Resource
| Id | Histone_ChIP-seq/ENCSR007YOT |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR007YOT [biosample_summary="Homo sapiens GM23248" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN736RBO|/analyses/ENCAN736RBO/} has in progress subobject document {2ef151ec-d326-4a3d-ba1f-5f0b88223d06|/documents/2ef151ec-d326-4a3d-ba1f-5f0b88223d06/} audit_internal_action: Released analysis {ENCAN736RBO|/analyses/ENCAN736RBO/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-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 {ENCFF554CLT|/files/ENCFF554CLT/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF554CLT|/files/ENCFF554CLT/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.52. 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 {ENCFF044OBF|/files/ENCFF044OBF/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF044OBF|/files/ENCFF044OBF/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.24. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR007YOT | float |
Histone_ChIP-seq_ENCSR007YOT |
Histone_ChIP-seq ENCSR007YOT [biosample_summary="Homo sapiens GM23248" and target="H3K27ac"]
|
 |
[1.83, 69.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 106295945 | 3.30% | 74900 |
| chr1 | 10274070 | 4.13% | 7253 |
| chr2 | 9241377 | 3.82% | 6484 |
| chr3 | 7215211 | 3.64% | 5094 |
| chr4 | 4755984 | 2.50% | 3545 |
| chr5 | 6211557 | 3.42% | 4169 |
| chr6 | 6359619 | 3.72% | 4537 |
| chr7 | 5157964 | 3.24% | 3652 |
| chr8 | 4878641 | 3.36% | 3624 |
| chr9 | 4552471 | 3.29% | 3183 |
| chr10 | 5239287 | 3.92% | 3684 |
| chr11 | 5543704 | 4.10% | 3710 |
| chr12 | 5822356 | 4.37% | 3982 |
| chr13 | 2377995 | 2.08% | 1768 |
| chr14 | 3459429 | 3.23% | 2335 |
| chr15 | 4049813 | 3.97% | 2572 |
| chr16 | 3046902 | 3.37% | 2206 |
| chr17 | 4645142 | 5.58% | 3257 |
| chr18 | 1991834 | 2.48% | 1455 |
| chr19 | 3220496 | 5.49% | 2216 |
| chr20 | 2533921 | 3.93% | 1871 |
| chr21 | 1181209 | 2.53% | 868 |
| chr22 | 1888011 | 3.72% | 1262 |
| chrX | 2511778 | 1.61% | 2067 |
| chrY | 137174 | 0.24% | 106 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 74900 | 218 | 43376 | 1419.17 | 1059 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF439OYI.bed.gz | 2.05 MB | 775d2a9af66b3fab4eee40f3f4f27cf8 |
| ENCFF439OYI.tabix.bed.gz | 860.45 KB | 16ea586fe1af692e2e1fc7ac8732d255 |
| ENCFF439OYI.tabix.bed.gz.tbi | 271.73 KB | 37bfa37c023ad5bc99b48e0888e00a6c |
| genomic_resource.yaml | 4.22 KB | 503886cfaea96f5d810a20f0f21964f1 |
| statistics/ |