Resource
| Id | Histone_ChIP-seq/ENCSR995UTR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR995UTR [biosample_summary="Homo sapiens skeletal muscle satellite cell female adult originated from mesodermal cell" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 2, Rep 3 summary: female adult output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN436EPE|/analyses/ENCAN436EPE/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed redacted alignments file {ENCFF539BXB|/files/ENCFF539BXB/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline has 26234197 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 redacted alignments file {ENCFF848RPX|/files/ENCFF848RPX/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline has 20474608 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 {ENCFF539BXB|/files/ENCFF539BXB/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF539BXB|/files/ENCFF539BXB/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.78. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR995UTR | float |
Histone_ChIP-seq_ENCSR995UTR |
Histone_ChIP-seq ENCSR995UTR [biosample_summary="Homo sapiens skeletal muscle satellite cell female adult originated from mesodermal cell" and target="H3K36me3"]
|
 |
[1.7, 14.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 118489758 | 3.68% | 132322 |
| chr1 | 11592834 | 4.66% | 12807 |
| chr2 | 9776102 | 4.04% | 11032 |
| chr3 | 7496023 | 3.78% | 8514 |
| chr4 | 5064248 | 2.66% | 6024 |
| chr5 | 6630531 | 3.65% | 7267 |
| chr6 | 5539714 | 3.24% | 6293 |
| chr7 | 5520327 | 3.46% | 6392 |
| chr8 | 4173113 | 2.88% | 4930 |
| chr9 | 5178043 | 3.74% | 5646 |
| chr10 | 5276044 | 3.94% | 5762 |
| chr11 | 6180037 | 4.57% | 6505 |
| chr12 | 6719991 | 5.04% | 7306 |
| chr13 | 2814580 | 2.46% | 3309 |
| chr14 | 3999856 | 3.74% | 4489 |
| chr15 | 4371993 | 4.29% | 4943 |
| chr16 | 4947256 | 5.48% | 5396 |
| chr17 | 6293714 | 7.56% | 6966 |
| chr18 | 1826620 | 2.27% | 2288 |
| chr19 | 6222709 | 10.62% | 6630 |
| chr20 | 3249910 | 5.04% | 3458 |
| chr21 | 1404306 | 3.01% | 1533 |
| chr22 | 2927511 | 5.76% | 3059 |
| chrX | 1284296 | 0.82% | 1773 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 132322 | 178 | 25420 | 895.47 | 638 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF442LBF.bed.gz | 2.83 MB | 9e4d0b0eb2321f5aaed02f71f742749a |
| ENCFF442LBF.tabix.bed.gz | 1.31 MB | f6009192087deb55c625c144abfefde9 |
| ENCFF442LBF.tabix.bed.gz.tbi | 162.07 KB | f48e7f6aa8ebc0ba71325dad5cfb1704 |
| genomic_resource.yaml | 4.01 KB | d17695456104b22da3bcea01e442bcc5 |
| statistics/ |