DTI Connectivity by Segmentation. - Marc Niethammer; Alexis Boucharin; Christopher Zach; Yundi Shi; Eric A. Maltbie; Mar Sanchez; Martin Styner (MIAR, 2010)

Efficient, graph-based white matter connectivity from orientation distribution functions via multi-directional graph propagation. - Alexis Boucharin; Ipek Oguz; Clement Vachet; Yundi Shi; Mar Sanchez; Martin Styner (Image Processing, 2011)

Simulated single molecule microscopy with SMeagol. - Martin Lindén; Vladimir Curic; Alexis Boucharin; David Fange; Johan Elf (Bioinform., 2016)

Segmentation and Track-Analysis in Time-Lapse Imaging of Bacteria. - Sajith Kecheril Sadanandan; Ozden Baltekin; Klas E. G. Magnusson; Alexis Boucharin; Petter Ranefall; Joakim Jaldén; Johan Elf; Carolina Wählby (IEEE J. Sel. Top. Signal Process., 2016)