Sm/Lsm Genes Provide a Glimpse into the Early Evolution of the Spliceosome. - Stella Veretnik; Christopher Wills; Philippe Youkharibache; Ruben E. Valas; Philip E. Bourne (PLoS Comput. Biol., 2009)

iCn3D, a web-based 3D viewer for sharing 1D/2D/3D representations of biomolecular structures. - Jiyao Wang; Philippe Youkharibache; Dachuan Zhang; Christopher J. Lanczycki; Renata C. Geer; Thomas Madej; Lon Phan; Minghong Ward; Shennan Lu; Gabriele H. Marchler; Yanli Wang; Stephen H. Bryant; et al. (Bioinform., 2020)

3DVizSNP: a tool for rapidly visualizing missense mutations identified in high throughput experiments in iCn3D. - Michael L. Sierk; Shashikala Ratnayake; Manoj M. Wagle; Ben Chen; Brian Park; Jiyao Wang; Philippe Youkharibache; Daoud M. Meerzaman (BMC Bioinform., 2023)

IgStrand: A universal residue numbering scheme for the immunoglobulin-fold (Ig-fold) to study Ig-proteomes and Ig-interactomes. - Caesar Tawfeeq; Jiyao Wang; Umesh Khaniya; Thomas Madej; James Song; Ravinder Abrol; Philippe Youkharibache (PLoS Comput. Biol., 2025)