Resource
| Id | Histone_ChIP-seq/ENCSR235ZBF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR235ZBF [biosample_summary="Homo sapiens spleen tissue male adult (34 years)" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (34 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN897TOA|/analyses/ENCAN897TOA/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN897TOA|/analyses/ENCAN897TOA/} has in progress subobject document {b4db777d-d766-4d30-a7e7-932df9a1dab5|/documents/b4db777d-d766-4d30-a7e7-932df9a1dab5/} audit_warning: Processed alignments file {ENCFF500MVV|/files/ENCFF500MVV/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 16456628 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27ac-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 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 {ENCFF500MVV|/files/ENCFF500MVV/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF500MVV|/files/ENCFF500MVV/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.49. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR235ZBF | float |
Histone_ChIP-seq_ENCSR235ZBF |
Histone_ChIP-seq ENCSR235ZBF [biosample_summary="Homo sapiens spleen tissue male adult (34 years)" and target="H3K27ac"]
|
 |
[1.95, 122] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 64381741 | 2.00% | 64730 |
| chr1 | 6358074 | 2.55% | 6345 |
| chr2 | 4583172 | 1.89% | 4960 |
| chr3 | 3567858 | 1.80% | 3917 |
| chr4 | 2008288 | 1.06% | 2239 |
| chr5 | 2839972 | 1.56% | 3005 |
| chr6 | 3198598 | 1.87% | 3446 |
| chr7 | 2781332 | 1.75% | 2972 |
| chr8 | 2341331 | 1.61% | 2478 |
| chr9 | 2914611 | 2.11% | 2867 |
| chr10 | 3110263 | 2.32% | 3183 |
| chr11 | 3672532 | 2.72% | 3406 |
| chr12 | 3213685 | 2.41% | 3255 |
| chr13 | 1184483 | 1.04% | 1384 |
| chr14 | 2314502 | 2.16% | 2332 |
| chr15 | 2180230 | 2.14% | 2211 |
| chr16 | 2639032 | 2.92% | 2412 |
| chr17 | 4165133 | 5.00% | 3840 |
| chr18 | 991347 | 1.23% | 1088 |
| chr19 | 4048456 | 6.91% | 3369 |
| chr20 | 2074860 | 3.22% | 2078 |
| chr21 | 833894 | 1.79% | 825 |
| chr22 | 1881542 | 3.70% | 1644 |
| chrX | 1430342 | 0.92% | 1426 |
| chrY | 48204 | 0.08% | 48 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 64730 | 175 | 17005 | 994.62 | 654 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF145NKN.bed.gz | 1.49 MB | 37ea4d41239b606c787db0b326373f33 |
| ENCFF145NKN.tabix.bed.gz | 689.6 KB | f0864ef95326117f874979c5d02b0e0b |
| ENCFF145NKN.tabix.bed.gz.tbi | 215.79 KB | e3f584cb295cf9ca7fa0a49103a427cc |
| genomic_resource.yaml | 3.45 KB | d3736261d411ef7416b1f9bae2c0ac28 |
| statistics/ |