Resting-state functional magnetic resonance imaging (rs-fMRI) has been suggested to provide key understanding of large-scale network organization in human brain. Harnessing rs-fMRI, we have examined the relationship of seed-based connectivity (SBC) with amplitude of low-frequency fluctuations (ALFF) and fractional ALFF (fALFF). We recorded rs-fMRI from healthy volunteers and measured regional ALFF, fALFF and SBC. We demonstrate that ALFF and fALFF were weakly correlated to SBC and the correlation was specifically stronger for selected networks. Our results suggest that ALFF/fALFF and SBC may be driven by the same underlying factors and thus co-vary in a similar manner.