Resource
| Id | Histone_ChIP-seq/ENCSR287UQG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR287UQG [biosample_summary="Homo sapiens muscle layer of duodenum tissue male adult (73 years)" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (73 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN319XFP|/analyses/ENCAN319XFP/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed redacted alignments file {ENCFF208UNP|/files/ENCFF208UNP/} processed by ChIP-seq ENCODE3 hg19 pipeline has 21843697 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 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 redacted alignments file {ENCFF208UNP|/files/ENCFF208UNP/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.85. 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 redacted alignments file {ENCFF208UNP|/files/ENCFF208UNP/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.76. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR287UQG | float |
Histone_ChIP-seq_ENCSR287UQG |
Histone_ChIP-seq ENCSR287UQG [biosample_summary="Homo sapiens muscle layer of duodenum tissue male adult (73 years)" and target="H3K36me3"]
|
 |
[1.82, 30] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 109052368 | 3.39% | 111027 |
| chr1 | 10567896 | 4.24% | 10716 |
| chr2 | 8185464 | 3.38% | 8880 |
| chr3 | 6766477 | 3.41% | 7271 |
| chr4 | 4363405 | 2.29% | 4990 |
| chr5 | 5196114 | 2.86% | 5651 |
| chr6 | 5049045 | 2.96% | 5436 |
| chr7 | 4874920 | 3.06% | 5073 |
| chr8 | 3608504 | 2.49% | 3997 |
| chr9 | 5188642 | 3.75% | 5016 |
| chr10 | 4827699 | 3.61% | 5156 |
| chr11 | 5745566 | 4.25% | 5533 |
| chr12 | 5997541 | 4.50% | 6009 |
| chr13 | 2318898 | 2.03% | 2675 |
| chr14 | 3722584 | 3.48% | 3971 |
| chr15 | 4022868 | 3.94% | 4219 |
| chr16 | 4925800 | 5.45% | 4376 |
| chr17 | 5852466 | 7.03% | 5548 |
| chr18 | 1758100 | 2.19% | 2045 |
| chr19 | 7095942 | 12.11% | 5649 |
| chr20 | 3313719 | 5.14% | 3149 |
| chr21 | 1362345 | 2.92% | 1328 |
| chr22 | 2800575 | 5.51% | 2436 |
| chrX | 1452788 | 0.93% | 1829 |
| chrY | 55010 | 0.10% | 74 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 111027 | 225 | 47276 | 982.21 | 714 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF572JWD.bed.gz | 2.22 MB | 07e4e7019b161fcde20706170aa33ff1 |
| ENCFF572JWD.tabix.bed.gz | 1.08 MB | 62926969ecc12da44762eb4c21d911e6 |
| ENCFF572JWD.tabix.bed.gz.tbi | 185.51 KB | 9805ec3f2b129fb27f1f532c161182b6 |
| genomic_resource.yaml | 3.3 KB | 44e1fb52364aa7354bd941639b3219e8 |
| statistics/ |