Resource
| Id | TF_ChIP-seq/ENCSR000BHJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | TF_ChIP-seq ENCSR000BHJ [biosample_summary="Homo sapiens GM12878" and target="PAX5"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN209ANP|/analyses/ENCAN209ANP/} has in progress subobject document {37567562-ee4a-4f67-b6c8-389037a830dd|/documents/37567562-ee4a-4f67-b6c8-389037a830dd/} audit_internal_action: Released analysis {ENCAN209ANP|/analyses/ENCAN209ANP/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF559TUN|/files/ENCFF559TUN/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 10372010 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting PAX5-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_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF192WNJ|/files/ENCFF192WNJ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.15 and a self consistency ratio of 3.64. 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. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BHJ | float |
TF_ChIP-seq_ENCSR000BHJ |
TF_ChIP-seq ENCSR000BHJ [biosample_summary="Homo sapiens GM12878" and target="PAX5"]
|
 |
[4.66, 458] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 6724002 | 0.21% | 25355 |
| chr1 | 621899 | 0.25% | 2319 |
| chr2 | 518989 | 0.21% | 1962 |
| chr3 | 407617 | 0.21% | 1533 |
| chr4 | 257284 | 0.14% | 969 |
| chr5 | 345844 | 0.19% | 1311 |
| chr6 | 435823 | 0.26% | 1633 |
| chr7 | 332236 | 0.21% | 1255 |
| chr8 | 270615 | 0.19% | 1036 |
| chr9 | 267386 | 0.19% | 1004 |
| chr10 | 328585 | 0.25% | 1248 |
| chr11 | 345753 | 0.26% | 1299 |
| chr12 | 342319 | 0.26% | 1273 |
| chr13 | 151853 | 0.13% | 554 |
| chr14 | 232683 | 0.22% | 873 |
| chr15 | 230129 | 0.23% | 894 |
| chr16 | 270803 | 0.30% | 1014 |
| chr17 | 351881 | 0.42% | 1348 |
| chr18 | 131344 | 0.16% | 494 |
| chr19 | 336298 | 0.57% | 1282 |
| chr20 | 191025 | 0.30% | 708 |
| chr21 | 84431 | 0.18% | 318 |
| chr22 | 149027 | 0.29% | 575 |
| chrX | 120178 | 0.08% | 453 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 25355 | 1 | 1360 | 265.19 | 304 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF192WNJ.bed.gz | 387.54 KB | 866bbfb6db56f046bf0d0c0226b49277 |
| ENCFF192WNJ.tabix.bed.gz | 293.2 KB | d49c255cc1a1c1713fae59044b26dcbb |
| ENCFF192WNJ.tabix.bed.gz.tbi | 148.53 KB | fad0f5728ff3cde41a235f560a64306a |
| genomic_resource.yaml | 2.6 KB | 8a2cf70d9063f0dfa42b447291a3cf19 |
| statistics/ |