Resource
| Id | Histone_ChIP-seq/ENCSR120LGC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR120LGC [biosample_summary="Homo sapiens MM.1S" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Released analysis {ENCAN034NJP|/analyses/ENCAN034NJP/} has in progress subobject document {f88db475-68b9-4cb1-a8a1-f8c7c2c0424c|/documents/f88db475-68b9-4cb1-a8a1-f8c7c2c0424c/} audit_internal_action: Released analysis {ENCAN034NJP|/analyses/ENCAN034NJP/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF140EJX|/files/ENCFF140EJX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19582393 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 {ENCFF140EJX|/files/ENCFF140EJX/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF140EJX|/files/ENCFF140EJX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.81. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR120LGC | float |
Histone_ChIP-seq_ENCSR120LGC |
Histone_ChIP-seq ENCSR120LGC [biosample_summary="Homo sapiens MM.1S" and target="H3K36me3"]
|
 |
[1.66, 8.24] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15241814 | 0.47% | 26614 |
| chr1 | 1820380 | 0.73% | 3029 |
| chr2 | 1308560 | 0.54% | 2346 |
| chr3 | 1146273 | 0.58% | 1994 |
| chr4 | 668204 | 0.35% | 1229 |
| chr5 | 1002629 | 0.55% | 1768 |
| chr6 | 535761 | 0.31% | 942 |
| chr7 | 1008028 | 0.63% | 1754 |
| chr8 | 528024 | 0.36% | 939 |
| chr9 | 544711 | 0.39% | 972 |
| chr10 | 747887 | 0.56% | 1264 |
| chr11 | 794091 | 0.59% | 1396 |
| chr12 | 728372 | 0.55% | 1314 |
| chr13 | 174352 | 0.15% | 328 |
| chr14 | 27866 | 0.03% | 65 |
| chr15 | 538293 | 0.53% | 1031 |
| chr16 | 501541 | 0.56% | 869 |
| chr17 | 813309 | 0.98% | 1449 |
| chr18 | 316443 | 0.39% | 549 |
| chr19 | 761711 | 1.30% | 1197 |
| chr20 | 509876 | 0.79% | 900 |
| chr21 | 334401 | 0.72% | 488 |
| chr22 | 360247 | 0.71% | 633 |
| chrX | 70855 | 0.05% | 158 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 26614 | 178 | 8441 | 572.7 | 471 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF462UOG.bed.gz | 570.83 KB | 4aef6ca8ac154b23815e8082f3a03f37 |
| ENCFF462UOG.tabix.bed.gz | 276.51 KB | bd6f049d65e77d98e08c1ef65aaae7ea |
| ENCFF462UOG.tabix.bed.gz.tbi | 88.13 KB | 9e3e5166a1f57650c5bbb1cb915865f8 |
| genomic_resource.yaml | 3.41 KB | ac01452e43c91089a5430b660443b471 |
| statistics/ |