Resource
| Id | Histone_ChIP-seq/ENCSR381EFC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR381EFC [biosample_summary="Homo sapiens muscle layer of colon tissue female adult (77 years)" and target="H3K27me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (77 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN110GBO|/analyses/ENCAN110GBO/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed redacted alignments file {ENCFF426OXR|/files/ENCFF426OXR/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 28849397 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-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 redacted alignments file {ENCFF426OXR|/files/ENCFF426OXR/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.85. 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 redacted alignments file {ENCFF426OXR|/files/ENCFF426OXR/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.71. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR381EFC | float |
Histone_ChIP-seq_ENCSR381EFC |
Histone_ChIP-seq ENCSR381EFC [biosample_summary="Homo sapiens muscle layer of colon tissue female adult (77 years)" and target="H3K27me3"]
|
 |
[1.9, 13.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9944499 | 0.31% | 10200 |
| chr1 | 945450 | 0.38% | 951 |
| chr1_KI270713v1_random | 820 | 2.01% | 1 |
| chr2 | 653899 | 0.27% | 572 |
| chr3 | 401065 | 0.20% | 368 |
| chr4 | 299649 | 0.16% | 287 |
| chr5 | 526997 | 0.29% | 469 |
| chr6 | 729766 | 0.43% | 682 |
| chr7 | 483433 | 0.30% | 432 |
| chr8 | 381102 | 0.26% | 388 |
| chr9 | 401083 | 0.29% | 352 |
| chr10 | 472958 | 0.35% | 462 |
| chr11 | 471850 | 0.35% | 489 |
| chr12 | 518799 | 0.39% | 515 |
| chr13 | 244278 | 0.21% | 210 |
| chr14 | 316473 | 0.30% | 288 |
| chr15 | 289454 | 0.28% | 282 |
| chr16 | 276444 | 0.31% | 321 |
| chr17 | 627431 | 0.75% | 644 |
| chr17_GL000205v2_random | 15353 | 8.27% | 17 |
| chr18 | 129182 | 0.16% | 134 |
| chr19 | 546984 | 0.93% | 622 |
| chr20 | 344987 | 0.54% | 388 |
| chr21 | 99642 | 0.21% | 106 |
| chr22 | 156756 | 0.31% | 202 |
| chr22_KI270733v1_random | 539 | 0.30% | 1 |
| chrUn_GL000219v1 | 2904 | 1.62% | 4 |
| chrUn_KI270744v1 | 268 | 0.16% | 1 |
| chrX | 606933 | 0.39% | 1012 |
| 3338 contigs with no values (185550722 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 10200 | 252 | 19217 | 974.95 | 711 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF088FJL.bed.gz | 201.76 KB | bc8079c9c1eeed62657152f13a4ff3f2 |
| ENCFF088FJL.tabix.bed.gz | 105.1 KB | b337dd1cb62940db70413bbe1ecdecd7 |
| ENCFF088FJL.tabix.bed.gz.tbi | 54.57 KB | 0ab39164f599013a1bd78221a0d15be4 |
| genomic_resource.yaml | 3.31 KB | abae0484e32ae886d20f8cace66fe6d6 |
| statistics/ |