Resource
| Id | Histone_ChIP-seq/ENCSR575ZNE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR575ZNE [biosample_summary="Homo sapiens mesendoderm originated from H1" and target="H3K79me2"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male embryo output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN070KHY|/analyses/ENCAN070KHY/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN070KHY|/analyses/ENCAN070KHY/} has in progress subobject document {d00ffa06-ee9f-4591-bf73-a0c0840b8947|/documents/d00ffa06-ee9f-4591-bf73-a0c0840b8947/} audit_not_compliant: Processed alignments file {ENCFF695JGO|/files/ENCFF695JGO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 32699375 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K79me2-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 {ENCFF806ONR|/files/ENCFF806ONR/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF806ONR|/files/ENCFF806ONR/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.33. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR575ZNE | float |
Histone_ChIP-seq_ENCSR575ZNE |
Histone_ChIP-seq ENCSR575ZNE [biosample_summary="Homo sapiens mesendoderm originated from H1" and target="H3K79me2"]
|
 |
[1.81, 24.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 48249958 | 1.50% | 94355 |
| chr1 | 4652027 | 1.87% | 8944 |
| chr2 | 3890495 | 1.61% | 7948 |
| chr3 | 3203195 | 1.62% | 6376 |
| chr4 | 2052634 | 1.08% | 4428 |
| chr5 | 2624146 | 1.45% | 5111 |
| chr6 | 2535044 | 1.48% | 5179 |
| chr7 | 2424715 | 1.52% | 4956 |
| chr8 | 2211474 | 1.52% | 4506 |
| chr9 | 1892493 | 1.37% | 3942 |
| chr10 | 2206018 | 1.65% | 4360 |
| chr11 | 2163321 | 1.60% | 4060 |
| chr12 | 2348007 | 1.76% | 4828 |
| chr13 | 1106937 | 0.97% | 2376 |
| chr14 | 1569071 | 1.47% | 3170 |
| chr15 | 1687084 | 1.65% | 3422 |
| chr16 | 1856569 | 2.06% | 3239 |
| chr17 | 2275563 | 2.73% | 4166 |
| chr18 | 966882 | 1.20% | 2058 |
| chr19 | 2302487 | 3.93% | 3435 |
| chr20 | 1443130 | 2.24% | 2353 |
| chr21 | 640546 | 1.37% | 1188 |
| chr22 | 1254930 | 2.47% | 2242 |
| chrX | 818702 | 0.52% | 1822 |
| chrY | 124488 | 0.22% | 246 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 94355 | 125 | 26024 | 511.37 | 321 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF737FYR.bed.gz | 1.91 MB | 1b0067b4a8ee7e95a83ba6d0c167f9ce |
| ENCFF737FYR.tabix.bed.gz | 950.41 KB | 1dfbe4028891b84fcebc58a5ee4d588d |
| ENCFF737FYR.tabix.bed.gz.tbi | 118.74 KB | e012e91e4e92f59599f04f4491a469af |
| genomic_resource.yaml | 3.45 KB | 4d84f7770894551bfd5a7acd5eb4bd69 |
| statistics/ |