Natasa Sladoje
Professor at Department of Information Technology; Vi3; Image Analysis
- Telephone:
- +46 18 471 49 12
- E-mail:
- natasa.sladoje@it.uu.se
- Visiting address:
- Hus 10, Lägerhyddsvägen 1
- Postal address:
- Box 337
751 05 UPPSALA
- Academic merits:
- Docent
- ORCID:
- 0000-0002-6041-6310
More information is available to staff who log in.
Short presentation
I am Professor in Computerized Image Analysis at the Dept. of Information Technology, Uppsala University. I am interested in development of image analysis methods, applications of machine and deep learning in image analysis, and applications of our developed tools in all fields of science and everyday life where image data is relevant and its automated analysis is required. For more details, see my publication list, and MIDA-group which I am leading.
Keywords
- algorithm development
- artificial intelligence
- biomedical image analysis
- deep learning
- discrete geometry
- image analysis
- image processing
- image registration
- information and communication technology (ict)
- medical image analysis
- pattern recognition
Research
Publications
Recent publications
- Cross-modality sub-image retrieval using contrastive multimodal image representations (2024)
- Are We Friends (2024)
- Deep multiple instance learning versus conventional deep single instance learning for interpretable oral cancer detection (2024)
- Investigating the Relevance of Contextual Information Towards Improving Deep CNN Based Oral Cancer Screening on Whole Slide Cytology Samples (2023)
- Automated detection, segmentation and measurement of major vessels and the trachea in CT pulmonary angiography (2023)
All publications
Articles
- Cross-modality sub-image retrieval using contrastive multimodal image representations (2024)
- Deep multiple instance learning versus conventional deep single instance learning for interpretable oral cancer detection (2024)
- Automated detection, segmentation and measurement of major vessels and the trachea in CT pulmonary angiography (2023)
- INSPIRE (2023)
- Is image-to-image translation the panacea for multimodal image registration? (2022)
- Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment (2022)
- Is Image-to-Image Translation the Panacea for Multimodal Image Registration? A Comparative Study (2021)
- Cross-Sim-NGF: FFT-Based Global Rigid Multimodal Alignment of Image Volumes using Normalized Gradient Fields (2021)
- Generalised deep learning framework for HEp-2 cell recognition using local binary pattern maps (2020)
- HISTOBREAST (2020)
- BIAFLOWS (2020)
- Stochastic Distance Transform (2020)
- Sparsity promoting super-resolution coverage segmentation by linear unmixing in presence of blur and noise (2019)
- A Deep Learning based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images (2019)
- Facilitating Ultrastructural Pathology through Automated Imaging and Analysis (2019)
- Fast and Robust Symmetric Image Registration Based on Distances Combining Intensity and Spatial Information (2019)
- An Objective Scoring Framework for Histology Slide Image Mosaics Applicable for the Reliable Benchmarking of Image Quality Assessment Algorithms (2018)
- Fast and Robust Symmetric Image Registration Based on Intensity and Spatial Information (2018)
- Restoration of images degraded by signal-dependent noise based on energy minimization (2016)
- Estimation of Feret's diameter from pixel coverage representation of a shape (2016)
- Precise Euclidean distance transforms in 3D from voxel coverage representation (2015)
- Estimation of linear deformations of 2D and 3D fuzzy objects (2015)
- A new set distance and its application to shape registration (2014)
- Linear time distances between fuzzy sets with applications to pattern matching and classification (2014)
- Coverage segmentation based on linear unmixing and minimization of perimeter and boundary thickness (2012)
- Regularized image denoising based on spectral gradient optimization (2011)
- A Graph-based Framework for Sub-pixel Image Segmentation (2011)
- Defuzzification of spatial fuzzy sets by feature distance minimization (2011)
- High-precision boundary length estimation by utilizing gray-level information (2009)
- Representation and Reconstruction of Fuzzy Disks by Moments (2007)
- Shape signaturs of fuzzy star-shaped sets based on distance from the centroid (2005)
- Measurements of digitized objects with fuzzy borders in 2D and 3D (2005)
- Efficiency of Characterizing Ellipses and Ellipsoids by Discrete Moments (2000)
- UpStory
- Sensitive key instance detection: Helping a cytotechnologist to find a needle in a haystack
- BIAFLOWS: A collaborative framework to benchmark bioimage analysis workflows
- Can representation learning for multimodal image registration be improved by supervision of intermediate layers?
