AQUA: an Advanced QUery Architecture for the SPARC Portal. - Niloofar Shahidi; Xuanzhi Lin; Yuda Munarko; Laila Rasmy; Tram Ngo (F1000Research, 2021)

Inter-brain Synchrony and Eye Gaze Direction During Collaboration in VR. - Ihshan Gumilar; Amit Barde; Prasanth Sasikumar; Mark Billinghurst; Ashkan F. Hayati; Gun A. Lee; Yuda Munarko; Sanjit Singh; Abdul Momin (CHI Extended Abstracts, 2022)

Building a search tool for compositely annotated entities using Transformer-based approach: Case study in Biosimulation Model Search Engine (BMSE). - Yuda Munarko; Anand K. Rampadarath; David P. Nickerson (F1000Research, 2023)

CASBERT: BERT-based retrieval for compositely annotated biosimulation model entities. - Yuda Munarko; Anand K. Rampadarath; David P. Nickerson (Frontiers Bioinform., 2023)