Resource
| Id | Histone_ChIP-seq/ENCSR230IMS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR230IMS [biosample_summary="Homo sapiens liver tissue male adult (31 years)" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (31 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN882LNG|/analyses/ENCAN882LNG/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed redacted alignments file {ENCFF252RFB|/files/ENCFF252RFB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 15875266 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27ac-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 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 {ENCFF252RFB|/files/ENCFF252RFB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF252RFB|/files/ENCFF252RFB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.74. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR230IMS | float |
Histone_ChIP-seq_ENCSR230IMS |
Histone_ChIP-seq ENCSR230IMS [biosample_summary="Homo sapiens liver tissue male adult (31 years)" and target="H3K27ac"]
|
 |
[1.91, 76.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 67927972 | 2.11% | 67506 |
| chr1 | 6795120 | 2.73% | 6647 |
| chr2 | 4950398 | 2.04% | 4993 |
| chr3 | 4192509 | 2.11% | 4226 |
| chr4 | 2663161 | 1.40% | 2765 |
| chr5 | 3359318 | 1.85% | 3304 |
| chr6 | 3650903 | 2.14% | 3682 |
| chr7 | 3164474 | 1.99% | 3165 |
| chr8 | 2835526 | 1.95% | 2902 |
| chr9 | 3333883 | 2.41% | 3108 |
| chr10 | 3397239 | 2.54% | 3490 |
| chr11 | 3667985 | 2.72% | 3510 |
| chr12 | 3428535 | 2.57% | 3402 |
| chr13 | 1477431 | 1.29% | 1487 |
| chr14 | 2155097 | 2.01% | 2100 |
| chr15 | 2362379 | 2.32% | 2283 |
| chr16 | 2699485 | 2.99% | 2651 |
| chr17 | 3471604 | 4.17% | 3319 |
| chr17_GL000205v2_random | 1096 | 0.59% | 2 |
| chr18 | 1410824 | 1.76% | 1421 |
| chr19 | 3018370 | 5.15% | 2970 |
| chr20 | 1904908 | 2.96% | 1880 |
| chr21 | 753088 | 1.61% | 741 |
| chr22 | 1786924 | 3.52% | 1704 |
| chrUn_GL000195v1 | 1541 | 0.84% | 2 |
| chrUn_GL000219v1 | 1025 | 0.57% | 2 |
| chrX | 1445149 | 0.93% | 1750 |
| 3340 contigs with no values (185756815 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 67506 | 245 | 29801 | 1006.25 | 669 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF976KNB.bed.gz | 1.54 MB | fd1987cedc47bd7f8c92532ecd21c3de |
| ENCFF976KNB.tabix.bed.gz | 726.69 KB | 67a710117e65d11ed8f8466aaf03c3b5 |
| ENCFF976KNB.tabix.bed.gz.tbi | 220.81 KB | c995a3aa976045996817b6f2248d708e |
| genomic_resource.yaml | 3.24 KB | acd5d643cc5a0805adb24cbd55de7f98 |
| statistics/ |