we are working with the Cell Painting workflow described in Nature Protocols 2016  and are having an issue with the Wheat-germ agglutinin/Alexa Fluor 555 conjugate dye. We prepare stock solutions in water, but despite centrifugation as recommended in the paper we see small particles of agglomerates in the images for that respective channel.
We tried filtration, but too much of the dye seemed to be adsorbed to the filter membrane and the staining was weak.
Does anyone have similar experience and maybe some recommendation on how to better handle this dye?
Many thanks in advance.
1.Bray, M.-A. et al. Cell Painting, a high-content image-based assay for morphological profiling using multiplexed fluorescent dyes. Nature Protocols 11, 1757–1774 (2016).