Interpret 3'/5' Imbalance scores for assay calls
3'/5' Imbalance values are reported in the 3'/5' Imbalance column. The 3'/5' Imbalance score for an assay applies to all fusion calls with the driver gene that is reported in the Genes (Exons) column.
- Find the driver gene for the fusion, which is the second gene listed in the Genes (Exons) column.
- Find the ASSAYS_5P_3P entry that reports that driver gene in its Genes (Exons) field.
- Use the Imbalance value for that ASSAYS_5P_3P entry to interpret the fusion calls for all fusions whose driver gene matches the ASSAYS_5P_3P's Genes (Exons) field.
An Imbalance value is calculated by subtracting the number of 5' reads from the number of 3' reads, and dividing the result by the sum of all EXPR_CONTROL reads:
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(3' reads - 5' reads) / (sum of all EXPR_CONTROL reads)
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Imbalance values are interpreted as follows:
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For the Ion AmpliSeq™ RNA Fusion Lung Cancer Research Panel and similar panels from AmpliSeq.com, the following table lists the imbalance score thresholds.
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For the Oncomine™ Focus Assay, the following table lists the imbalance score thresholds: