| 2020 | ICPR | Graph-based image decoding for multiplexed in situ RNA detection. | Gabriele Partel, Carolina Whlby |
| 2018 | MICCAI | Whole Slide Image Registration for the Study of Tumor Heterogeneity. | Leslie Solorzano, Gabriela M. Almeida, Brbara Mesquita, Diana Martins, Carla Oliveira, Carolina Whlby |
| 2016 | ECCV | Feature Augmented Deep Neural Networks for Segmentation of Cells. | Sajith Kecheril Sadanandan, Petter Ranefall, Carolina Whlby |
| 2014 | ICPR | An Evaluation of the Faster STORM Method for Super-resolution Microscopy. | Omer Ishaq, Johan Elf, Carolina Whlby |
| 2010 | MICCAI | Morphology-Guided Graph Search for Untangling Objects: | Tammy Riklin Raviv, Vebjorn Ljosa, Annie L. Conery, Frederick M. Ausubel, Anne E. Carpenter, Polina Golland, Carolina Whlby |
| 2006 | ICASSP | Time-Lapse Microscopy and Classification of in Vitro Cell Migration Using Hidden Markov Modeling. | Karin Althoff, Johan Degerman, Carolina Whlby, Thorleif Thorlin, Jonas Faijerson, Peter S. Eriksson, Tomas Gustavsson |
| 2005 | ICIAP | Easy-to-Use Object Selection by Color Space Projections and Watershed Segmentation. | Per Holting, Carolina Whlby |
| 2005 | ICIAP | Seeded Watersheds for Combined Segmentation and Tracking of Cells. | Amalka Pinidiyaarachchi, Carolina Whlby |