Resource
| Id | Histone_ChIP-seq/ENCSR975NOU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR975NOU [biosample_summary="Homo sapiens thyroid gland tissue male adult (54 years)" and target="H3K4me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (54 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN807VTX|/analyses/ENCAN807VTX/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} 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 {ENCFF465MFX|/files/ENCFF465MFX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF465MFX|/files/ENCFF465MFX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.92. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR975NOU | float |
Histone_ChIP-seq_ENCSR975NOU |
Histone_ChIP-seq ENCSR975NOU [biosample_summary="Homo sapiens thyroid gland tissue male adult (54 years)" and target="H3K4me3"]
|
 |
[1.72, 15.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19200441 | 0.60% | 23020 |
| chr1 | 1883893 | 0.76% | 2253 |
| chr2 | 1369336 | 0.57% | 1577 |
| chr3 | 1149547 | 0.58% | 1287 |
| chr4 | 862058 | 0.45% | 984 |
| chr5 | 920107 | 0.51% | 1032 |
| chr6 | 1192819 | 0.70% | 1362 |
| chr7 | 917756 | 0.58% | 1106 |
| chr8 | 749798 | 0.52% | 889 |
| chr9 | 793680 | 0.57% | 956 |
| chr10 | 827096 | 0.62% | 960 |
| chr11 | 1020248 | 0.76% | 1226 |
| chr12 | 1051503 | 0.79% | 1204 |
| chr13 | 415251 | 0.36% | 471 |
| chr14 | 679368 | 0.63% | 780 |
| chr14_KI270725v1_random | 355 | 0.21% | 1 |
| chr15 | 628323 | 0.62% | 756 |
| chr16 | 698440 | 0.77% | 905 |
| chr17 | 1022730 | 1.23% | 1306 |
| chr17_GL000205v2_random | 989 | 0.53% | 1 |
| chr18 | 348782 | 0.43% | 407 |
| chr19 | 1095663 | 1.87% | 1442 |
| chr20 | 468105 | 0.73% | 583 |
| chr21 | 190911 | 0.41% | 230 |
| chr22 | 371556 | 0.73% | 504 |
| chr22_KI270733v1_random | 201 | 0.11% | 1 |
| chrUn_GL000218v1 | 218 | 0.14% | 1 |
| chrUn_GL000219v1 | 705 | 0.39% | 2 |
| chrUn_KI270333v1 | 958 | 35.49% | 2 |
| chrUn_KI270336v1 | 333 | 32.46% | 1 |
| chrUn_KI270337v1 | 459 | 40.95% | 1 |
| chrUn_KI270466v1 | 886 | 71.86% | 2 |
| chrUn_KI270467v1 | 1508 | 38.47% | 1 |
| chrUn_KI270750v1 | 524 | 0.35% | 2 |
| chrX | 510596 | 0.33% | 757 |
| chrY | 25739 | 0.04% | 28 |
| 3331 contigs with no values (128039718 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 23020 | 195 | 8575 | 834.08 | 695 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF612FNE.bed.gz | 542.84 KB | 26f1c5b76f3acda145c9181f4a3986f2 |
| ENCFF612FNE.tabix.bed.gz | 252.5 KB | c351e97e7a3f52dc02427331c06145aa |
| ENCFF612FNE.tabix.bed.gz.tbi | 128.33 KB | 358b0d8a1a84e9f17087979f76f768bc |
| genomic_resource.yaml | 2.75 KB | 62424c90dc4f167b4054db832607778f |
| statistics/ |