Histone_ChIP-seq_ENCSR000FCM
Histone_ChIP-seq ENCSR000FCM [biosample_summary="Homo sapiens Panc1" and target="H3K36me3"]
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| Id: | Histone_ChIP-seq/ENCSR000FCM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000FCM [biosamplesummary="Homo sapiens Panc1" and target="H3K36me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN609OEA|/analyses/ENCAN609OEA/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF114KPN|/files/ENCFF114KPN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 16247909 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 {ENCFF455VTP|/files/ENCFF455VTP/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 15009966 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 {ENCFF114KPN|/files/ENCFF114KPN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF114KPN|/files/ENCFF114KPN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 5.20. 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 {ENCFF455VTP|/files/ENCFF455VTP/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF455VTP|/files/ENCFF455VTP/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.44. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000FCM | float |
Histone_ChIP-seq_ENCSR000FCM |
Histone_ChIP-seq ENCSR000FCM [biosample_summary="Homo sapiens Panc1" and target="H3K36me3"]
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[1.49, 14.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF022DZS.bed.gz | 1.5 MB | 2e5f3172dd225b1f2074e7c871c59390 |
| ENCFF022DZS.bed.gz.dvc | 101.0 B | 19699215d552f09d8bb627712e3499a0 |
| ENCFF022DZS.tabix.bed.gz | 770.43 KB | 36b88b0f379f560609b67ee5b1d7b150 |
| ENCFF022DZS.tabix.bed.gz.dvc | 106.0 B | 8266df6ed9a96d5430da24e651f12606 |
| ENCFF022DZS.tabix.bed.gz.tbi | 146.24 KB | 7e6f2036422f7e7b2fede21d8a3468a3 |
| ENCFF022DZS.tabix.bed.gz.tbi.dvc | 110.0 B | ebfce6fdbad4403ad1466bd0f6408180 |
| genomic_resource.yaml | 4.98 KB | 9267a82e3eba9cd5b8755c1927c8d003 |
| genomic_resource_original.yaml | 4.87 KB | b06879cbffe69e670abf1d7e9ea22956 |
| statistics/ |