Resource
| Id | Histone_ChIP-seq/ENCSR276OLB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR276OLB [biosample_summary="Homo sapiens cardiac muscle cell originated from RUES2" and target="H3K4me1"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: embryo output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN778AHN|/analyses/ENCAN778AHN/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_warning: Processed alignments file {ENCFF880FIW|/files/ENCFF880FIW/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline has 41520503 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-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 {ENCFF842LAD|/files/ENCFF842LAD/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF842LAD|/files/ENCFF842LAD/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.45. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR276OLB | float |
Histone_ChIP-seq_ENCSR276OLB |
Histone_ChIP-seq ENCSR276OLB [biosample_summary="Homo sapiens cardiac muscle cell originated from RUES2" and target="H3K4me1"]
|
 |
[1.42, 7.54] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 105080575 | 3.27% | 112066 |
| chr1 | 10781809 | 4.33% | 11104 |
| chr2 | 8825307 | 3.64% | 9477 |
| chr3 | 7634166 | 3.85% | 7968 |
| chr4 | 5341357 | 2.81% | 5798 |
| chr5 | 6443131 | 3.55% | 6754 |
| chr6 | 6532722 | 3.82% | 7108 |
| chr7 | 5206422 | 3.27% | 5659 |
| chr8 | 4784671 | 3.30% | 5206 |
| chr9 | 4183584 | 3.02% | 4538 |
| chr10 | 5874464 | 4.39% | 6026 |
| chr11 | 5445437 | 4.03% | 5801 |
| chr12 | 5200123 | 3.90% | 5539 |
| chr13 | 2915842 | 2.55% | 3154 |
| chr14 | 3258193 | 3.04% | 3472 |
| chr15 | 4011435 | 3.93% | 4005 |
| chr16 | 2761489 | 3.06% | 3035 |
| chr17 | 4177744 | 5.02% | 4412 |
| chr18 | 2908890 | 3.62% | 2993 |
| chr19 | 1600263 | 2.73% | 1984 |
| chr20 | 2467477 | 3.83% | 2659 |
| chr21 | 971721 | 2.08% | 1054 |
| chr22 | 1882539 | 3.70% | 2019 |
| chrX | 1871789 | 1.20% | 2301 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 112066 | 205 | 14085 | 937.67 | 724 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF584EEA.bed.gz | 2.56 MB | 0d21100f80b286454558d97496241848 |
| ENCFF584EEA.tabix.bed.gz | 1.18 MB | 7ef253255091521787e7eab742696bbe |
| ENCFF584EEA.tabix.bed.gz.tbi | 372.91 KB | 51133cfa59fd3473b097a29f71e797a4 |
| genomic_resource.yaml | 3.24 KB | 070c9d263e9d55e4a2002bedc8c075b1 |
| statistics/ |