Resource
| Id | Histone_ChIP-seq/ENCSR268JEO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR268JEO [biosample_summary="Homo sapiens common myeloid progenitor, CD34-positive male adult (36 years)" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (36 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN611WQG|/analyses/ENCAN611WQG/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN611WQG|/analyses/ENCAN611WQG/} has in progress subobject document {6d338fa5-511d-461b-b739-d9c3c4ba092e|/documents/6d338fa5-511d-461b-b739-d9c3c4ba092e/} audit_not_compliant: Processed alignments file {ENCFF207RGU|/files/ENCFF207RGU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 11248408 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 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 {ENCFF207RGU|/files/ENCFF207RGU/} 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 {ENCFF207RGU|/files/ENCFF207RGU/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.35. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR268JEO | float |
Histone_ChIP-seq_ENCSR268JEO |
Histone_ChIP-seq ENCSR268JEO [biosample_summary="Homo sapiens common myeloid progenitor, CD34-positive male adult (36 years)" and target="H3K36me3"]
|
 |
[1.92, 16.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 71787886 | 2.23% | 140781 |
| chr1 | 7062480 | 2.84% | 13769 |
| chr2 | 5429594 | 2.24% | 11154 |
| chr3 | 4654086 | 2.35% | 9305 |
| chr4 | 2772676 | 1.46% | 5915 |
| chr5 | 3401845 | 1.87% | 6899 |
| chr6 | 3320113 | 1.94% | 6799 |
| chr7 | 3570207 | 2.24% | 7264 |
| chr8 | 2474674 | 1.71% | 5090 |
| chr9 | 3196703 | 2.31% | 6082 |
| chr10 | 3080361 | 2.30% | 6241 |
| chr11 | 3494037 | 2.59% | 6633 |
| chr12 | 4035047 | 3.03% | 7777 |
| chr13 | 1459973 | 1.28% | 3131 |
| chr14 | 2312231 | 2.16% | 4650 |
| chr15 | 2590107 | 2.54% | 5126 |
| chr16 | 3272538 | 3.62% | 6056 |
| chr17 | 4017764 | 4.83% | 7558 |
| chr18 | 1178948 | 1.47% | 2536 |
| chr19 | 4634897 | 7.91% | 7768 |
| chr20 | 2226951 | 3.46% | 4121 |
| chr21 | 955101 | 2.04% | 1782 |
| chr22 | 2000298 | 3.94% | 3512 |
| chrX | 647255 | 0.41% | 1613 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 140781 | 160 | 6992 | 509.93 | 415 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF936ZZA.bed.gz | 2.43 MB | 583c9eebbdc511daf424fa197202c8f8 |
| ENCFF936ZZA.tabix.bed.gz | 1.26 MB | 3c9e73f33df35002185dc4fb810ce96d |
| ENCFF936ZZA.tabix.bed.gz.tbi | 207.39 KB | 7ee21a6f67798cd5573f5f7f869fec82 |
| genomic_resource.yaml | 3.54 KB | 3c1b4aff9a7e2749db6a3ad6e7213518 |
| statistics/ |