Histone_ChIP-seq_ENCSR038OIN
Histone_ChIP-seq ENCSR038OIN [biosample_summary="Homo sapiens trophoblast cell originated from H1" and target="H3K36me3"]
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| Id: | Histone_ChIP-seq/ENCSR038OIN |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR038OIN [biosamplesummary="Homo sapiens trophoblast cell originated from H1" and target="H3K36me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: male embryo output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN757SFL|/analyses/ENCAN757SFL/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN757SFL|/analyses/ENCAN757SFL/} has in progress subobject document {e284c0e6-2a5c-407b-91f1-24c5961de8db|/documents/e284c0e6-2a5c-407b-91f1-24c5961de8db/} audit_not_compliant: Processed alignments file {ENCFF096SAK|/files/ENCFF096SAK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 30672994 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-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 {ENCFF234RNO|/files/ENCFF234RNO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 21843093 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-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 alignments file {ENCFF096SAK|/files/ENCFF096SAK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF096SAK|/files/ENCFF096SAK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.61. 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 {ENCFF234RNO|/files/ENCFF234RNO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.84. 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 {ENCFF234RNO|/files/ENCFF234RNO/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.72. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR038OIN | float |
Histone_ChIP-seq_ENCSR038OIN |
Histone_ChIP-seq ENCSR038OIN [biosample_summary="Homo sapiens trophoblast cell originated from H1" and target="H3K36me3"]
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[1.67, 40] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF009GYO.bed.gz | 3.53 MB | 4b817885f238f7be90d0798bba06a556 |
| ENCFF009GYO.bed.gz.dvc | 101.0 B | c007233dacd5b0db4113fb1f83b0b080 |
| ENCFF009GYO.tabix.bed.gz | 1.6 MB | e72b56b07bcd769a2ee33a9e55704d0c |
| ENCFF009GYO.tabix.bed.gz.dvc | 107.0 B | 9c365993bb7288cc52d8b2b08f03e3bc |
| ENCFF009GYO.tabix.bed.gz.tbi | 205.78 KB | 1d6157540a57baa4bfdd0cc6469c029f |
| ENCFF009GYO.tabix.bed.gz.tbi.dvc | 110.0 B | b3287a993f401a9dd1b8523446f357ea |
| genomic_resource.yaml | 5.22 KB | 6471415aae9393a4a41cbb765548461a |
| genomic_resource_original.yaml | 5.08 KB | 48fb0f62c45bb05f459df65a9e5b123f |
| statistics/ |