The adsorption of organic molecules on solid surfaces is one of the fundamental processes for the development of molecular-based nanodevices. Here we focus on the adsorption and ordering of the TPPS4-based J-aggregates on silicon and gold as well as on self-assembled monolayer (SAM) surfaces. The SAMs used for the experiments were based on the chemisorption of thiol containing compounds onto gold. Long ω-substituted alkanethiols are spontaneously assembled on gold to form highly ordered and densely packed layers with controllable chemical and physical properties. TPPS4 J-aggregates were dispersed on SAM surfaces, and on plain gold and silicon substrates for comparison. The dimensions of aggregates, measured by means of atomic force microscopy, varied depending on the type of substrate. Long stripe-like aggregates were flattened on the substrate surface, and the height and width of aggregates highly correlated with the polarity of surface groups. For example, the J-aggregates were narrower on hydrophobic substrates (with non-polar groups) and wider on hydrophilic substrates (with polar groups). These observations support the hypothesis, that TPPS4 forms .soft. cylindrical aggregates, that appear flattened on the substrate.