Resource
| Id | Histone_ChIP-seq/ENCSR121CWP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR121CWP [biosample_summary="Homo sapiens HAP-1" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Released analysis {ENCAN767AJL|/analyses/ENCAN767AJL/} 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 {ENCFF216JJJ|/files/ENCFF216JJJ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF216JJJ|/files/ENCFF216JJJ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.71. 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 {ENCFF146XNB|/files/ENCFF146XNB/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF146XNB|/files/ENCFF146XNB/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.31. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR121CWP | float |
Histone_ChIP-seq_ENCSR121CWP |
Histone_ChIP-seq ENCSR121CWP [biosample_summary="Homo sapiens HAP-1" and target="H3K36me3"]
|
 |
[1.42, 16.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 95693034 | 2.97% | 94957 |
| chr1 | 9603839 | 3.86% | 9256 |
| chr2 | 6558942 | 2.71% | 6971 |
| chr3 | 5620534 | 2.83% | 5758 |
| chr4 | 3579417 | 1.88% | 3962 |
| chr5 | 4784082 | 2.64% | 4772 |
| chr6 | 4083825 | 2.39% | 4319 |
| chr7 | 4381356 | 2.75% | 4489 |
| chr8 | 3092079 | 2.13% | 3360 |
| chr9 | 3891207 | 2.81% | 3862 |
| chr10 | 3784217 | 2.83% | 3894 |
| chr11 | 4728829 | 3.50% | 4520 |
| chr12 | 5647926 | 4.24% | 5446 |
| chr13 | 1783094 | 1.56% | 2005 |
| chr14 | 3151396 | 2.94% | 3300 |
| chr15 | 3973522 | 3.90% | 3838 |
| chr16 | 4424040 | 4.90% | 3972 |
| chr17 | 5933897 | 7.13% | 5393 |
| chr18 | 1351791 | 1.68% | 1592 |
| chr19 | 4977652 | 8.49% | 4567 |
| chr20 | 2943341 | 4.57% | 2782 |
| chr21 | 1071977 | 2.29% | 1069 |
| chr22 | 2531843 | 4.98% | 2279 |
| chrX | 3794228 | 2.43% | 3551 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 94957 | 215 | 37200 | 1007.75 | 623 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF979TPN.bed.gz | 2.1 MB | 1ba64c64576dd217dd5c656cef289929 |
| ENCFF979TPN.tabix.bed.gz | 997.34 KB | 3c38ba59c34dfa5520c0969f0d78c86a |
| ENCFF979TPN.tabix.bed.gz.tbi | 145.18 KB | f0a2673a0ffdb5610ef9a1f4d640916e |
| genomic_resource.yaml | 3.99 KB | e461926685686a9f139884224a960ca7 |
| statistics/ |