Sure! I mainly use Paint Tool SAI for most of my drawing/coloring and Photoshop for editing and other effects.
I typically use the bucket tool to fill in the base colors of the picture and the pen tool to fill in the tiny areas that the bucket tool couldn't reach. I make different layers for each color, and then I clump them all into a group folder. Then above the group folder, I add another layer, set it to multiply, make it a layer clip, and then add the shadows over all the colors at once without having to worrying about shading outside of the lines. It's sort of a lazy way to shade, but I do it to save time for myself.
For shadows, I just use the pen tool. For cell shading overall, I try not to make it overly complex, but I usually look at screenshots of animated shows for references (and other artists). Then after all of that is done, I use Photoshop to edit the color balance of the picture and/or add gradient color effects (depending on the context of the picture).
Don't know if that answers your question, but thanks for asking!