Resource
| Id | Histone_ChIP-seq/ENCSR796FCS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR796FCS [biosample_summary="Homo sapiens CD14-positive monocyte male adult (37 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (37 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN629DRF|/analyses/ENCAN629DRF/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF993LIK|/files/ENCFF993LIK/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 19591649 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-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 {ENCFF993LIK|/files/ENCFF993LIK/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR796FCS | float |
Histone_ChIP-seq_ENCSR796FCS |
Histone_ChIP-seq ENCSR796FCS [biosample_summary="Homo sapiens CD14-positive monocyte male adult (37 years)" and target="H3K4me3"]
|
 |
[2, 133] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 27889617 | 0.87% | 25163 |
| chr1 | 2780768 | 1.12% | 2472 |
| chr1_KI270712v1_random | 370 | 0.21% | 1 |
| chr1_KI270713v1_random | 209 | 0.51% | 1 |
| chr2 | 1848177 | 0.76% | 1645 |
| chr3 | 1551746 | 0.78% | 1376 |
| chr4 | 1033773 | 0.54% | 898 |
| chr5 | 1253575 | 0.69% | 1021 |
| chr6 | 1669683 | 0.98% | 1412 |
| chr7 | 1329990 | 0.83% | 1250 |
| chr8 | 982097 | 0.68% | 943 |
| chr9 | 1144523 | 0.83% | 1057 |
| chr10 | 1138650 | 0.85% | 1003 |
| chr11 | 1507783 | 1.12% | 1270 |
| chr12 | 1546453 | 1.16% | 1340 |
| chr13 | 567075 | 0.50% | 520 |
| chr14 | 880660 | 0.82% | 779 |
| chr15 | 871877 | 0.85% | 819 |
| chr16 | 1113767 | 1.23% | 1058 |
| chr17 | 1692429 | 2.03% | 1570 |
| chr17_GL000205v2_random | 1919 | 1.03% | 2 |
| chr18 | 429265 | 0.53% | 426 |
| chr19 | 1942135 | 3.31% | 1795 |
| chr20 | 716006 | 1.11% | 681 |
| chr21 | 299834 | 0.64% | 282 |
| chr22 | 623920 | 1.23% | 636 |
| chrUn_GL000219v1 | 2473 | 1.38% | 3 |
| chrX | 925798 | 0.59% | 877 |
| chrY | 34662 | 0.06% | 26 |
| 3338 contigs with no values (128495508 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 25163 | 205 | 9717 | 1108.36 | 864 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF275IMY.bed.gz | 699.23 KB | bbaf18a4a60574b4ba73ecd8d2312e12 |
| ENCFF275IMY.tabix.bed.gz | 292.39 KB | b0ea97e555ab8e0e9a1b7756af0e1a13 |
| ENCFF275IMY.tabix.bed.gz.tbi | 142.68 KB | 15f69e3e8680f6fabd3c29f8e34c78cb |
| genomic_resource.yaml | 2.63 KB | 852a48b920cd456687903f7cebd296e5 |
| statistics/ |