Resource
| Id | Histone_ChIP-seq/ENCSR000ANU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR000ANU [biosample_summary="Homo sapiens myotube originated from skeletal muscle myoblast" and target="H2AFZ"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (22 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN475IFK|/analyses/ENCAN475IFK/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF494ATJ|/files/ENCFF494ATJ/} processed by ChIP-seq ENCODE3 hg19 pipeline has 10831807 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H2AFZ-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: Processed alignments file {ENCFF552VOM|/files/ENCFF552VOM/} processed by ChIP-seq ENCODE3 hg19 pipeline has 14717385 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H2AFZ-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 alignments file {ENCFF494ATJ|/files/ENCFF494ATJ/} processed by ChIP-seq ENCODE3 hg19 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 alignments file {ENCFF494ATJ|/files/ENCFF494ATJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.56. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ANU | float |
Histone_ChIP-seq_ENCSR000ANU |
Histone_ChIP-seq ENCSR000ANU [biosample_summary="Homo sapiens myotube originated from skeletal muscle myoblast" and target="H2AFZ"]
|
 |
[1.7, 44.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 54481600 | 1.69% | 88095 |
| chr1 | 5011471 | 2.01% | 7881 |
| chr2 | 4556750 | 1.88% | 7537 |
| chr3 | 3534760 | 1.78% | 5768 |
| chr4 | 2707378 | 1.42% | 4578 |
| chr5 | 3060476 | 1.69% | 5076 |
| chr6 | 3726853 | 2.18% | 5943 |
| chr7 | 2622314 | 1.65% | 4324 |
| chr8 | 2564903 | 1.77% | 4251 |
| chr9 | 2266034 | 1.64% | 3664 |
| chr10 | 2600349 | 1.94% | 4280 |
| chr11 | 2555002 | 1.89% | 3995 |
| chr12 | 2796662 | 2.10% | 4506 |
| chr13 | 1575490 | 1.38% | 2740 |
| chr14 | 1730569 | 1.62% | 2689 |
| chr15 | 1799949 | 1.76% | 2860 |
| chr16 | 1648992 | 1.83% | 2588 |
| chr17 | 2354004 | 2.83% | 3623 |
| chr18 | 1192459 | 1.48% | 2023 |
| chr19 | 1992462 | 3.40% | 2784 |
| chr20 | 1278913 | 1.98% | 2039 |
| chr21 | 662056 | 1.42% | 1149 |
| chr22 | 895925 | 1.76% | 1415 |
| chrX | 1312849 | 0.84% | 2324 |
| chrY | 34980 | 0.06% | 58 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 88095 | 165 | 6120 | 618.44 | 473 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF385WZD.bed.gz | 2.02 MB | 68777eb1726ad71930edd7fe68648a6a |
| ENCFF385WZD.tabix.bed.gz | 932.65 KB | 7f399a693f424e5c914f9f07ca96f571 |
| ENCFF385WZD.tabix.bed.gz.tbi | 371.02 KB | 55d16cb263a0ddf11ec0537fd7a57fca |
| genomic_resource.yaml | 3.73 KB | 1543efa0dae242f7a87c97db3bc6a4f8 |
| statistics/ |