Resource
| Id | Histone_ChIP-seq/ENCSR063HOI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR063HOI [biosample_summary="Homo sapiens stomach tissue male adult (54 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (54 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN171LZX|/analyses/ENCAN171LZX/} 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 {ENCFF044SAF|/files/ENCFF044SAF/} processed by ChIP-seq ENCODE3 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 {ENCFF044SAF|/files/ENCFF044SAF/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.40. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR063HOI | float |
Histone_ChIP-seq_ENCSR063HOI |
Histone_ChIP-seq ENCSR063HOI [biosample_summary="Homo sapiens stomach tissue male adult (54 years)" and target="H3K4me3"]
|
 |
[1.21, 60.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 45605791 | 1.42% | 26785 |
| chr1 | 4551900 | 1.83% | 2659 |
| chr1_KI270712v1_random | 3871 | 2.20% | 5 |
| chr1_KI270713v1_random | 597 | 1.47% | 1 |
| chr1_KI270714v1_random | 696 | 1.67% | 1 |
| chr2 | 3083667 | 1.27% | 1816 |
| chr3 | 2558099 | 1.29% | 1507 |
| chr4 | 1826400 | 0.96% | 1054 |
| chr5 | 2115756 | 1.17% | 1201 |
| chr6 | 2583595 | 1.51% | 1511 |
| chr7 | 2225242 | 1.40% | 1338 |
| chr8 | 1693675 | 1.17% | 1000 |
| chr9 | 1931861 | 1.40% | 1128 |
| chr9_KI270717v1_random | 915 | 2.28% | 1 |
| chr10 | 1940797 | 1.45% | 1185 |
| chr11 | 2490841 | 1.84% | 1382 |
| chr12 | 2384258 | 1.79% | 1349 |
| chr13 | 926935 | 0.81% | 567 |
| chr14 | 1481637 | 1.38% | 826 |
| chr14_GL000194v1_random | 323 | 0.17% | 1 |
| chr15 | 1458499 | 1.43% | 845 |
| chr16 | 1817010 | 2.01% | 1098 |
| chr17 | 2690996 | 3.23% | 1528 |
| chr17_GL000205v2_random | 2510 | 1.35% | 2 |
| chr18 | 769585 | 0.96% | 487 |
| chr19 | 2962489 | 5.05% | 1800 |
| chr20 | 1199338 | 1.86% | 717 |
| chr21 | 459621 | 0.98% | 277 |
| chr22 | 1056439 | 2.08% | 643 |
| chr22_KI270733v1_random | 731 | 0.41% | 2 |
| chrM | 4132 | 24.94% | 3 |
| chrUn_GL000195v1 | 367 | 0.20% | 1 |
| chrUn_GL000218v1 | 386 | 0.24% | 1 |
| chrUn_GL000219v1 | 3318 | 1.85% | 3 |
| chrUn_GL000220v1 | 690 | 0.43% | 1 |
| chrUn_KI270438v1 | 377 | 0.34% | 1 |
| chrUn_KI270467v1 | 787 | 20.08% | 1 |
| chrX | 1329767 | 0.85% | 817 |
| chrY | 47684 | 0.08% | 26 |
| 3328 contigs with no values (127403649 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 26785 | 215 | 19683 | 1702.66 | 1490 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF349OIL.bed.gz | 736.95 KB | 9298bfd6be07055f3780c03a795947a0 |
| ENCFF349OIL.tabix.bed.gz | 312.2 KB | 91d561804518b73da024cdfdd859db35 |
| ENCFF349OIL.tabix.bed.gz.tbi | 170.63 KB | 865ed5fff854315e09d47b2f7ffb6492 |
| genomic_resource.yaml | 2.74 KB | 4329846372a2111453eba233a89be9e1 |
| statistics/ |