| 2025 | ACSSC | Deep infant brain segmentation from multi-contrast MRI. | Malte Hoffmann, Lilla Zllei, Adrian V. Dalca |
| 2020 | MICCAI | Unbiased Atlas Construction for Neonatal Cortical Surfaces via Unsupervised Learning. | Jieyu Cheng, Adrian V. Dalca, Lilla Zllei |
| 2016 | CVPR | Multimodal Whole Brain Registration: MRI and High Resolution Histology. | Maryana Alegro, Edson Amaro Jnior, Burlen Loring, Helmut Heinsen, Eduardo Alho, Lilla Zllei, Daniela Ushizima, Lea T. Grinberg |
| 2014 | MICCAI | A Locally Linear Method for Enforcing Temporal Smoothness in Serial Image Registration. | Ernst Schwartz, Andrs Jakab, Gregor Kasprian, Lilla Zllei, Georg Langs |
| 2012 | MICCAI | A Feature-Based Developmental Model of the Infant Brain in Structural MRI. | Matthew Toews, William M. Wells III, Lilla Zllei |
| 2011 | MICCAI | Evaluating Volumetric Brain Registration Performance Using Structural Connectivity Information. | Aleksandar Petrovic, Lilla Zllei |
| 2009 | ICIP | On the optimality of mutual information as an image registration objective function. | Lilla Zllei, William M. Wells III |
| 2008 | CVPR | Modeling of anatomical information in clustering of white matter fiber trajectories using Dirichlet distribution. | Mahnaz Maddah, Lilla Zllei, W. Eric L. Grimson, William M. Wells III |
| 2003 | MICCAI | Exploratory Identification of Cardiac Noise in fMRI Images. | Lilla Zllei, Lawrence P. Panych, W. Eric L. Grimson, William M. Wells III |
| 2001 | CVPR | 2D-3D Rigid Registration of X-Ray Fluoroscopy and CT Images Using Mutual Information and Sparsely Sampled Histogram Estimators. | Lilla Zllei, W. Eric L. Grimson, Alexander Norbash, William M. Wells III |