Resource
| Id | Histone_ChIP-seq/ENCSR058FCG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR058FCG [biosample_summary="Homo sapiens neutrophil" and target="H3K27me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN328HTF|/analyses/ENCAN328HTF/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-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 {ENCFF517KOQ|/files/ENCFF517KOQ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF517KOQ|/files/ENCFF517KOQ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.33. 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 {ENCFF357NBS|/files/ENCFF357NBS/} processed by ChIP-seq ENCODE3 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 {ENCFF357NBS|/files/ENCFF357NBS/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.42. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR058FCG | float |
Histone_ChIP-seq_ENCSR058FCG |
Histone_ChIP-seq ENCSR058FCG [biosample_summary="Homo sapiens neutrophil" and target="H3K27me3"]
|
 |
[1.48, 34.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 153561539 | 4.77% | 98481 |
| chr1 | 15189027 | 6.10% | 9580 |
| chr1_KI270712v1_random | 12723 | 7.23% | 13 |
| chr1_KI270713v1_random | 6284 | 15.42% | 7 |
| chr1_KI270714v1_random | 5103 | 12.23% | 12 |
| chr2 | 11335740 | 4.68% | 7463 |
| chr3 | 6788910 | 3.42% | 4506 |
| chr4 | 5618031 | 2.95% | 3581 |
| chr5 | 8497134 | 4.68% | 5237 |
| chr6 | 9092249 | 5.32% | 5662 |
| chr7 | 6815241 | 4.28% | 4291 |
| chr8 | 6747333 | 4.65% | 4363 |
| chr9 | 7160921 | 5.17% | 4696 |
| chr9_KI270717v1_random | 661 | 1.65% | 2 |
| chr9_KI270718v1_random | 538 | 1.41% | 1 |
| chr10 | 8604406 | 6.43% | 5767 |
| chr11 | 9222212 | 6.83% | 6288 |
| chr12 | 7115871 | 5.34% | 4534 |
| chr13 | 3622738 | 3.17% | 2232 |
| chr14 | 5184931 | 4.84% | 3396 |
| chr15 | 6383416 | 6.26% | 4471 |
| chr16 | 4858970 | 5.38% | 3166 |
| chr16_KI270728v1_random | 471 | 0.03% | 1 |
| chr17 | 8982065 | 10.79% | 5244 |
| chr17_GL000205v2_random | 14432 | 7.78% | 10 |
| chr17_KI270729v1_random | 1205 | 0.43% | 2 |
| chr18 | 3151154 | 3.92% | 2179 |
| chr19 | 6464984 | 11.03% | 3648 |
| chr20 | 6286446 | 9.75% | 4178 |
| chr21 | 1501696 | 3.21% | 998 |
| chr22 | 3173485 | 6.24% | 2101 |
| chr22_KI270732v1_random | 409 | 0.98% | 1 |
| chr22_KI270733v1_random | 7211 | 4.01% | 15 |
| chr22_KI270735v1_random | 391 | 0.91% | 1 |
| chr22_KI270738v1_random | 1367 | 1.38% | 2 |
| chrUn_GL000219v1 | 6354 | 3.55% | 8 |
| chrUn_GL000220v1 | 1468 | 0.91% | 4 |
| chrUn_KI270744v1 | 5306 | 3.15% | 8 |
| chrUn_KI270749v1 | 1101 | 0.69% | 1 |
| chrUn_KI270754v1 | 349 | 0.87% | 1 |
| chrX | 1667859 | 1.07% | 792 |
| chrY | 31347 | 0.05% | 19 |
| 3325 contigs with no values (125329352 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 98481 | 205 | 154248 | 1559.3 | 763 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF960HNH.bed.gz | 2.11 MB | 8ad8c2b7691dc7755e7eb83b4c147f73 |
| ENCFF960HNH.tabix.bed.gz | 1022.96 KB | a7440c8c89f7f53567aa6b7dcefdb2cc |
| ENCFF960HNH.tabix.bed.gz.tbi | 199.87 KB | 62c9d3a2fddcd05f57efb8c5f05c8ed9 |
| genomic_resource.yaml | 3.99 KB | bf192cc0661efb5035b24f063fcfca42 |
| statistics/ |