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Although the lithium-ion battery (LIB) has acquired commercial success as a sustainable power source, it still suffers from multiple challenges for the future applications. In order to further develop next-generation batteries, the dynamics of structure change, charge transfer, and ion diffusion occurring inside the battery need to be deeply understood by advanced characterization techniques. (Scanning) transmission electron microscopy-electron energy loss spectroscopy ((S)TEM-EELS) is an effective method for the nano-scale detection of structural and chemical information in materials. This review systematically introduces the advantages and fundamentals of (S)TEM-EELS and its unique applications in LIBs.