Resource
| Id | Histone_ChIP-seq/ENCSR659RJP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR659RJP [biosample_summary="Homo sapiens spleen tissue female adult (53 years)" and target="H3K4me1"] |
| Description |
status: archived biological_replicates: Rep 1 summary: female adult (53 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN996KNX|/analyses/ENCAN996KNX/} 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 {ENCFF229KGO|/files/ENCFF229KGO/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF229KGO|/files/ENCFF229KGO/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.51. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR659RJP | float |
Histone_ChIP-seq_ENCSR659RJP |
Histone_ChIP-seq ENCSR659RJP [biosample_summary="Homo sapiens spleen tissue female adult (53 years)" and target="H3K4me1"]
|
 |
[1.36, 20.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 8303130 | 0.26% | 13129 |
| chr1 | 816546 | 0.33% | 1287 |
| chr1_KI270713v1_random | 549 | 1.35% | 1 |
| chr2 | 495387 | 0.20% | 825 |
| chr3 | 380386 | 0.19% | 618 |
| chr4 | 193560 | 0.10% | 322 |
| chr5 | 312374 | 0.17% | 506 |
| chr6 | 349566 | 0.20% | 594 |
| chr7 | 338865 | 0.21% | 553 |
| chr8 | 293968 | 0.20% | 464 |
| chr9 | 401952 | 0.29% | 629 |
| chr10 | 360438 | 0.27% | 564 |
| chr11 | 581967 | 0.43% | 875 |
| chr12 | 372256 | 0.28% | 599 |
| chr13 | 103510 | 0.09% | 177 |
| chr14 | 270943 | 0.25% | 435 |
| chr15 | 261254 | 0.26% | 416 |
| chr16 | 471696 | 0.52% | 727 |
| chr17 | 684244 | 0.82% | 1009 |
| chr18 | 92654 | 0.12% | 167 |
| chr19 | 815024 | 1.39% | 1212 |
| chr20 | 257784 | 0.40% | 416 |
| chr21 | 83058 | 0.18% | 137 |
| chr22 | 289993 | 0.57% | 454 |
| chr22_KI270733v1_random | 452 | 0.25% | 1 |
| chrM | 1412 | 8.52% | 2 |
| chrUn_GL000219v1 | 450 | 0.25% | 1 |
| chrX | 72842 | 0.05% | 138 |
| 3339 contigs with no values (185888216 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 13129 | 205 | 3057 | 632.43 | 556 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF837ZZH.bed.gz | 243.41 KB | 75b622a67ede29d5772ad790d7940e2a |
| ENCFF837ZZH.tabix.bed.gz | 131.45 KB | 6e74058cef2e36e9c5f77a84d7d1d59b |
| ENCFF837ZZH.tabix.bed.gz.tbi | 85.56 KB | 7d7895b6013bcd5b901a6adb1470ca49 |
| genomic_resource.yaml | 2.74 KB | aabd070b4f96d71031c19f8e830daec0 |
| statistics/ |