Resource
| Id | Histone_ChIP-seq/ENCSR768FWX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR768FWX [biosample_summary="Homo sapiens H1" and target="H3K56ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN199POQ|/analyses/ENCAN199POQ/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_warning: Processed alignments file {ENCFF826VZK|/files/ENCFF826VZK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 12004403 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K56ac-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 {ENCFF782BDE|/files/ENCFF782BDE/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19826267 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K56ac-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 {ENCFF826VZK|/files/ENCFF826VZK/} 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 {ENCFF826VZK|/files/ENCFF826VZK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.18. 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 {ENCFF782BDE|/files/ENCFF782BDE/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.80. 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 {ENCFF782BDE|/files/ENCFF782BDE/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 4.75. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR768FWX | float |
Histone_ChIP-seq_ENCSR768FWX |
Histone_ChIP-seq ENCSR768FWX [biosample_summary="Homo sapiens H1" and target="H3K56ac"]
|
 |
[1.9, 22.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9422199 | 0.29% | 22425 |
| chr1 | 943657 | 0.38% | 2301 |
| chr2 | 670666 | 0.28% | 1597 |
| chr3 | 478361 | 0.24% | 1212 |
| chr4 | 380524 | 0.20% | 911 |
| chr5 | 478699 | 0.26% | 1138 |
| chr6 | 552218 | 0.32% | 1295 |
| chr7 | 483488 | 0.30% | 1145 |
| chr8 | 366611 | 0.25% | 873 |
| chr9 | 382264 | 0.28% | 915 |
| chr10 | 407441 | 0.30% | 981 |
| chr11 | 520863 | 0.39% | 1235 |
| chr12 | 519783 | 0.39% | 1216 |
| chr13 | 207869 | 0.18% | 507 |
| chr14 | 308376 | 0.29% | 739 |
| chr15 | 255281 | 0.25% | 629 |
| chr16 | 411959 | 0.46% | 961 |
| chr17 | 500744 | 0.60% | 1202 |
| chr18 | 152599 | 0.19% | 382 |
| chr19 | 598973 | 1.02% | 1348 |
| chr20 | 273089 | 0.42% | 658 |
| chr21 | 130125 | 0.28% | 284 |
| chr22 | 237037 | 0.47% | 524 |
| chrX | 147290 | 0.09% | 340 |
| chrY | 14282 | 0.02% | 32 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 22425 | 150 | 3736 | 420.16 | 352 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF600YNW.bed.gz | 500.81 KB | df23a2bededbd38874a2fbcfa6821faa |
| ENCFF600YNW.tabix.bed.gz | 234.86 KB | 0a6d7cc0279e0bce93cf77df5ec8cca7 |
| ENCFF600YNW.tabix.bed.gz.tbi | 133.46 KB | de86be92ccee0b9fa7c22140b9ebce73 |
| genomic_resource.yaml | 5.0 KB | af47d3fee7079d6f7288338a4dff19f8 |
| statistics/ |