We show that single walled carbon nanotubes with different isotope compositions exhibit distinct Raman Gband peaks and can be used for multiplexed multi-color Raman imaging of biological systems. Cancer cells with specific receptors are selectively labeled with 3 differently colored SWNTs conjugated with various targeting ligands including Herceptin, anti-Her2, Erbitux, anti-Her1, and RGD peptide, allowing for multi-color Raman imaging of cells in a multiplexed manner. SWNT Raman signals are highly robust against photo-bleaching, allowing long term imaging and tracking. With narrow peak features, SWNT Raman signals are easily differentiated from the auto-fluorescence background. The SWNT Raman excitation and scattering photons are in the near-infrared region, which is the most transparent optical window for biological systems in vitro and in vivo. Thus, SWNTs are novel Raman tags promising for multiplexed biological detection and imaging.