Resource
| Id | Histone_ChIP-seq/ENCSR107RDP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR107RDP [biosample_summary="Homo sapiens heart right ventricle tissue male child (3 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male child (3 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN458OED|/analyses/ENCAN458OED/} 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 {ENCFF897OOT|/files/ENCFF897OOT/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF897OOT|/files/ENCFF897OOT/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.75. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR107RDP | float |
Histone_ChIP-seq_ENCSR107RDP |
Histone_ChIP-seq ENCSR107RDP [biosample_summary="Homo sapiens heart right ventricle tissue male child (3 years)" and target="H3K4me3"]
|
 |
[1.93, 82.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 36826953 | 1.14% | 26993 |
| chr1 | 3602164 | 1.45% | 2642 |
| chr1_KI270712v1_random | 2332 | 1.32% | 3 |
| chr1_KI270713v1_random | 220 | 0.54% | 1 |
| chr2 | 2537170 | 1.05% | 1839 |
| chr3 | 2173976 | 1.10% | 1534 |
| chr4 | 1624255 | 0.85% | 1175 |
| chr5 | 1859916 | 1.02% | 1316 |
| chr6 | 2133815 | 1.25% | 1544 |
| chr7 | 1801654 | 1.13% | 1379 |
| chr8 | 1432775 | 0.99% | 1041 |
| chr9 | 1491670 | 1.08% | 1078 |
| chr10 | 1655023 | 1.24% | 1202 |
| chr11 | 1935736 | 1.43% | 1358 |
| chr12 | 1914609 | 1.44% | 1380 |
| chr13 | 813895 | 0.71% | 591 |
| chr14 | 1203819 | 1.12% | 862 |
| chr15 | 1197899 | 1.17% | 862 |
| chr16 | 1341545 | 1.49% | 973 |
| chr17 | 1993917 | 2.39% | 1477 |
| chr17_GL000205v2_random | 2110 | 1.14% | 2 |
| chr18 | 666418 | 0.83% | 462 |
| chr19 | 2202107 | 3.76% | 1826 |
| chr20 | 934188 | 1.45% | 662 |
| chr21 | 329514 | 0.71% | 247 |
| chr22 | 772654 | 1.52% | 577 |
| chrUn_GL000219v1 | 2011 | 1.12% | 3 |
| chrX | 1164508 | 0.75% | 931 |
| chrY | 37053 | 0.06% | 26 |
| 3338 contigs with no values (128495508 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 26993 | 180 | 12216 | 1364.31 | 1141 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF786ACC.bed.gz | 754.63 KB | 2abdd959c37a56232321a12e70493f86 |
| ENCFF786ACC.tabix.bed.gz | 315.13 KB | 3d1c4c93950c4c3d2ea67923548a02d9 |
| ENCFF786ACC.tabix.bed.gz.tbi | 156.44 KB | 775509e931ce5dc949742ebf95f8cf3f |
| genomic_resource.yaml | 2.78 KB | 7e3f84eab3378244c29be06b9b8b6842 |
| statistics/ |