| 2017 | AI | Somatic Copy Number Alteration-Based Prediction of Molecular Subtypes of Breast Cancer Using Deep Learning Model. | Md. Mohaiminul Islam, Rasif Ajwad, Chen Chi, Michael Domaratzki, Yang Wang, Pingzhao Hu |
| 2011 | DLT | Abelian Primitive Words. | Michael Domaratzki, Narad Rampersad |
| 2011 | LATA | Finite Orbits of Language Operations. | Emilie Charlier, Michael Domaratzki, Tero Harju, Jeffrey O. Shallit |
| 2008 | LATA | Formal Language Tools for Template-Guided DNA Recombination. | Michael Domaratzki |
| 2007 | DNA | Equivalence in Template-Guided Recombination. | Michael Domaratzki |
| 2006 | DLT | Characterizing DNA Bond Shapes Using Trajectories. | Michael Domaratzki |
| 2006 | DNA | Hairpin Structures Defined by DNA Trajectories. | Michael Domaratzki |
| 2006 | MFCS | Lower Bounds for the Transition Complexity of NFAs. | Michael Domaratzki, Kai Salomaa |
| 2004 | DLT | On Codes Defined by Bio-Operations. | Mark Daley, Michael Domaratzki |
| 2004 | DLT | Semantic Shuffle on and Deletion Along Trajectories. | Michael Domaratzki |
| 2004 | MFCS | Decidability of Trajectory-Based Equations. | Michael Domaratzki, Kai Salomaa |
| 2003 | DLT | On Enumeration of Mller Automata. | Michael Domaratzki |
| 2002 | DLT | Improved Bounds on the Number of Automata Accepting Finite Languages. | Michael Domaratzki |
| 2001 | DLT | Minimal Covers of Formal Languages. | Michael Domaratzki, Jeffrey O. Shallit, Sheng Yu |