Cotranscriptional Kinetic Folding of RNA Secondary Structures Including Pseudoknots. - Vo Hong Thanh; Dani Korpela; Pekka Orponen (J. Comput. Biol., 2021)

EPIC-TRACE: predicting TCR binding to unseen epitopes using attention and contextualized embeddings. - Dani Korpela; Emmi Jokinen; Alexandru Dumitrescu; Jani Huuhtanen; Satu Mustjoki; Harri Lähdesmäki (Bioinform., 2023)

Field-based Molecule Generation. - Alexandru Dumitrescu; Dani Korpela; Markus Heinonen; Yogesh Verma; Valerii Iakovlev; Vikas Garg 001; Harri Lähdesmäki (CoRR, 2024)

E(3)-equivariant models cannot learn chirality: Field-based molecular generation. - Alexandru Dumitrescu; Dani Korpela; Markus Heinonen; Yogesh Verma; Valerii Iakovlev; Vikas Garg 001; Harri Lähdesmäki (ICLR, 2025)