Resource
| Id | Histone_ChIP-seq/ENCSR236YPE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR236YPE [biosample_summary="Homo sapiens GM23338 originated from GM23248" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN116HRR|/analyses/ENCAN116HRR/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF305DFQ|/files/ENCFF305DFQ/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline has 18687998 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_not_compliant: Processed alignments file {ENCFF969XFC|/files/ENCFF969XFC/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline has 17230273 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: 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 {ENCFF305DFQ|/files/ENCFF305DFQ/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.89. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR236YPE | float |
Histone_ChIP-seq_ENCSR236YPE |
Histone_ChIP-seq ENCSR236YPE [biosample_summary="Homo sapiens GM23338 originated from GM23248" and target="H3K36me3"]
|
 |
[1.53, 17] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 63279746 | 1.97% | 73727 |
| chr1 | 6577786 | 2.64% | 7014 |
| chr2 | 4818347 | 1.99% | 5679 |
| chr3 | 3798945 | 1.92% | 4665 |
| chr4 | 2968439 | 1.56% | 3768 |
| chr5 | 3612779 | 1.99% | 4138 |
| chr6 | 3120454 | 1.83% | 3684 |
| chr7 | 3045697 | 1.91% | 3727 |
| chr8 | 2907540 | 2.00% | 3774 |
| chr9 | 2458931 | 1.78% | 2918 |
| chr10 | 2668434 | 1.99% | 3026 |
| chr11 | 3231053 | 2.39% | 3686 |
| chr12 | 3819122 | 2.87% | 4266 |
| chr13 | 1316386 | 1.15% | 1696 |
| chr14 | 2094893 | 1.96% | 2465 |
| chr15 | 2235718 | 2.19% | 2593 |
| chr16 | 2283996 | 2.53% | 2523 |
| chr17 | 3093479 | 3.72% | 3304 |
| chr18 | 1158890 | 1.44% | 1608 |
| chr19 | 3401644 | 5.80% | 3576 |
| chr20 | 1854240 | 2.88% | 2108 |
| chr21 | 871157 | 1.87% | 1071 |
| chr22 | 1230440 | 2.42% | 1440 |
| chrX | 653788 | 0.42% | 907 |
| chrY | 57588 | 0.10% | 91 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 73727 | 195 | 23154 | 858.3 | 619 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF803FDJ.bed.gz | 1.55 MB | 066f86ffe2b0c0c966e17bf0427869c4 |
| ENCFF803FDJ.tabix.bed.gz | 749.74 KB | 9034e4655bdb35ba24928323cdc33418 |
| ENCFF803FDJ.tabix.bed.gz.tbi | 219.16 KB | 384bc046cf9212d1be5dd4a97d4ef1da |
| genomic_resource.yaml | 3.3 KB | 36dd5af44f1518fff87581ddffd8c5b0 |
| statistics/ |