consistency ratio of 10.21. According to ENCODE standards, having both rescue ratio and self consistency ratio values < 2 is recommended, but having only one of the ratio values < 2 is acceptable. audit_warning: Processed alignments file {ENCFF119SSU|/files/ENCFF119SSU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 13614606 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting EP300-human and investigated as a transcription factor 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/} ) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BHB | float |
TF_ChIP-seq_ENCSR000BHB |
TF_ChIP-seq ENCSR000BHB [biosample_summary="Homo sapiens GM12878" and target="EP300"]
|
 |
[3.18, 187] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 1215950 | 0.04% | 4845 |
| chr1 | 110541 | 0.04% | 438 |
| chr2 | 92765 | 0.04% | 368 |
| chr3 | 66450 | 0.03% | 262 |
| chr4 | 46736 | 0.02% | 190 |
| chr5 | 64459 | 0.04% | 255 |
| chr6 | 93065 | 0.05% | 366 |
| chr7 | 54545 | 0.03% | 221 |
| chr8 | 53713 | 0.04% | 215 |
| chr9 | 51301 | 0.04% | 204 |
| chr10 | 60226 | 0.05% | 241 |
| chr11 | 54208 | 0.04% | 212 |
| chr12 | 66425 | 0.05% | 258 |
| chr13 | 23263 | 0.02% | 91 |
| chr14 | 42122 | 0.04% | 171 |
| chr15 | 42619 | 0.04% | 172 |
| chr16 | 49998 | 0.06% | 195 |
| chr17 | 63357 | 0.08% | 255 |
| chr18 | 25944 | 0.03% | 101 |
| chr19 | 53759 | 0.09% | 219 |
| chr20 | 31386 | 0.05% | 131 |
| chr21 | 13366 | 0.03% | 53 |
| chr22 | 27536 | 0.05% | 113 |
| chrX | 28166 | 0.02% | 114 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 4845 | 1 | 442 | 250.97 | 270 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF707DWY.bed.gz | 74.88 KB | 9ceef50e6bbdf0d9113bdbb70a1aee43 |
| ENCFF707DWY.tabix.bed.gz | 57.16 KB | df4f77ed2020e22f12938987f5d3e2a8 |
| ENCFF707DWY.tabix.bed.gz.tbi | 43.31 KB | ef94f0d01c131c217ec86015ac2d990c |
| genomic_resource.yaml | 3.13 KB | 4c3aad9ceba945a7da1ba6d0972c7e79 |
| statistics/ |