Resource
| Id | Histone_ChIP-seq/ENCSR874HSH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR874HSH [biosample_summary="Homo sapiens OCI-LY1" and target="H2AFZ"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN361XRF|/analyses/ENCAN361XRF/} has in progress subobject document {7b96595a-1511-4a2a-b17c-0ab85caf01e0|/documents/7b96595a-1511-4a2a-b17c-0ab85caf01e0/} audit_internal_action: Released analysis {ENCAN361XRF|/analyses/ENCAN361XRF/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-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 {ENCFF399RGS|/files/ENCFF399RGS/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 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 {ENCFF399RGS|/files/ENCFF399RGS/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.34. 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 {ENCFF483FWX|/files/ENCFF483FWX/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF483FWX|/files/ENCFF483FWX/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.30. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR874HSH | float |
Histone_ChIP-seq_ENCSR874HSH |
Histone_ChIP-seq ENCSR874HSH [biosample_summary="Homo sapiens OCI-LY1" and target="H2AFZ"]
|
 |
[1.48, 9.92] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15190922 | 0.47% | 27876 |
| chr1 | 1244872 | 0.50% | 2351 |
| chr2 | 1219778 | 0.50% | 2285 |
| chr3 | 1286333 | 0.65% | 2350 |
| chr4 | 1443630 | 0.76% | 2600 |
| chr5 | 772368 | 0.43% | 1421 |
| chr6 | 933709 | 0.55% | 1701 |
| chr7 | 1763524 | 1.11% | 2930 |
| chr8 | 646404 | 0.45% | 1194 |
| chr9 | 482715 | 0.35% | 938 |
| chr10 | 406890 | 0.30% | 775 |
| chr11 | 422039 | 0.31% | 778 |
| chr12 | 685085 | 0.51% | 1279 |
| chr13 | 1207225 | 1.06% | 1960 |
| chr14 | 569470 | 0.53% | 1067 |
| chr15 | 300373 | 0.29% | 591 |
| chr16 | 274655 | 0.30% | 545 |
| chr17 | 267241 | 0.32% | 567 |
| chr18 | 282485 | 0.35% | 533 |
| chr19 | 238795 | 0.41% | 523 |
| chr20 | 210369 | 0.33% | 433 |
| chr21 | 243901 | 0.52% | 448 |
| chr22 | 84573 | 0.17% | 190 |
| chrX | 193833 | 0.12% | 397 |
| chrY | 10655 | 0.02% | 20 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 27876 | 200 | 3622 | 544.95 | 462 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF669ELG.bed.gz | 635.54 KB | 21890062ab51017003e40425751dda74 |
| ENCFF669ELG.tabix.bed.gz | 297.57 KB | 5a92950f06acb11cb3136e858c15e4b0 |
| ENCFF669ELG.tabix.bed.gz.tbi | 128.38 KB | a2c0b169d1d3dddd9a7a801838508074 |
| genomic_resource.yaml | 4.22 KB | cd5933e7c2b5198815c50720bb84a7e7 |
| statistics/ |