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This paper presents a novel framework for training convolutional neural networks (CNNs) to quantify the impact of gradual and abrupt uncertainties in the form of adversarial attacks. Uncertainty quantification is achieved by combining the CNN with a Gaussian process (GP) classifier algorithm. The variance of the GP quantifies the impact on the uncertainties and especially their effect on the object classification tasks. Learning from uncertainty provides the proposed CNN-GP framework with flexibility, reliability and robustness to adversarial attacks. The proposed approach includes training the network under noisy conditions. This is accomplished by comparing predictions with classification labels via the Kullback-Leibler divergence, Wasserstein distance and maximum correntropy. The network performance is tested on the classical MNIST, Fashion-MNIST, CIFAR10 and CIFAR 100 datasets. Further tests on robustness to both black-box and white-box attacks are also carried out for MNIST. The results show that the testing accuracy improves for networks that backpropogate uncertainty as compared to methods that do not quantify the impact of uncertainties. A comparison with a state-of-art Monte Carlo dropout method is also presented and the outperformance of the CNN-GP framework with respect to reliability and computational efficiency is demonstrated.