Assessing the relationship between conservation of function and conservation of sequence using photosynthetic proteins. - Shaul Ashkenazi; Rotem Snir; Yanay Ofran (Bioinform., 2012)

Paratome: an online tool for systematic identification of antigen-binding regions in antibodies based on sequence or structure. - Vered Kunik; Shaul Ashkenazi; Yanay Ofran (Nucleic Acids Res., 2012)

PEASE: predicting B-cell epitopes utilizing antibody sequence. - Inbal Sela-Culang; Shaul Ashkenazi; Bjoern Peters; Yanay Ofran (Bioinform., 2015)

Goes to the Heart: Speaking the User's Native Language. - Shaul Ashkenazi; Gabriel Skantze; Jane Stuart-Smith; Mary Ellen Foster (HRI (Companion), 2024)

Into the Wild: When Robots Are Not Welcome. - Shaul Ashkenazi; Gabriel Skantze; Jane Stuart-Smith; Mary Ellen Foster (CoRR, 2025)