1. Novel computational model of gastrula morphogenesis to identify spatial discriminator genes by self-organizing map (SOM) clustering.

2. Comparative analysis of tissue reconstruction algorithms for 3D histology.

3. Liver zonation.

4. ChromoTrace: Computational reconstruction of 3D chromosome configurations for super-resolution microscopy.

5. A 3D gene expression atlas of the floral meristem based on spatial reconstruction of single nucleus RNA sequencing data.