Resource
| Id | Histone_ChIP-seq/ENCSR123HEE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR123HEE [biosample_summary="Homo sapiens layer of hippocampus tissue female adult (75 years)" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (75 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN817LLY|/analyses/ENCAN817LLY/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed redacted alignments file {ENCFF021NCO|/files/ENCFF021NCO/} processed by ChIP-seq ENCODE3 hg19 pipeline has 12478262 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27ac-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: 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 redacted alignments file {ENCFF021NCO|/files/ENCFF021NCO/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.97. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR123HEE | float |
Histone_ChIP-seq_ENCSR123HEE |
Histone_ChIP-seq ENCSR123HEE [biosample_summary="Homo sapiens layer of hippocampus tissue female adult (75 years)" and target="H3K27ac"]
|
 |
[1.6, 106] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 58835360 | 1.83% | 71367 |
| chr1 | 6206512 | 2.49% | 7203 |
| chr2 | 4104106 | 1.69% | 4972 |
| chr3 | 3271205 | 1.65% | 3920 |
| chr4 | 2058971 | 1.08% | 2605 |
| chr5 | 2735653 | 1.51% | 3257 |
| chr6 | 2908881 | 1.70% | 3471 |
| chr7 | 2470471 | 1.55% | 3238 |
| chr8 | 2127504 | 1.47% | 2692 |
| chr9 | 2972469 | 2.15% | 3446 |
| chr10 | 3097845 | 2.32% | 3607 |
| chr11 | 3671348 | 2.72% | 4326 |
| chr12 | 2725021 | 2.04% | 3343 |
| chr13 | 1233077 | 1.08% | 1541 |
| chr14 | 2107946 | 1.97% | 2431 |
| chr15 | 1962114 | 1.92% | 2387 |
| chr16 | 2284228 | 2.53% | 2847 |
| chr17 | 3740415 | 4.49% | 4445 |
| chr18 | 1055761 | 1.31% | 1281 |
| chr19 | 2988312 | 5.10% | 3794 |
| chr20 | 1672269 | 2.59% | 2052 |
| chr21 | 763745 | 1.64% | 994 |
| chr22 | 1653106 | 3.25% | 2048 |
| chrM | 324 | 1.96% | 1 |
| chrX | 1023651 | 0.66% | 1464 |
| chrY | 426 | <0.01% | 2 |
| 3341 contigs with no values (129060516 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 71367 | 185 | 17854 | 824.41 | 554 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF850FJG.bed.gz | 1.51 MB | ed21c360cde8f5ec955f5a554417a9bc |
| ENCFF850FJG.tabix.bed.gz | 732.66 KB | f27c260c2013683c73b2c0e4e8f5ea05 |
| ENCFF850FJG.tabix.bed.gz.tbi | 222.0 KB | 92f22ebda5183d0951114e7084bd12eb |
| genomic_resource.yaml | 2.64 KB | a4c89fe89f0bfc4c25c9fb2bb364ee62 |
| statistics/ |