Resource
| Id | TF_ChIP-seq/ENCSR000BTB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | TF_ChIP-seq ENCSR000BTB [biosample_summary="Homo sapiens SK-N-SH" and target="FOXM1"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN241EFN|/analyses/ENCAN241EFN/} has in progress subobject document {838a0aab-32fe-4dfc-85e5-60079bc4cc5a|/documents/838a0aab-32fe-4dfc-85e5-60079bc4cc5a/} audit_internal_action: Released analysis {ENCAN241EFN|/analyses/ENCAN241EFN/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF478RQQ|/files/ENCFF478RQQ/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 15224424 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting FOXM1-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 {ENCFF259SAY|/files/ENCFF259SAY/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 18354467 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting FOXM1-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 {ENCFF478RQQ|/files/ENCFF478RQQ/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF478RQQ|/files/ENCFF478RQQ/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.28. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BTB | float |
TF_ChIP-seq_ENCSR000BTB |
TF_ChIP-seq ENCSR000BTB [biosample_summary="Homo sapiens SK-N-SH" and target="FOXM1"]
|
 |
[4.74, 341] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 4408252 | 0.14% | 12433 |
| chr1 | 407982 | 0.16% | 1135 |
| chr2 | 423719 | 0.17% | 1173 |
| chr3 | 300958 | 0.15% | 851 |
| chr4 | 254673 | 0.13% | 713 |
| chr5 | 306713 | 0.17% | 876 |
| chr6 | 279192 | 0.16% | 791 |
| chr7 | 308654 | 0.19% | 878 |
| chr8 | 215841 | 0.15% | 634 |
| chr9 | 175121 | 0.13% | 480 |
| chr10 | 244672 | 0.18% | 694 |
| chr11 | 221216 | 0.16% | 612 |
| chr12 | 229497 | 0.17% | 642 |
| chr13 | 138389 | 0.12% | 401 |
| chr14 | 120241 | 0.11% | 353 |
| chr15 | 134816 | 0.13% | 390 |
| chr16 | 76772 | 0.08% | 206 |
| chr17 | 183302 | 0.22% | 515 |
| chr18 | 92398 | 0.11% | 255 |
| chr19 | 53242 | 0.09% | 155 |
| chr20 | 80004 | 0.12% | 215 |
| chr21 | 54045 | 0.12% | 159 |
| chr22 | 35270 | 0.07% | 99 |
| chrX | 71535 | 0.05% | 206 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 12433 | 1 | 600 | 354.56 | 456 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF102GYM.bed.gz | 189.12 KB | c91869713ef5d393cafa4398b0609cc0 |
| ENCFF102GYM.tabix.bed.gz | 143.44 KB | 225b3ed892cefccac8a189b259f80311 |
| ENCFF102GYM.tabix.bed.gz.tbi | 75.58 KB | e2ea5a5567f3e64250af860fe83dc621 |
| genomic_resource.yaml | 3.88 KB | a8c5a0e3f7e6f3c67ac8bff5cb7fbcba |
| statistics/ |