Resource
| Id | Histone_ChIP-seq/ENCSR000AMJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR000AMJ [biosample_summary="Homo sapiens mammary epithelial cell female adult (50 years)" and target="H3K4me1"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: female adult (50 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN549YNX|/analyses/ENCAN549YNX/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF239XXU|/files/ENCFF239XXU/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 12279025 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_not_compliant: Processed alignments file {ENCFF062LKX|/files/ENCFF062LKX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 14512004 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000AMJ | float |
Histone_ChIP-seq_ENCSR000AMJ |
Histone_ChIP-seq ENCSR000AMJ [biosample_summary="Homo sapiens mammary epithelial cell female adult (50 years)" and target="H3K4me1"]
|
 |
[1.75, 27.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 123583264 | 3.84% | 142949 |
| chr1 | 12531215 | 5.03% | 13961 |
| chr1_KI270713v1_random | 367 | 0.90% | 1 |
| chr2 | 10524913 | 4.35% | 12101 |
| chr3 | 8604293 | 4.34% | 9920 |
| chr4 | 5936704 | 3.12% | 7363 |
| chr5 | 7048760 | 3.88% | 8020 |
| chr6 | 7528145 | 4.41% | 8936 |
| chr7 | 5797865 | 3.64% | 6973 |
| chr8 | 5854111 | 4.03% | 6811 |
| chr9 | 5325733 | 3.85% | 6012 |
| chr10 | 6033399 | 4.51% | 6862 |
| chr11 | 6758878 | 5.00% | 7433 |
| chr12 | 6290247 | 4.72% | 7428 |
| chr13 | 2972274 | 2.60% | 3650 |
| chr14 | 3874130 | 3.62% | 4384 |
| chr15 | 4191070 | 4.11% | 4674 |
| chr16 | 3776964 | 4.18% | 4320 |
| chr17 | 5129416 | 6.16% | 5718 |
| chr17_GL000205v2_random | 2595 | 1.40% | 2 |
| chr18 | 2913384 | 3.62% | 3388 |
| chr19 | 3000811 | 5.12% | 3827 |
| chr20 | 3519523 | 5.46% | 3928 |
| chr21 | 1426714 | 3.05% | 1598 |
| chr22 | 2295888 | 4.52% | 2420 |
| chrUn_GL000195v1 | 2333 | 1.28% | 2 |
| chrX | 2243532 | 1.44% | 3217 |
| 3340 contigs with no values (185895268 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 142949 | 190 | 14101 | 864.53 | 666 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF810PYC.bed.gz | 3.32 MB | 639a750660c5ba46b99f7128270263b9 |
| ENCFF810PYC.tabix.bed.gz | 1.48 MB | a37a682477df462825a0943fd92ebeab |
| ENCFF810PYC.tabix.bed.gz.tbi | 379.91 KB | b5a6272ba4a8d3668ff4517b2b3a3a2d |
| genomic_resource.yaml | 2.49 KB | 3d4d40c0250bcc1b5e5ead0fbf87d3e8 |
| statistics/ |