The free surface flow in a circular cylinder driven by a rotating bottom disk is studied experimentally using particle image velocimetry. Results are compared with computational results assuming a stress-free surface. A dye visualization study by Spohn et al. ͓"Observations of vortex breakdown in an open cylindrical container with a rotating bottom," Exp. Fluids 14, 70 ͑1993͔͒, as well as several numerical computations, has found a range of different vortex breakdown structures in this flow. We confirm the existence of a transition where the top of the breakdown bubble crosses from the axis to the surface, which has previously only been found numerically. We employ a technique by Brøns et al. ͓"Topology of vortex breakdown bubbles in a cylinder with rotating bottom and free surface," J. Fluid Mech. 428, 133 ͑2001͔͒ to find the corresponding bifurcation curve in the parameter plane, which has hitherto only been used on numerical data. The bifurcation curve located here agrees well with previous numerical simulations. For low values of the Reynolds number we find a regime with vortex breakdown that has not been previously identified. Experiments deviate substantially from computations, indicating the importance of surface effects in this regime.The flow in a circular cylinder driven by a rotating bottom disk has proven to be a most useful setup to study secondary structures on a main vortex. Both experimental and computational studies have shown that one or more vortex breakdown zones or bubbles may occur in this flow. We refer the reader to previous reviews for a summary of the central features of vortex breakdown. 1,2 In this letter we report experimental and computational results for the flow in a cylinder with a free surface. The first comprehensive experimental study of the closed cylindrical container case was undertaken by Escudier 3 to obtain a map of vortex breakdown transitions with respect to aspect ratio and Reynolds number. Numerous computational studies 4-7 have reproduced the transitions very accurately. The first experimental study of the open cylindrical container case with a free surface on the top was undertaken by Spohn et al. 8 Several computational studies of the flow assuming a stress-free, clean, and flat free surface are available. 5,[9][10][11][12] Comparing numerical and experimental results 11 shows discrepancies not present in the closed cylinder case. Several flow topologies which are predicted numerically are not found experimentally, and the quantitative agreement between the numerical and computational results is generally poorer. It appears that physical effects such as surface deformation and surface contamination not included in this simple model influences the flow structure. Progress in the modeling of the flow has recently been obtained by Bouffanais and Lo Jacono 13,14 who presented the results of a full numerical simulation in which the laminar, unsteady, and transitional flow regimes have been modeled without resorting to any symmetry property. Still, many challenges remain...