Data include evaluation of lipidomic changes in the mouse lungs exposed to biomass smoke particles and their association with gene expression changes which can lead to lung inflammation and potential diseases. This dataset is associated with the following publication: Jostes, H., E. Hickman, A. Solosky, J. Chappel, E.C. Vincent, Y.H. Kim, I. Gilmour, J. Rager, and E. Baker. Wildfire smoke induces GM3 ganglioside lipid accumulation and transcriptomic shifts in mouse lung tissue: A smoke signal story. SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM, NETHERLANDS, 1000: 180396, (2025).