Radiation-mediated GI injury (RIGI) in humans either due to accidental or intentional exposures, can only be managed with supporting care with no approved countermeasures available till now. Early detection and monitoring of RIGI is important for effective medical management and improve survival chances in exposed individual. The present study aims to identify new signatures of RIGI using data mining approach followed by validation of selected hub genes in mouse model. Using microarray datasets from Gene Expression Omnibus database, differentially expressed genes were identified. Pathway analysis suggested lipid metabolism as one of the predominant pathways altered in irradiated GI tissue. A protein-protein interaction network revealed top 08 hub genes related to lipid metabolism, namely Fabp1, Fabp2, Fabp6, Npc1l1, Ppar-α, Abcg8, Hnf-4α, and Insig1. qRT-PCR analysis revealed significant up-regulation of Fabp6 and Hnf-4α and down-regulation of Fabp1, Fabp2 and Insig1 transcripts in irradiated intestine. Radiation dose and time kinetics study revealed that the selected 05 genes were altered differentially in the irradiated intestine. Extensive alteration in lipid profiles and modification was observed in irradiated intestine. Finding suggests that lipid metabolism is one of the key targets of radiation and its mediators may act as biomarkers in detection and progression of RIGI.