Resource
| Id | Histone_ChIP-seq/ENCSR956CTX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR956CTX [biosample_summary="Homo sapiens neuronal stem cell originated from H1" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male embryo output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN707ESG|/analyses/ENCAN707ESG/} 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 {ENCFF943BCG|/files/ENCFF943BCG/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF943BCG|/files/ENCFF943BCG/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.65. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR956CTX | float |
Histone_ChIP-seq_ENCSR956CTX |
Histone_ChIP-seq ENCSR956CTX [biosample_summary="Homo sapiens neuronal stem cell originated from H1" and target="H3K4me3"]
|
 |
[1.5, 45.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 33917947 | 1.05% | 79501 |
| chr1 | 3088327 | 1.24% | 7019 |
| chr1_KI270713v1_random | 460 | 1.13% | 2 |
| chr2 | 2375985 | 0.98% | 5741 |
| chr3 | 1782399 | 0.90% | 4062 |
| chr4 | 1336784 | 0.70% | 3005 |
| chr4_GL000008v2_random | 2213 | 1.06% | 6 |
| chr5 | 1589666 | 0.88% | 3720 |
| chr6 | 1857677 | 1.09% | 4036 |
| chr7 | 1704317 | 1.07% | 4154 |
| chr8 | 1383481 | 0.95% | 3436 |
| chr9 | 1433257 | 1.04% | 3366 |
| chr9_KI270718v1_random | 530 | 1.39% | 2 |
| chr10 | 1505048 | 1.12% | 3759 |
| chr11 | 1811924 | 1.34% | 4191 |
| chr12 | 1645381 | 1.23% | 3693 |
| chr13 | 775038 | 0.68% | 1898 |
| chr14 | 1117005 | 1.04% | 2528 |
| chr14_GL000225v1_random | 8077 | 3.82% | 32 |
| chr14_KI270722v1_random | 1313 | 0.68% | 5 |
| chr15 | 1054606 | 1.03% | 2456 |
| chr16 | 1439772 | 1.59% | 3502 |
| chr17 | 1885572 | 2.26% | 4278 |
| chr17_GL000205v2_random | 3329 | 1.79% | 11 |
| chr17_KI270729v1_random | 300 | 0.11% | 2 |
| chr17_KI270730v1_random | 1637 | 1.45% | 6 |
| chr18 | 658566 | 0.82% | 1666 |
| chr19 | 2272395 | 3.88% | 5320 |
| chr20 | 1008549 | 1.56% | 2649 |
| chr21 | 399149 | 0.85% | 1073 |
| chr22 | 894342 | 1.76% | 2404 |
| chr22_KI270736v1_random | 3673 | 2.02% | 13 |
| chrUn_GL000216v2 | 490 | 0.28% | 3 |
| chrUn_GL000219v1 | 957 | 0.53% | 2 |
| chrUn_GL000224v1 | 248 | 0.14% | 1 |
| chrUn_KI270435v1 | 159 | 0.17% | 1 |
| chrUn_KI270438v1 | 457 | 0.41% | 2 |
| chrUn_KI270442v1 | 3317 | 0.85% | 17 |
| chrUn_KI270519v1 | 719 | 0.52% | 3 |
| chrUn_KI270589v1 | 724 | 1.63% | 4 |
| chrUn_KI270591v1 | 450 | 7.76% | 1 |
| chrUn_KI270744v1 | 457 | 0.27% | 2 |
| chrUn_KI270746v1 | 133 | 0.20% | 1 |
| chrUn_KI270751v1 | 166 | 0.11% | 1 |
| chrUn_KI270754v1 | 219 | 0.54% | 1 |
| chrUn_KI270757v1 | 231 | 0.32% | 1 |
| chrX | 835825 | 0.54% | 1372 |
| chrY | 32623 | 0.06% | 54 |
| 3319 contigs with no values (125803867 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 79501 | 130 | 6883 | 426.64 | 238 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF480IBO.bed.gz | 1.86 MB | d462dab84bd82cfd7ea948d3051254e0 |
| ENCFF480IBO.tabix.bed.gz | 849.3 KB | 388cd0e1e322871091a48a39dfd150b0 |
| ENCFF480IBO.tabix.bed.gz.tbi | 341.38 KB | f30a8276922942ccd4b203d2ac38b875 |
| genomic_resource.yaml | 2.74 KB | a5fefbd7b121f9bc78dc17345a3c490a |
| statistics/ |