Resource
| Id | Histone_ChIP-seq/ENCSR421HUB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR421HUB [biosample_summary="Homo sapiens sigmoid colon tissue male adult (34 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (34 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN496CQC|/analyses/ENCAN496CQC/} 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 {ENCFF917ZBE|/files/ENCFF917ZBE/} 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 {ENCFF917ZBE|/files/ENCFF917ZBE/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.83. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR421HUB | float |
Histone_ChIP-seq_ENCSR421HUB |
Histone_ChIP-seq ENCSR421HUB [biosample_summary="Homo sapiens sigmoid colon tissue male adult (34 years)" and target="H3K4me3"]
|
 |
[1.8, 68.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 34389159 | 1.07% | 26599 |
| chr1 | 3445430 | 1.38% | 2671 |
| chr1_KI270712v1_random | 1112 | 0.63% | 3 |
| chr1_KI270713v1_random | 567 | 1.39% | 2 |
| chr2 | 2371114 | 0.98% | 1794 |
| chr3 | 1919280 | 0.97% | 1483 |
| chr4 | 1444934 | 0.76% | 1075 |
| chr5 | 1634061 | 0.90% | 1223 |
| chr6 | 2008041 | 1.18% | 1487 |
| chr7 | 1739511 | 1.09% | 1353 |
| chr8 | 1282756 | 0.88% | 978 |
| chr9 | 1412247 | 1.02% | 1076 |
| chr10 | 1451577 | 1.08% | 1068 |
| chr11 | 1880800 | 1.39% | 1420 |
| chr12 | 1766833 | 1.33% | 1342 |
| chr13 | 723036 | 0.63% | 560 |
| chr14 | 1147450 | 1.07% | 874 |
| chr15 | 1117443 | 1.10% | 837 |
| chr16 | 1335688 | 1.48% | 1054 |
| chr17 | 1998573 | 2.40% | 1540 |
| chr17_GL000205v2_random | 2555 | 1.38% | 2 |
| chr18 | 577877 | 0.72% | 432 |
| chr19 | 2108008 | 3.60% | 1876 |
| chr20 | 877363 | 1.36% | 677 |
| chr21 | 338206 | 0.72% | 258 |
| chr22 | 730576 | 1.44% | 580 |
| chrUn_GL000219v1 | 3351 | 1.87% | 3 |
| chrUn_GL000220v1 | 191 | 0.12% | 1 |
| chrX | 1025390 | 0.66% | 897 |
| chrY | 45189 | 0.08% | 33 |
| 3337 contigs with no values (128333706 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 26599 | 190 | 12278 | 1292.87 | 1076 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF197CZF.bed.gz | 716.61 KB | 2bb3701b769b44bccb503b53ed1aa2f4 |
| ENCFF197CZF.tabix.bed.gz | 307.44 KB | bbaa9eea24be629ba5b98af72379045a |
| ENCFF197CZF.tabix.bed.gz.tbi | 154.15 KB | 9ad1abff22b88e46a46fc5431bf5b774 |
| genomic_resource.yaml | 2.95 KB | ae915e1542d2844046cf5a06c31c71ab |
| statistics/ |