Resource
| Id | Histone_ChIP-seq/ENCSR848EZM |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR848EZM [biosample_summary="Homo sapiens iPS-15b" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN799PYH|/analyses/ENCAN799PYH/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF734WKE|/files/ENCFF734WKE/} processed by ChIP-seq ENCODE3 hg19 pipeline has 16697949 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-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: 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 {ENCFF734WKE|/files/ENCFF734WKE/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF734WKE|/files/ENCFF734WKE/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.32. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR848EZM | float |
Histone_ChIP-seq_ENCSR848EZM |
Histone_ChIP-seq ENCSR848EZM [biosample_summary="Homo sapiens iPS-15b" and target="H3K9ac"]
|
 |
[1.93, 49.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19762438 | 0.61% | 34532 |
| chr1 | 2040648 | 0.82% | 3541 |
| chr2 | 1304404 | 0.54% | 2232 |
| chr3 | 1151657 | 0.58% | 1994 |
| chr4 | 740795 | 0.39% | 1282 |
| chr5 | 968328 | 0.53% | 1660 |
| chr6 | 1193355 | 0.70% | 1974 |
| chr7 | 907395 | 0.57% | 1610 |
| chr8 | 704486 | 0.49% | 1261 |
| chr9 | 798660 | 0.58% | 1467 |
| chr10 | 782826 | 0.59% | 1418 |
| chr11 | 1094641 | 0.81% | 1852 |
| chr12 | 1048929 | 0.79% | 1785 |
| chr13 | 379523 | 0.33% | 670 |
| chr14 | 645780 | 0.60% | 1122 |
| chr15 | 632026 | 0.62% | 1133 |
| chr16 | 847875 | 0.94% | 1501 |
| chr17 | 1110407 | 1.33% | 1960 |
| chr18 | 284036 | 0.35% | 533 |
| chr19 | 1318850 | 2.25% | 2281 |
| chr20 | 588873 | 0.91% | 1043 |
| chr21 | 187375 | 0.40% | 348 |
| chr22 | 484912 | 0.95% | 896 |
| chrX | 545746 | 0.35% | 968 |
| chrY | 911 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 34532 | 170 | 7237 | 572.29 | 449 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF510PCM.bed.gz | 700.54 KB | b6437264e2d164a482577fb871f0ba05 |
| ENCFF510PCM.tabix.bed.gz | 345.34 KB | 48af276aa3dde196d4aca00fa89116eb |
| ENCFF510PCM.tabix.bed.gz.tbi | 168.12 KB | d22087f20f4428d0fe2720ab64f5561e |
| genomic_resource.yaml | 3.16 KB | 4f65b7f6ee74969eb56ce924b300a6d2 |
| statistics/ |