Deep fundamental factor models are developed to interpret and capture non-linearity, interaction effects and non-parametric shocks in financial econometrics. Uncertainty quantification provides interpretability with interval estimation, ranking of factor importances and estimation of interaction effects. Estimating factor realizations under either homoscedastic or heteroscedastic error is also available. With no hidden layers we recover a linear factor model and for one or more hidden layers, uncertainty bands for the sensitivity to each input naturally arise from the network weights. To illustrate our methodology, we construct a six-factor model of assets in the S\&P 500 index and generate information ratios that are three times greater than generalized linear regression. We show that the factor importances are materially different from the linear factor model when accounting for non-linearity. Finally, we conclude with directions for future research