Resource
| Id | Histone_ChIP-seq/ENCSR266EYO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR266EYO [biosample_summary="Homo sapiens thyroid gland tissue male adult (37 years)" and target="H3K9me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (37 years) output_type: replicated peaks audit_internal_action: Released analysis {ENCAN813BXY|/analyses/ENCAN813BXY/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN813BXY|/analyses/ENCAN813BXY/} has in progress subobject document {a1f9c0db-72e3-472e-b1f2-97143daed552|/documents/a1f9c0db-72e3-472e-b1f2-97143daed552/} audit_not_compliant: Processed unfiltered alignments file {ENCFF899FTF|/files/ENCFF899FTF/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 25270320 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_warning: Processed unfiltered alignments file {ENCFF340NGG|/files/ENCFF340NGG/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 38813455 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. 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 alignments file {ENCFF432SKK|/files/ENCFF432SKK/} processed by ChIP-seq ENCODE4 v1.5.1 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 alignments file {ENCFF432SKK|/files/ENCFF432SKK/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.63. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR266EYO | float |
Histone_ChIP-seq_ENCSR266EYO |
Histone_ChIP-seq ENCSR266EYO [biosample_summary="Homo sapiens thyroid gland tissue male adult (37 years)" and target="H3K9me3"]
|
 |
[1.6, 7.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 2419989 | 0.08% | 6199 |
| chr1 | 150128 | 0.06% | 413 |
| chr2 | 164773 | 0.07% | 478 |
| chr3 | 136228 | 0.07% | 394 |
| chr4 | 187100 | 0.10% | 479 |
| chr5 | 185558 | 0.10% | 497 |
| chr6 | 113004 | 0.07% | 331 |
| chr7 | 135718 | 0.09% | 349 |
| chr8 | 112866 | 0.08% | 317 |
| chr9 | 97021 | 0.07% | 253 |
| chr10 | 100871 | 0.08% | 274 |
| chr11 | 83750 | 0.06% | 248 |
| chr12 | 136593 | 0.10% | 311 |
| chr13 | 78058 | 0.07% | 231 |
| chr14 | 68040 | 0.06% | 190 |
| chr15 | 44270 | 0.04% | 132 |
| chr16 | 64716 | 0.07% | 146 |
| chr17 | 30163 | 0.04% | 73 |
| chr18 | 45579 | 0.06% | 132 |
| chr19 | 385501 | 0.66% | 667 |
| chr20 | 27392 | 0.04% | 86 |
| chr21 | 51599 | 0.11% | 139 |
| chr22 | 18535 | 0.04% | 52 |
| chrX | 1299 | <0.01% | 4 |
| chrY | 1227 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 6199 | 195 | 6642 | 390.38 | 319 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF916LJR.bed.gz | 107.37 KB | 99ffb370421982ba723daeb1c6d03d36 |
| ENCFF916LJR.tabix.bed.gz | 58.84 KB | 05d4b183d3863efe7b96ac07bcce7d04 |
| ENCFF916LJR.tabix.bed.gz.tbi | 51.44 KB | eb4a4c77ca9a781ecc4ff3bda7e07ec0 |
| genomic_resource.yaml | 3.96 KB | 9a40921d96b70e15ad107996134d18bc |
| statistics/ |