In the nineties, the adoption of the DICOM standard format in radiology departments brought numerous advantages to clinical practice. The setup of PACS with standard communication processes and data formats allowed the creation of central repositories, fast retrieval of images, visualization of images acquired with several modalities, and simultaneous access at distributed places. Nowadays, microscopy imagining faces the same normalization challenge with the proliferation of equipment that stores data in a proprietary format and provides dedicated visualization software. This reality severely limits the implementation of vendor-neutral archives with common visualization processes, conditioning the research work and its integration in clinical environments. This paper proposed a pipeline for the integration of multiple microscopy imaging modalities into the PACS-DICOM universe, including the numerous metadata elements. A proof-of-concept system was developed, for validation purposes, and integrated with the Dicoogle open-source PACS, providing image storage, metadata indexing and visualization.