Resource
| Id | TF_ChIP-seq/ENCSR000BQG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | TF_ChIP-seq ENCSR000BQG [biosample_summary="Homo sapiens H1" and target="SP2"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN940GKW|/analyses/ENCAN940GKW/} has in progress subobject document {f6f2231d-01aa-4382-bbe6-719ef909ec1b|/documents/f6f2231d-01aa-4382-bbe6-719ef909ec1b/} audit_internal_action: Released analysis {ENCAN940GKW|/analyses/ENCAN940GKW/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-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 {ENCFF985PIZ|/files/ENCFF985PIZ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.84. 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 {ENCFF985PIZ|/files/ENCFF985PIZ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.30. 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 {ENCFF054MMZ|/files/ENCFF054MMZ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF054MMZ|/files/ENCFF054MMZ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.79. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BQG | float |
TF_ChIP-seq_ENCSR000BQG |
TF_ChIP-seq ENCSR000BQG [biosample_summary="Homo sapiens H1" and target="SP2"]
|
 |
[6.18, 550] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 738273 | 0.02% | 2475 |
| chr1 | 66487 | 0.03% | 223 |
| chr2 | 39647 | 0.02% | 149 |
| chr3 | 34830 | 0.02% | 129 |
| chr4 | 20097 | 0.01% | 67 |
| chr5 | 28966 | 0.02% | 97 |
| chr6 | 41925 | 0.02% | 136 |
| chr7 | 39276 | 0.02% | 129 |
| chr8 | 21413 | 0.01% | 74 |
| chr9 | 27845 | 0.02% | 91 |
| chr10 | 21871 | 0.02% | 74 |
| chr11 | 38132 | 0.03% | 129 |
| chr12 | 35648 | 0.03% | 121 |
| chr13 | 12872 | 0.01% | 43 |
| chr14 | 29943 | 0.03% | 98 |
| chr15 | 20795 | 0.02% | 71 |
| chr16 | 42864 | 0.05% | 140 |
| chr17 | 50818 | 0.06% | 157 |
| chr18 | 8744 | 0.01% | 31 |
| chr19 | 96697 | 0.16% | 316 |
| chr20 | 17531 | 0.03% | 62 |
| chr21 | 4999 | 0.01% | 18 |
| chr22 | 15734 | 0.03% | 56 |
| chrX | 21139 | 0.01% | 64 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 2475 | 8 | 773 | 298.29 | 376 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF309QRC.bed.gz | 40.79 KB | 311e63beaf63314eefd174f6a749b8c3 |
| ENCFF309QRC.tabix.bed.gz | 30.29 KB | 0f66781b26663b1cea16b3fc67a7fb18 |
| ENCFF309QRC.tabix.bed.gz.tbi | 26.98 KB | 3216ac91d9331f00262f8f7dfb13da98 |
| genomic_resource.yaml | 4.17 KB | d88ec7d9f47ea596040c9e4ddfab9d37 |
| statistics/ |