Resource
| Id | Histone_ChIP-seq/ENCSR115GFR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR115GFR [biosample_summary="Homo sapiens T-cell male adult (21 years)" and target="H3K9me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (21 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN644MDE|/analyses/ENCAN644MDE/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN644MDE|/analyses/ENCAN644MDE/} has in progress subobject document {6427d824-f757-45b4-98fb-56eb69e2e187|/documents/6427d824-f757-45b4-98fb-56eb69e2e187/} audit_warning: Processed unfiltered alignments file {ENCFF049ILC|/files/ENCFF049ILC/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 39683889 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. 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 {ENCFF430GNL|/files/ENCFF430GNL/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF430GNL|/files/ENCFF430GNL/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.75. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR115GFR | float |
Histone_ChIP-seq_ENCSR115GFR |
Histone_ChIP-seq ENCSR115GFR [biosample_summary="Homo sapiens T-cell male adult (21 years)" and target="H3K9me3"]
|
 |
[2.07, 76.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19828530 | 0.62% | 32838 |
| chr1 | 1239492 | 0.50% | 2093 |
| chr2 | 1348955 | 0.56% | 2444 |
| chr3 | 1135144 | 0.57% | 2160 |
| chr4 | 1137112 | 0.60% | 2122 |
| chr5 | 1111495 | 0.61% | 2094 |
| chr6 | 817612 | 0.48% | 1586 |
| chr7 | 1178684 | 0.74% | 2010 |
| chr8 | 801186 | 0.55% | 1561 |
| chr9 | 705891 | 0.51% | 1188 |
| chr10 | 791388 | 0.59% | 1313 |
| chr11 | 711115 | 0.53% | 1404 |
| chr12 | 1031315 | 0.77% | 1671 |
| chr13 | 549624 | 0.48% | 1180 |
| chr14 | 548167 | 0.51% | 1060 |
| chr15 | 446149 | 0.44% | 731 |
| chr16 | 817656 | 0.91% | 1085 |
| chr17 | 439928 | 0.53% | 572 |
| chr18 | 381349 | 0.47% | 715 |
| chr19 | 3244760 | 5.54% | 3613 |
| chr20 | 348445 | 0.54% | 608 |
| chr21 | 296940 | 0.64% | 576 |
| chr22 | 280876 | 0.55% | 423 |
| chrX | 246792 | 0.16% | 506 |
| chrY | 218455 | 0.38% | 123 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 32838 | 185 | 30414 | 603.83 | 438 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF286MGD.bed.gz | 652.05 KB | e7cd5f622620deca4007b5db8c8ea1cf |
| ENCFF286MGD.tabix.bed.gz | 326.22 KB | 2c76c34f003c09406751d9a0b0b53412 |
| ENCFF286MGD.tabix.bed.gz.tbi | 181.7 KB | 6f506dfe07d0b7533bc9f5cba3614b14 |
| genomic_resource.yaml | 3.43 KB | ba18a5eccf7a6ea844546b0cd67f9035 |
| statistics/ |