Resource
| Id | Histone_ChIP-seq/ENCSR988QEK |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR988QEK [biosample_summary="Homo sapiens Peyer''s patch tissue female adult (51 years)" and target="H3K9me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN242HFP|/analyses/ENCAN242HFP/} 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 {ENCFF086OVD|/files/ENCFF086OVD/} 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 {ENCFF086OVD|/files/ENCFF086OVD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.57. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR988QEK | float |
Histone_ChIP-seq_ENCSR988QEK |
Histone_ChIP-seq ENCSR988QEK [biosample_summary="Homo sapiens Peyer''s patch tissue female adult (51 years)" and target="H3K9me3"]
|
 |
[1.32, 9.44] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 6502049 | 0.20% | 10632 |
| chr1 | 414812 | 0.17% | 720 |
| chr1_KI270706v1_random | 222 | 0.13% | 1 |
| chr1_KI270709v1_random | 2311 | 3.46% | 1 |
| chr1_KI270712v1_random | 1869 | 1.06% | 3 |
| chr2 | 321051 | 0.13% | 580 |
| chr3 | 266974 | 0.13% | 469 |
| chr4 | 328463 | 0.17% | 548 |
| chr4_GL000008v2_random | 3974 | 1.90% | 4 |
| chr5 | 360390 | 0.20% | 619 |
| chr5_GL000208v1_random | 377 | 0.41% | 1 |
| chr6 | 225000 | 0.13% | 426 |
| chr7 | 370032 | 0.23% | 644 |
| chr8 | 242087 | 0.17% | 434 |
| chr9 | 219728 | 0.16% | 366 |
| chr9_KI270719v1_random | 1431 | 0.81% | 3 |
| chr9_KI270720v1_random | 319 | 0.82% | 1 |
| chr10 | 224868 | 0.17% | 432 |
| chr11 | 198502 | 0.15% | 355 |
| chr12 | 346086 | 0.26% | 522 |
| chr13 | 110646 | 0.10% | 206 |
| chr14 | 165437 | 0.15% | 300 |
| chr14_GL000009v2_random | 307 | 0.15% | 1 |
| chr14_GL000194v1_random | 433 | 0.23% | 1 |
| chr14_GL000225v1_random | 9172 | 4.34% | 18 |
| chr14_KI270723v1_random | 660 | 1.73% | 1 |
| chr15 | 162094 | 0.16% | 240 |
| chr16 | 232923 | 0.26% | 385 |
| chr16_KI270728v1_random | 765 | 0.04% | 2 |
| chr17 | 137307 | 0.16% | 230 |
| chr17_GL000205v2_random | 2541 | 1.37% | 4 |
| chr17_KI270729v1_random | 7437 | 2.65% | 12 |
| chr17_KI270730v1_random | 4190 | 3.72% | 8 |
| chr18 | 92181 | 0.11% | 180 |
| chr19 | 1469900 | 2.51% | 1882 |
| chr20 | 153208 | 0.24% | 272 |
| chr21 | 106594 | 0.23% | 170 |
| chr22 | 93989 | 0.18% | 171 |
| chr22_KI270732v1_random | 752 | 1.81% | 1 |
| chr22_KI270733v1_random | 3133 | 1.74% | 8 |
| chr22_KI270735v1_random | 3236 | 7.56% | 4 |
| chr22_KI270736v1_random | 14206 | 7.81% | 23 |
| chrUn_GL000214v1 | 317 | 0.23% | 1 |
| chrUn_GL000218v1 | 403 | 0.25% | 1 |
| chrUn_GL000219v1 | 1038 | 0.58% | 2 |
| chrUn_GL000224v1 | 4282 | 2.38% | 9 |
| chrUn_KI270438v1 | 4499 | 4.00% | 8 |
| chrUn_KI270442v1 | 20235 | 5.16% | 26 |
| chrUn_KI270467v1 | 680 | 17.35% | 1 |
| chrUn_KI270519v1 | 862 | 0.62% | 2 |
| chrUn_KI270538v1 | 461 | 0.50% | 1 |
| chrUn_KI270589v1 | 1352 | 3.04% | 2 |
| chrUn_KI270591v1 | 618 | 10.66% | 1 |
| chrUn_KI270744v1 | 3042 | 1.81% | 3 |
| chrUn_KI270749v1 | 1669 | 1.05% | 2 |
| chrUn_KI270751v1 | 1961 | 1.30% | 2 |
| chrUn_KI270756v1 | 509 | 0.64% | 1 |
| chrUn_KI270757v1 | 1065 | 1.49% | 2 |
| chrX | 150572 | 0.10% | 308 |
| chrY | 8877 | 0.02% | 12 |
| 3307 contigs with no values (122525821 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 10632 | 190 | 17856 | 611.55 | 493 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF910XDR.bed.gz | 202.84 KB | 3969329620f9793661903b4edf4f0731 |
| ENCFF910XDR.tabix.bed.gz | 106.5 KB | d66e6a41411cc2b8ed4aee79ae755477 |
| ENCFF910XDR.tabix.bed.gz.tbi | 73.4 KB | fb3f0e2cd3f8dd8840486db7f493c98a |
| genomic_resource.yaml | 2.77 KB | f7978a91bd3c85648d8ed24ef0983745 |
| statistics/ |