The emotional and cognitive symptoms of bipolar disorder (BD) are suggested to involve in a distributed neural network. The resting-state functional magnetic resonance imaging (fMRI) offers an important tool to investigate the alterations in brain network level of BD. The aim of this study was to discriminate BD patients from healthy controls using whole-brain resting-state functional connectivity patterns. The majority of most discriminating functional connectivities were between the basal ganglia and three core neurocognitive networks, including the default mode, executive control and salience networks. Using these resting-state functional connectivities between the basal ganglia and three core neurocognitive networks as the features, the clustering accuracy achieved 90%.