Books
- Bioimage Data Analysis Workflows ‒ Advanced Components and Methods (2022)
- Discrete Geometry and Mathematical Morphology (2021)
- Combinatorial Image Analysis - (2020)
- Bioimage Data Analysis Workflows (2019)
Chapters
- Introduction—computer-assisted analysis of multimodal image data (2021)
- Computer-assisted analysis of multimodal image data—perspectives and conclusion (2021)
- The coverage model and its use in image processing (2012)
Conferences
- Are We Friends (2024)
- Investigating the Relevance of Contextual Information Towards Improving Deep CNN Based Oral Cancer Screening on Whole Slide Cytology Samples (2023)
- Multimodal deformable image registration using contrastive learning of equivariant image representations (2023)
- Contrastive Learning of Equivariant Image Representations for Multimodal Deformable Registration (2023)
- Partial dimensional collapse in contrastive learning when using intermediate layers (2023)
- Can Representation Learning for Multimodal Image Registration be Improved by Supervision of Intermediate Layers? (2023)
- End-to-end Multiple Instance Learning with Gradient Accumulation (2022)
- Label-Free Reverse Image Search of Multimodal Microscopy Images (2022)
- DCNN based Oral Cancer Screening using Whole Slide Cytology Images (2022)
- End-to-End Learning and Analysis of Infant Engagement During Guided Play (2022)
- Re-Ranking Strategies in Cross-Modality Microscopy Retrieval (2022)
- Rotationally Equivariant Representation Learning for Multimodal Images (2022)
- Efficient Algorithms for Global Multimodal Image Registration (2022)
- Cross-Sim-NGF: FFT-Based Global Rigid Multimodal Alignment of Image Volumes using Normalized Gradient Fields (2022)
- Automatic Analysis of Infant Engagement during Play (2021)
- The Effect of Within-Bag Sampling on End-to-End Multiple Instance Learning (2021)
- Image-to-Image Translation in Multimodal Image Registration: How Well Does It Work? (2021)
- Contrastive Learning for Equivariant Multimodal Image Representations (2021)
- Registration of Multimodal Microscopy Images using CoMIR – learned structural image representations (2021)
- Comir: Contrastive multimodal image representation for registration (2021)
- Fast Computation of Mutual Information with Application to Global Multimodal Image Alignment of Micrographs (2021)
- Uncovering hidden reasoning of convolutional neural networks in biomedical image classification by using attribution methods (2020)
- A Deep Learning Based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images (2020)
- CoMIR: Contrastive Multimodal Image Representation for Registration (2020)
- When texture matters (2020)
- Cross-modal Representation Learning for Efficient Registration of Multiphoton and Brightfield Microscopy Images of Skin Tissue (2020)
- Texture-based oral cancer detection: A performance analysis of deep learning approaches. (2019)
- Oral Cancer Detection: (2019)
- Visualization of convolutional neural network class activations in automated oral cancer detection for interpretation of malignancy associated changes (2019)
- On the Effectiveness of Generative Adversarial Networks as HEp-2 Image Augmentation Tool (2019)
- Towards automated multiscale Glomeruli detection and analysis in TEM by fusion of CNN and LBP maps (2019)
- Towards automated multiscale imaging and analysis in TEM (2019)
- Robust Symmetric Affine Image Registration (2019)
- Stochastic Distance Functions with Applications in Object Detection and Image Segmentation (2019)
- Stochastic Distance Transform (2019)
- Denoising of short exposure transmission electron microscopy images for ultrastructural enhancement (2018)
- Denoising of Short Exposure Transmission Electron Microscopy Images using CNN (2018)
- Towards automated multiscale imaging and analysis in TEM: Glomeruli detection by fusion of CNN and LBP maps (2018)
- Distance Between Vector-valued Images based on Intersection Decomposition with Applications in Object Detection (2018)
