2023
Synplex: In Silico Modeling of the Tumor Microenvironment From Multiplex Images.
IEEE Trans. Medical Imaging, October, 2023
Weakly supervised deep learning to predict recurrence in low-grade endometrial cancer from multiplexed immunofluorescence images.
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npj Digit. Medicine, 2023
2022
Datasets used in "3-D quantification of filopodia in motile cancer cells" IEEE Transactions on Medical Imaging 38(3), 862-872 (2019).
Dataset, May, 2022
NaroNet: Discovery of tumor microenvironment elements from highly multiplexed images.
Medical Image Anal., 2022
Biomedical image analysis competitions: The state of current participation practice.
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et al.
CoRR, 2022
Corrigendum to: NMF-RI: blind spectral unmixing of highly mixed multispectral flow and image cytometry data.
Bioinform., 2022
2021
Synplex: a synthetic simulator of highly multiplexed histological images.
Proceedings of the IEEE EMBS International Conference on Biomedical and Health Informatics, 2021
2020
Raw data used in the manuscript "The use of mixed collagen-Matrigel matrices of increasing complexity recapitulates the biphasic role of cell adhesion in cancer cell migration: ECM sensing, remodeling and forces at the leading edge of cancer invasion".
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Dataset, February, 2020
NMF-RI: blind spectral unmixing of highly mixed multispectral flow and image cytometry data.
Bioinform., 2020
Unsupervised Learning of Contextual Information in Multiplex Immunofluorescence Tissue Cytometry.
Proceedings of the 17th IEEE International Symposium on Biomedical Imaging, 2020
2019
3-D Quantification of Filopodia in Motile Cancer Cells.
IEEE Trans. Medical Imaging, 2019
Dynamic Atlas-Based Segmentation and Quantification of Neuromelanin-Rich Brainstem Structures in Parkinson Disease.
IEEE Trans. Medical Imaging, 2019
2018
Segmentation of actin-stained 3D fluorescent cells with filopodial protrusions using convolutional neural networks.
Proceedings of the 15th IEEE International Symposium on Biomedical Imaging, 2018
2015
Toward a Morphodynamic Model of the Cell: Signal processing for cell modeling.
IEEE Signal Process. Mag., 2015
Quantification of pulmonary vessel diameter in low-dose CT images.
Proceedings of the Medical Imaging 2015: Computer-Aided Diagnosis, 2015
Atlas-based segmentation of brainstem regions in neuromelanin-sensitive magnetic resonance images.
Proceedings of the Medical Imaging 2015: Computer-Aided Diagnosis, 2015
Quantification of the 3D collagen network geometry in confocal reflection microscopy.
Proceedings of the 2015 IEEE International Conference on Image Processing, 2015
Characterization of the role of collagen network structure and composition in cancer cell migration.
Proceedings of the 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2015
2014
A Novel Automated Microscopy Platform for Multiresolution Multispectral Early Detection of Lung Cancer Cells in Bronchoalveolar Lavage Samples.
IEEE Syst. J., 2014
A benchmark for comparison of cell tracking algorithms.
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Bioinform., 2014
2013
Segmentation and Shape Tracking of Whole Fluorescent Cells Based on the Chan-Vese Model.
IEEE Trans. Medical Imaging, 2013
Individual nodule tracking in micro-CT images of a longitudinal lung cancer mouse model.
Medical Image Anal., 2013
Modeling airway probability.
Proceedings of the 10th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2013
Automatic quantification of filopodia-based cell migration.
Proceedings of the 10th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2013
Registration of multiple stained histological sections.
Proceedings of the 10th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2013
2012
Quantification of Lung Damage in an Elastase-Induced Mouse Model of Emphysema.
Int. J. Biomed. Imaging, 2012
Detecting airway remodeling in COPD and emphysema using low-dose CT imaging.
Proceedings of the Medical Imaging 2012: Computer-Aided Diagnosis, San Diego, 2012
Individual nodule tracking in micro-CT images of a mouse model of lung cancer.
Proceedings of the 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2012
Fast tracking of fluorescent cells based on the Chan-Vese model.
Proceedings of the 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2012
Characterization of emphysema in low dose computed tomography images using maximum likelihood estimation of the scale exponent.
Proceedings of the 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2012
2010
Spatially Variant Convolution With Scaled B-Splines.
IEEE Trans. Image Process., 2010
Automatic leakage detection and recovery for airway tree extraction in chest CT images.
Proceedings of the 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2010
2009
Combination Strategies in Multi-Atlas Image Segmentation: Application to Brain MR Data.
IEEE Trans. Medical Imaging, 2009
A Two-Phase Segmentation of Cell Nuclei Using Fast Level Set-Like Algorithms.
Proceedings of the Image Analysis, 16th Scandinavian Conference, 2009
Segmentation of Touching Cell Nuclei Using a Two-Stage Graph Cut Model.
Proceedings of the Image Analysis, 16th Scandinavian Conference, 2009
2008
Efficient classifier generation and weighted voting for atlas-based segmentation: two small steps faster and closer to the combination oracle.
Proceedings of the Medical Imaging 2008: Image Processing, 2008
Automation of the detection of lung cancer cells in minimal samples of bronchioalveolar lavage.
Proceedings of the 2008 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2008
2007
Restoration of Micro-Ct Images Using Locally Adaptive B-Spline Smoothing.
Proceedings of the 2007 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2007
Restoration of Biomedical Images using Locally Adaptive B-Spline Smoothing.
Proceedings of the International Conference on Image Processing, 2007
2006
High-throughput analysis of multispectral images of breast cancer tissue.
IEEE Trans. Image Process., 2006
Consistent and Elastic Registration of Histological Sections Using Vector-Spline Regularization.
Proceedings of the Computer Vision Approaches to Medical Image Analysis, 2006
2005
A Tool for the Quantitative Spatial Analysis of Complex Cellular Systems.
IEEE Trans. Image Process., 2005
2000
A geometric model for 3-D confocal image analysis.
IEEE Trans. Biomed. Eng., 2000
1998
A unified geometric model for 3D confocal image analysis in cytology.
Proceedings of the XI Computer Graphics, 1998