Resource
| Id | Histone_ChIP-seq/ENCSR339PLH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR339PLH [biosample_summary="Homo sapiens stomach smooth muscle tissue male adult (59 years)" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (59 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN264VIN|/analyses/ENCAN264VIN/} 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 redacted alignments file {ENCFF687XBV|/files/ENCFF687XBV/} processed by ChIP-seq ENCODE3 hg19 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 redacted alignments file {ENCFF687XBV|/files/ENCFF687XBV/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.19. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR339PLH | float |
Histone_ChIP-seq_ENCSR339PLH |
Histone_ChIP-seq ENCSR339PLH [biosample_summary="Homo sapiens stomach smooth muscle tissue male adult (59 years)" and target="H3K9ac"]
|
 |
[1.8, 60.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 40231428 | 1.25% | 40634 |
| chr1 | 4179612 | 1.68% | 4175 |
| chr2 | 2873288 | 1.19% | 2826 |
| chr3 | 2409757 | 1.22% | 2407 |
| chr4 | 1612503 | 0.85% | 1582 |
| chr5 | 1879335 | 1.04% | 1821 |
| chr6 | 2155038 | 1.26% | 2095 |
| chr7 | 1767708 | 1.11% | 1831 |
| chr8 | 1492171 | 1.03% | 1532 |
| chr9 | 1837787 | 1.33% | 1890 |
| chr10 | 1877956 | 1.40% | 1999 |
| chr11 | 2315306 | 1.71% | 2262 |
| chr12 | 2175658 | 1.63% | 2141 |
| chr13 | 843260 | 0.74% | 862 |
| chr14 | 1431638 | 1.34% | 1400 |
| chr15 | 1365613 | 1.34% | 1395 |
| chr16 | 1505472 | 1.67% | 1572 |
| chr17 | 2304072 | 2.77% | 2419 |
| chr18 | 606480 | 0.75% | 645 |
| chr19 | 2144024 | 3.66% | 2159 |
| chr20 | 1019426 | 1.58% | 1072 |
| chr21 | 382871 | 0.82% | 424 |
| chr22 | 969109 | 1.91% | 1031 |
| chrX | 1053947 | 0.68% | 1070 |
| chrY | 29397 | 0.05% | 24 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 40634 | 230 | 18306 | 990.09 | 720 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF886ETH.bed.gz | 978.74 KB | 6cb3f188fe6448d8aba70060c443da96 |
| ENCFF886ETH.tabix.bed.gz | 443.11 KB | 94bef64d15d1fa81e2b949f43bf85cfe |
| ENCFF886ETH.tabix.bed.gz.tbi | 170.35 KB | 4f774aaa1377697db5fa7f88c15a7fff |
| genomic_resource.yaml | 2.79 KB | 3573fb488d8c1fcda14434cc11ed8569 |
| statistics/ |