Cell-scaffold contact measurements are derived from pairs of co-registered volumetric fluorescent confocal laser scanning microscopy (CLSM) images (z-stacks) of stained cells and spun coat, large microfiber, and medium microfiber scaffolds. Our analysis of the acquired terabyte-sized collection is motivated by the need to understand dimensionality of cell-scaffold interactions relevant to tissue engineers that grow cells on biomaterial scaffolds.The raw and processed data are publicly available from https://isg.nist.gov/deepzoomweb/data together with the web-based verification system.