Resource
| Id | Histone_ChIP-seq/ENCSR114YOX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR114YOX [biosample_summary="Homo sapiens BE2C" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN011MKF|/analyses/ENCAN011MKF/} 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 {ENCFF576GWJ|/files/ENCFF576GWJ/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF576GWJ|/files/ENCFF576GWJ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.50. 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 {ENCFF233OXP|/files/ENCFF233OXP/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF233OXP|/files/ENCFF233OXP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.11. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR114YOX | float |
Histone_ChIP-seq_ENCSR114YOX |
Histone_ChIP-seq ENCSR114YOX [biosample_summary="Homo sapiens BE2C" and target="H3K36me3"]
|
 |
[1.18, 8.62] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 83898343 | 2.61% | 85820 |
| chr1 | 6189963 | 2.49% | 6601 |
| chr2 | 4519232 | 1.87% | 4955 |
| chr3 | 3775461 | 1.90% | 4321 |
| chr4 | 4340374 | 2.28% | 4840 |
| chr5 | 5510511 | 3.04% | 5296 |
| chr6 | 3863149 | 2.26% | 4118 |
| chr7 | 4739325 | 2.97% | 4913 |
| chr8 | 3634933 | 2.50% | 3854 |
| chr9 | 4562758 | 3.30% | 4493 |
| chr10 | 3074874 | 2.30% | 3502 |
| chr11 | 3391642 | 2.51% | 3647 |
| chr12 | 5918088 | 4.44% | 5708 |
| chr13 | 2126653 | 1.86% | 2385 |
| chr14 | 3728288 | 3.48% | 3676 |
| chr15 | 3643888 | 3.57% | 3777 |
| chr16 | 4236490 | 4.69% | 3802 |
| chr17 | 4076152 | 4.90% | 4133 |
| chr18 | 198476 | 0.25% | 314 |
| chr19 | 5034790 | 8.59% | 4584 |
| chr20 | 2816865 | 4.37% | 2632 |
| chr21 | 1110285 | 2.38% | 1111 |
| chr22 | 2683095 | 5.28% | 2284 |
| chrX | 723051 | 0.46% | 874 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 85820 | 210 | 31238 | 977.61 | 607 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF098GTL.bed.gz | 1.94 MB | 65c5869e5cc5e48ee69ba0fe6bcf9bea |
| ENCFF098GTL.tabix.bed.gz | 906.65 KB | 25220315f13715ae1a45009f4a622953 |
| ENCFF098GTL.tabix.bed.gz.tbi | 134.73 KB | 811359b1e003eda5bf3f31aa0a1fc3d3 |
| genomic_resource.yaml | 4.0 KB | 2905e53a28d17bac034a3c9c9624e560 |
| statistics/ |