- False positive reduction of cilia detected in low resolution TEM images using a convolutional neural network (2017)
- Convolutional neural networks for false positive reduction of automatically detected cilia in low magnification TEM images (2017)
- Distance Between Vector-Valued Representations of Objects in Images with Application in Object Detection and Classification (2017)
- Cilia ultrastructural visibility enhancement by multiple instance registration and super-resolution reconstruction (2017)
- Enhancement of cilia sub-structures by multiple instance registration and super-resolution reconstruction (2017)
- Distance between vector-valued fuzzy sets based on intersection decomposition with applications in object detection (2017)
- Single image super-resolution reconstruction in presence of mixed Poisson-Gaussian noise (2016)
- Blind restoration of images degraded with mixed poisson-Gaussian noise with application in transmission electron microscopy (2016)
- Blind deconvolution of images degraded with mixed Poisson-Gaussian noise with application in Transmission Electron Microscopy (2016)
- Signature of a Shape Based on Its Pixel Coverage Representation (2016)
- Automated detection of cilia in low magnification transmission electron microscopy images using template matching (2016)
- αLBP – a novel member of the Local Binary Pattern family based on α-cutting (2015)
- Coverage segmentation of 3D thin structures (2015)
- Microscopy image enhancement for cost-effective cervical cancer screening (2015)
- Exact linear time Euclidean distance transforms of grid line sampled shapes (2015)
- High-resolution reconstruction by feature distance minimization from multiple views of an object (2015)
- An evaluation of potential functions for regularized image deblurring (2014)
- Optimizing optics and imaging for pattern recognition based screening tasks (2014)
- Coverage segmentation of thin structures by linear unmixing and local centre of gravity attraction (2013)
- Distance measures between digital fuzzy objects and their applicability in image processing (2011)
- Precise Estimation of the Projection of a Shape from a Pixel Coverage Representation (2011)
- The Sum of minimal distances as a useful distance measure for image registration (2010)
- De-noising of SRµCT Fiber Images by Total Variation Minimization (2010)
- Estimation of linear deformations of 3D objects (2010)
- On set distances and their application to image registration (2009)
- Improved Quantification of Bone Remodelling by Utilizing Fuzzy Based Segmentation (2009)
- Pixel Coverage Segmentation for Improved Feature Estimation (2009)
- Recovering Affine Deformations of Fuzzy Shapes (2009)
- Deterministic Defuzzification based on Spectral Projected Gradient Optimization (2008)
- Defuzzification by Feature Distance Minimization Based on DC Programming (2007)
- Feature Based Defuzzification at Increased Spatial Resolution (2006)
- Feature Based Defuzzification in Z² and Z³ Using a Scale Space Approach (2006)
- Estimation of moments of digitized objects with fuzzy borders (2005)
- Defuzzification of discrete objects by optimizing area and perimeter similarity (2004)
- Perimeter and Area Estimations of Digitized Objects with Fuzzy Borders (2003)
- Measuring perimeter and area in low resolution images using a fuzzy approach (2003)
- Shape Description of Fuzzy Segmented Objects: Area and Perimeter Estimators (2003)
- The Reconstruction of the Digital Hyperbola Segment from Its Code (2000)
- Ellipses estimation from their digitization (1997)
- A characterization of digital disks by discrete moments (1997)
Reports
- Perimeter estimation based on grey level object representation (2008)
- Review of scientific papers on fuzzy shape analysis (2005)
- A Brief Review on Benno Artman's "Euclid - The Creation of Mathematics" (2005)
- Reviews on Scientific Papers on Application of Fuzzy Set Theory in Image Segmentation (2002)
- A report on 10th Summer School on Image Processing (2002)
Other
