Histone_ChIP-seq_ENCSR901JIL
Histone_ChIP-seq ENCSR901JIL [biosample_summary="Homo sapiens mucosa of rectum tissue female adult (50 years)" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR901JIL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR901JIL [biosamplesummary="Homo sapiens mucosa of rectum tissue female adult (50 years)" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (50 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN662WRU|/analyses/ENCAN662WRU/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed redacted alignments file {ENCFF539EVS|/files/ENCFF539EVS/} processed by ChIP-seq ENCODE3 hg19 pipeline has 20458606 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_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 {ENCFF539EVS|/files/ENCFF539EVS/} processed by ChIP-seq ENCODE3 hg19 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 redacted alignments file {ENCFF539EVS|/files/ENCFF539EVS/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.20. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR901JIL | float |
Histone_ChIP-seq_ENCSR901JIL |
Histone_ChIP-seq ENCSR901JIL [biosample_summary="Homo sapiens mucosa of rectum tissue female adult (50 years)" and target="H3K4me1"]
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[1.59, 21.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF938BVK.bed.gz | 1.56 MB | 480e1fcf8ecb09f7cde45b8d95854799 |
| ENCFF938BVK.bed.gz.dvc | 101.0 B | 4b82ef368195249138f8a2cfdf9eb3fe |
| ENCFF938BVK.tabix.bed.gz | 809.77 KB | 8f5896b4aa9110b6b752fd3ccbeb5c9b |
| ENCFF938BVK.tabix.bed.gz.dvc | 106.0 B | c87390526b1b5031b4d4845fdcd83062 |
| ENCFF938BVK.tabix.bed.gz.tbi | 248.3 KB | 29daed2b2ae3620d9f7bd1d25dee514a |
| ENCFF938BVK.tabix.bed.gz.tbi.dvc | 110.0 B | 95cdf7e63f9e20a0df6c35081e0172c6 |
| genomic_resource.yaml | 3.28 KB | 072e690155adb1ab2453e40ba2b3144b |
| genomic_resource_original.yaml | 3.14 KB | 1224d2f2a5daa5f3947649851e34b06c |
| statistics/ |