Table A.8.

This table depicts a sample fourth order gene set that were discovered using RIT on the resulting paths from iRF-LOOP on A. thaliana expression data. This set had a prevalence of 0.331. This set contains a mix of both known and unknown gene to gene relationships.

Gene ID	Function	Target	Target Function	Relationship
AT3G10040 – AT5G39890 – AT1G12805 – AT5G15120	Hypoxia Response Attenuator 1 (HRA1) – Plant Cysteine Oxidase 2 (PCO2), Hypoxia Response Unknown Protein 43 (HUP43) – Nucleotide binding protein – Plant Cysteine Oxidase 1 (PCO1), Hypoxia Response Unknown Protein 29 (HUP29)	AT3G27220	Hypoxia Response Unknown Protein 6 (HUP6)	HUP43, HUP29, and HUP6 are all Hypoxia – Responsive Unknown Proteins (HUPs). HRA1 interacts with RAP2.12, RAP2.12 binds to PCO1 promoters in the Hypoxia-Responsive Promoter Element regions, which includes HUP6. RAP2.12 also binds to HUP29 and HUP43 [33], [34], [35].