Resource
| Id | Histone_ChIP-seq/ENCSR061NWO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR061NWO [biosample_summary="Homo sapiens endocrine pancreas tissue male adult (46 years)" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (46 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN679YIL|/analyses/ENCAN679YIL/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed redacted alignments file {ENCFF238GSL|/files/ENCFF238GSL/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 8470585 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-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 {ENCFF238GSL|/files/ENCFF238GSL/} processed by ChIP-seq ENCODE3 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 redacted alignments file {ENCFF238GSL|/files/ENCFF238GSL/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.65. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR061NWO | float |
Histone_ChIP-seq_ENCSR061NWO |
Histone_ChIP-seq ENCSR061NWO [biosample_summary="Homo sapiens endocrine pancreas tissue male adult (46 years)" and target="H3K9ac"]
|
 |
[2.07, 34] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19385259 | 0.60% | 40344 |
| chr1 | 1976723 | 0.79% | 4098 |
| chr2 | 1266233 | 0.52% | 2589 |
| chr3 | 1106091 | 0.56% | 2211 |
| chr4 | 746342 | 0.39% | 1515 |
| chr5 | 907278 | 0.50% | 1811 |
| chr6 | 1077150 | 0.63% | 2181 |
| chr7 | 891873 | 0.56% | 1871 |
| chr8 | 719854 | 0.50% | 1549 |
| chr9 | 801434 | 0.58% | 1715 |
| chr10 | 772181 | 0.58% | 1639 |
| chr11 | 1147397 | 0.85% | 2367 |
| chr12 | 1022234 | 0.77% | 2063 |
| chr13 | 399342 | 0.35% | 804 |
| chr14 | 657350 | 0.61% | 1320 |
| chr15 | 612432 | 0.60% | 1250 |
| chr16 | 821412 | 0.91% | 1781 |
| chr17 | 1195405 | 1.44% | 2561 |
| chr17_GL000205v2_random | 1610 | 0.87% | 2 |
| chr18 | 295189 | 0.37% | 642 |
| chr19 | 1293619 | 2.21% | 2694 |
| chr20 | 559521 | 0.87% | 1198 |
| chr21 | 174454 | 0.37% | 375 |
| chr22 | 477825 | 0.94% | 1028 |
| chrUn_GL000219v1 | 266 | 0.15% | 1 |
| chrX | 447204 | 0.29% | 1049 |
| chrY | 14840 | 0.03% | 30 |
| 3340 contigs with no values (128712296 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 40344 | 135 | 3928 | 480.5 | 362 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF227EUU.bed.gz | 821.11 KB | 45c012c7b25dd6ce6c3af78997f70490 |
| ENCFF227EUU.tabix.bed.gz | 402.09 KB | b8e0aedf0d4d36ca3e386986ba32a4cd |
| ENCFF227EUU.tabix.bed.gz.tbi | 158.06 KB | bf863562bff5374dd8842b3cb3e97f0e |
| genomic_resource.yaml | 3.28 KB | 5953f53abb16f8cfa489db36b8fecba6 |
| statistics/ |