Resource
| Id | Histone_ChIP-seq/ENCSR479HKJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR479HKJ [biosample_summary="Homo sapiens GM23248" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN782TUB|/analyses/ENCAN782TUB/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN782TUB|/analyses/ENCAN782TUB/} has in progress subobject document {c41cdab8-1260-427d-acad-b3474d622e92|/documents/c41cdab8-1260-427d-acad-b3474d622e92/} 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 {ENCFF588ZLF|/files/ENCFF588ZLF/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF588ZLF|/files/ENCFF588ZLF/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.32. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR479HKJ | float |
Histone_ChIP-seq_ENCSR479HKJ |
Histone_ChIP-seq ENCSR479HKJ [biosample_summary="Homo sapiens GM23248" and target="H3K4me3"]
|
 |
[1.67, 39.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 66576154 | 2.07% | 50573 |
| chr1 | 6395743 | 2.57% | 4799 |
| chr2 | 5103016 | 2.11% | 4009 |
| chr3 | 4156256 | 2.10% | 3245 |
| chr4 | 3031689 | 1.59% | 2413 |
| chr5 | 3526364 | 1.94% | 2728 |
| chr6 | 4164273 | 2.44% | 3201 |
| chr7 | 3325397 | 2.09% | 2514 |
| chr8 | 2743785 | 1.89% | 2252 |
| chr9 | 2779322 | 2.01% | 2178 |
| chr10 | 3132632 | 2.34% | 2442 |
| chr11 | 3350517 | 2.48% | 2406 |
| chr12 | 3687873 | 2.77% | 2687 |
| chr13 | 1574716 | 1.38% | 1271 |
| chr14 | 2145878 | 2.00% | 1589 |
| chr15 | 2215846 | 2.17% | 1661 |
| chr16 | 2205261 | 2.44% | 1608 |
| chr17 | 3306265 | 3.97% | 2374 |
| chr18 | 1302810 | 1.62% | 1088 |
| chr19 | 3121997 | 5.33% | 2103 |
| chr20 | 1569134 | 2.43% | 1222 |
| chr21 | 703247 | 1.51% | 588 |
| chr22 | 1235662 | 2.43% | 904 |
| chrX | 1731479 | 1.11% | 1252 |
| chrY | 66992 | 0.12% | 39 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 50573 | 210 | 25954 | 1316.44 | 869 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF123ETI.bed.gz | 1.38 MB | 2427f796dac4c95eb56f19bc54f32e95 |
| ENCFF123ETI.tabix.bed.gz | 584.08 KB | dde55a6f7d3bb1950a90ded0e9a5cdc9 |
| ENCFF123ETI.tabix.bed.gz.tbi | 256.69 KB | 9b2f88492faaafab2d126b75875397e2 |
| genomic_resource.yaml | 2.91 KB | 30ecbc98a82e530ac8ded2d65d288970 |
| statistics/ |