Resource
| Id | TF_ChIP-seq/ENCSR000BKH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | TF_ChIP-seq ENCSR000BKH [biosample_summary="Homo sapiens K562" and target="BCLAF1"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN833BKA|/analyses/ENCAN833BKA/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF477WUN|/files/ENCFF477WUN/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11132979 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting BCLAF1-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: Processed alignments file {ENCFF144FIS|/files/ENCFF144FIS/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11735102 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting BCLAF1-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: 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 {ENCFF477WUN|/files/ENCFF477WUN/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF477WUN|/files/ENCFF477WUN/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.55. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BKH | float |
TF_ChIP-seq_ENCSR000BKH |
TF_ChIP-seq ENCSR000BKH [biosample_summary="Homo sapiens K562" and target="BCLAF1"]
|
 |
[4.99, 413] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 715106 | 0.02% | 2403 |
| chr1 | 106867 | 0.04% | 356 |
| chr2 | 44089 | 0.02% | 144 |
| chr3 | 35519 | 0.02% | 117 |
| chr4 | 19774 | 0.01% | 65 |
| chr5 | 36662 | 0.02% | 120 |
| chr6 | 108386 | 0.06% | 392 |
| chr7 | 50904 | 0.03% | 167 |
| chr8 | 17889 | 0.01% | 60 |
| chr9 | 18807 | 0.01% | 58 |
| chr10 | 24427 | 0.02% | 87 |
| chr11 | 43871 | 0.03% | 155 |
| chr12 | 29293 | 0.02% | 103 |
| chr13 | 6300 | 0.01% | 18 |
| chr14 | 7000 | 0.01% | 20 |
| chr15 | 19556 | 0.02% | 61 |
| chr16 | 23225 | 0.03% | 72 |
| chr17 | 38136 | 0.05% | 124 |
| chr18 | 6412 | 0.01% | 24 |
| chr19 | 41139 | 0.07% | 130 |
| chr20 | 11465 | 0.02% | 37 |
| chr21 | 6540 | 0.01% | 20 |
| chr22 | 11004 | 0.02% | 42 |
| chrX | 7841 | 0.01% | 31 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 2403 | 3 | 646 | 297.59 | 350 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF203EDM.bed.gz | 39.97 KB | 3946dde3684d502243421593940f2481 |
| ENCFF203EDM.tabix.bed.gz | 28.54 KB | 23f7f5ee928f6309bc9a37dda37b21c6 |
| ENCFF203EDM.tabix.bed.gz.tbi | 22.8 KB | b3ba4d6e263c7e485bc34294f2bc51f6 |
| genomic_resource.yaml | 3.64 KB | e2edca627eb54717d207214a3e3b2d70 |
| statistics/ |