Resource
| Id | Histone_ChIP-seq/ENCSR124MTJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR124MTJ [biosample_summary="Homo sapiens GM23248" and target="H3K4me2"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN035CRS|/analyses/ENCAN035CRS/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} 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 {ENCFF507DHX|/files/ENCFF507DHX/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.82. 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 {ENCFF507DHX|/files/ENCFF507DHX/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.60. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR124MTJ | float |
Histone_ChIP-seq_ENCSR124MTJ |
Histone_ChIP-seq ENCSR124MTJ [biosample_summary="Homo sapiens GM23248" and target="H3K4me2"]
|
 |
[1.65, 22.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 106535573 | 3.31% | 96134 |
| chr1 | 10223201 | 4.11% | 9139 |
| chr2 | 8959053 | 3.70% | 8236 |
| chr3 | 7319233 | 3.69% | 6590 |
| chr4 | 5260043 | 2.77% | 4813 |
| chr5 | 6093875 | 3.36% | 5460 |
| chr6 | 6883233 | 4.03% | 6088 |
| chr7 | 5299435 | 3.33% | 4799 |
| chr8 | 4871540 | 3.36% | 4599 |
| chr9 | 4527194 | 3.27% | 4045 |
| chr10 | 5145635 | 3.85% | 4642 |
| chr11 | 5405442 | 4.00% | 4748 |
| chr12 | 5721880 | 4.29% | 4948 |
| chr13 | 2687929 | 2.35% | 2460 |
| chr14 | 3388654 | 3.17% | 2992 |
| chr15 | 3681042 | 3.61% | 3328 |
| chr16 | 3024144 | 3.35% | 2742 |
| chr17 | 4586403 | 5.51% | 4024 |
| chr18 | 2235348 | 2.78% | 2092 |
| chr19 | 3488129 | 5.95% | 2959 |
| chr20 | 2438959 | 3.78% | 2321 |
| chr21 | 1214086 | 2.60% | 1154 |
| chr22 | 1773176 | 3.49% | 1600 |
| chrX | 2215933 | 1.42% | 2263 |
| chrY | 92006 | 0.16% | 92 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 96134 | 200 | 25416 | 1108.2 | 846 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF408FUU.bed.gz | 2.35 MB | 9e452c7ef249618a9dedd588ec3b1fa6 |
| ENCFF408FUU.tabix.bed.gz | 1.03 MB | 85b471f6d998767a4c78caf0615bcabb |
| ENCFF408FUU.tabix.bed.gz.tbi | 340.0 KB | 47c0b95c0087ab8f36e9a7ce7a4d4ba4 |
| genomic_resource.yaml | 2.73 KB | bc5e6dd591bf07bc0e78aa6171117162 |
| statistics/ |