Resource
| Id | Histone_ChIP-seq/ENCSR552MZH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR552MZH [biosample_summary="Homo sapiens stomach tissue male adult (34 years)" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (34 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN512PXQ|/analyses/ENCAN512PXQ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF943HRF|/files/ENCFF943HRF/} processed by ChIP-seq ENCODE3 hg19 pipeline has 17974996 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 alignments file {ENCFF943HRF|/files/ENCFF943HRF/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.90. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR552MZH | float |
Histone_ChIP-seq_ENCSR552MZH |
Histone_ChIP-seq ENCSR552MZH [biosample_summary="Homo sapiens stomach tissue male adult (34 years)" and target="H3K36me3"]
|
 |
[1.86, 33.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 48820683 | 1.52% | 93561 |
| chr1 | 4487594 | 1.80% | 8834 |
| chr2 | 2830278 | 1.17% | 6248 |
| chr3 | 2474314 | 1.25% | 5076 |
| chr4 | 1436941 | 0.76% | 3075 |
| chr5 | 1704757 | 0.94% | 3631 |
| chr6 | 1828054 | 1.07% | 3870 |
| chr7 | 2342611 | 1.47% | 4553 |
| chr8 | 1533954 | 1.06% | 3197 |
| chr9 | 2411699 | 1.74% | 4458 |
| chr10 | 1905876 | 1.42% | 4084 |
| chr11 | 2822220 | 2.09% | 5051 |
| chr12 | 2528549 | 1.90% | 4818 |
| chr13 | 737202 | 0.64% | 1750 |
| chr14 | 1434822 | 1.34% | 2997 |
| chr15 | 1498136 | 1.47% | 3139 |
| chr16 | 3059829 | 3.39% | 5201 |
| chr17 | 3450457 | 4.14% | 5992 |
| chr18 | 645477 | 0.80% | 1516 |
| chr19 | 4251710 | 7.25% | 6570 |
| chr20 | 1880048 | 2.92% | 3386 |
| chr21 | 799972 | 1.71% | 1453 |
| chr22 | 2063813 | 4.06% | 3303 |
| chrX | 668607 | 0.43% | 1308 |
| chrY | 23763 | 0.04% | 51 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 93561 | 150 | 10470 | 521.81 | 378 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF781CXC.bed.gz | 1.94 MB | 65c317cf31a4e5e7942a45af3052decd |
| ENCFF781CXC.tabix.bed.gz | 937.45 KB | 82015fbaeee50a3d8af9eb672246d18d |
| ENCFF781CXC.tabix.bed.gz.tbi | 191.15 KB | 02a8ec44f3ce17c9002acae520b6a384 |
| genomic_resource.yaml | 2.61 KB | 7ec784aef0c698f247babe59eef5e91b |
| statistics/ |