It captures more of the spatial (metric topological) arrangement in the set. Example they give in the paper is the MINST dataset where distinctly looking digits

It captures more of the spatial (metric topological) arrangement in the set. Example they give in the paper is the MINST dataset where distinctly looking digits like 1 and 0 get separated farther apart and similar ones clump together, whereas t-SNE while correctly delimiting individual clusters clumps them all in a blob.