Resource
| Id | Histone_ChIP-seq/ENCSR562MOC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR562MOC [biosample_summary="Homo sapiens GM23248" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN107NIV|/analyses/ENCAN107NIV/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN107NIV|/analyses/ENCAN107NIV/} has in progress subobject document {fc0bc78a-e658-47b8-a9fe-f3c29bd791c4|/documents/fc0bc78a-e658-47b8-a9fe-f3c29bd791c4/} 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 {ENCFF408XMV|/files/ENCFF408XMV/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.82. 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 {ENCFF408XMV|/files/ENCFF408XMV/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.66. 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 {ENCFF861SJP|/files/ENCFF861SJP/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF861SJP|/files/ENCFF861SJP/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.35. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR562MOC | float |
Histone_ChIP-seq_ENCSR562MOC |
Histone_ChIP-seq ENCSR562MOC [biosample_summary="Homo sapiens GM23248" and target="H3K9ac"]
|
 |
[1.62, 84.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 76748782 | 2.39% | 60737 |
| chr1 | 7518369 | 3.02% | 5965 |
| chr2 | 6123286 | 2.53% | 4985 |
| chr3 | 4804467 | 2.42% | 3897 |
| chr4 | 2974367 | 1.56% | 2538 |
| chr5 | 4085977 | 2.25% | 3248 |
| chr6 | 4505174 | 2.64% | 3592 |
| chr7 | 3619656 | 2.27% | 2833 |
| chr8 | 3186979 | 2.20% | 2684 |
| chr9 | 3260665 | 2.36% | 2599 |
| chr10 | 3655640 | 2.73% | 2969 |
| chr11 | 4094333 | 3.03% | 3109 |
| chr12 | 4159166 | 3.12% | 3106 |
| chr13 | 1581126 | 1.38% | 1305 |
| chr14 | 2520304 | 2.35% | 2002 |
| chr15 | 2807314 | 2.75% | 2199 |
| chr16 | 2682601 | 2.97% | 2063 |
| chr17 | 4045756 | 4.86% | 3004 |
| chr18 | 1351472 | 1.68% | 1132 |
| chr19 | 3429093 | 5.85% | 2423 |
| chr20 | 1969242 | 3.06% | 1604 |
| chr21 | 833468 | 1.78% | 721 |
| chr22 | 1638429 | 3.22% | 1257 |
| chrX | 1821257 | 1.17% | 1441 |
| chrY | 80641 | 0.14% | 61 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 60737 | 230 | 38297 | 1263.62 | 847 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF723JVC.bed.gz | 1.67 MB | db3d6dd82fbfcd0b4c2d7bd4b942b7f0 |
| ENCFF723JVC.tabix.bed.gz | 697.14 KB | 1d358fd8acbc0f838ab5a8fdf88cdc00 |
| ENCFF723JVC.tabix.bed.gz.tbi | 245.07 KB | 786241e4e550980616f667bd87da9ca4 |
| genomic_resource.yaml | 4.22 KB | 3de86f27d35b73791090c42038a8a337 |
| statistics/ |