PCA-aided Fully Convolutional Networks for Semantic Segmentation of Multi-channel fMRI

Semantic segmentation of functional magnetic resonance imaging (fMRI) makes great sense for pathology diagnosis and decision system of medical robots. The multi-channel fMRI data provide more information of the pathological features. But the increased amount of data causes complexity in feature detection. This paper proposes a principal component analysis (PCA)-aided fully convolutional network to particularly deal with multi-channel fMRI. We transfer the learned weights of contemporary classification networks to the segmentation task by fine-tuning. The experiments results are compared with various methods e.g. k-NN. A new labelling strategy is proposed to solve the semantic segmentation problem with unclear boundaries. Even with a small-sized training dataset, the test results demonstrate that our model outperforms other pathological feature detection methods. Besides, its forward inference only takes 90 milliseconds for a single set of fMRI data. To our knowledge, this is the first time to realize pixel-wise labeling of multi-channel magnetic resonance image using FCN.