| 2026 | WABI | CoSTAR: Coarse Stem-Topology Alignment of Pseudoknotted RNA Structures by Relation-Constrained Search. | Finn Archinuk, Hosna Jabbari |
| 2026 | WABI | PRISM: Partition-Function Decomposition into Structural Classes for Hierarchically Constrained RNA Pseudoknot Ensembles. | Mateo Gray, Sebastian Will, Hosna Jabbari |
| 2025 | WABI | Spark: Sparsified Hierarchical Energy Minimization of RNA Pseudoknots. | Mateo Gray, Sebastian Will, Hosna Jabbari |
| 2023 | WABI | SparseRNAFolD: Sparse RNA Pseudoknot-Free Folding Including Dangles. | Mateo Gray, Sebastian Will, Hosna Jabbari |
| 2022 | QCE | A QUBO model of the RNA folding problem optimized by variational hybrid quantum annealing. | Tristan Zaborniak, Juan Giraldo, Hausi A. Mller, Hosna Jabbari, Ulrike Stege |
| 2017 | WABI | Sparsification Enables Predicting Kissing Hairpin Pseudoknot Structures of Long RNAs in Practice. | Hosna Jabbari, Ian Wark, Carlo Montemagno, Sebastian Will |
| 2015 | WABI | Sparse RNA Folding Revisited: Space-Efficient Minimum Free Energy Prediction. | Sebastian Will, Hosna Jabbari |
| 2007 | DSD | A New Class of Cellular Automata. | Hosna Jabbari, Jon C. Muzio, Lin Sun |
| 2007 | WABI | HFold: RNA Pseudoknotted Secondary Structure Prediction Using Hierarchical Folding. | Hosna Jabbari, Anne Condon, Ana Pop, Cristina Pop, Yinglei Zhao |