Phase 1 – Gene selection
Data from Bai J et al. (2015) were filtered and sorted by foldchange to determine the most-changed genes under HRV16 in asthmatics (Fig.1a, Col.O). Preliminary research revealed that most of the top genes were already well-researched regarding relationship to asthma.
To see the most-significant, Set A was sorted by p-value of DGE (Fig.1b). STAT2, OAS1, OAS2, OAS3 were chosen: an initial search of the literature showed these hadn’t been researched regarding involvement in asthma and, given their roles in viral response pathways (STAT activating OAS; OAS terminating RNA, inhibiting viral synthesis) and how viral infections aggravate asthma, it is worth investigating these genes to discover their part in asthma.
Figure 1: Spreadsheet of initial gene selection analysis of original dataset.
Foldchange columns (K,M,O,Q) coloured by gradient for visual identification.
Data sorted by foldchange, then by p-value.
Basic research on each gene was added, revealing suitability for research.
Gene rows were coloured on suitability (red: unsuitable; yellow: consider; green: potential research candidates).
Green boxes highlight sorted column; blue boxes highlight columns added to contain preliminary research notes.
Image a/ Sorted by Set A foldchange.
Image b/ Sorted by Set A p-value.
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