Ida-Maria Sintorn
Professor at Department of Information Technology; Vi3; Image Analysis
- Telephone:
- +46 18 471 34 61
- E-mail:
- ida.sintorn@it.uu.se
- Visiting address:
- Hus 10, Lägerhyddsvägen 1
- Postal address:
- Box 337
751 05 UPPSALA
- Academic merits:
- Docent
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Short presentation
This text is not available in English, therefore the Swedish version is shown.
Professor in Computerized image processing, at the Vi3: image analysis division, Department of Information Technology.
Keywords
- ai
- artifical intelligence
- deep learning
- electron microscopy
- image processing
- machine learning
- maskininlärning
Biography
This text is not available in English, therefore the Swedish version is shown.
Ida-Maria shares her time between a position as Professor in Computerized image processing at the Vi3 division, Dept. IT, Uppsala University and as CTO at Vironova AB, a biotechnology company offering services and instruments for image based nano-sized particle characterization. She obtained her PhD in computerized image analysis in 2005 from the Centre for Image Analysis, Swedish University of Agricultural Science. She has since then gained industrial as well as academic experience in a variety of image analysis applications working as image analyst at the Mathematical and Information Sciences department of the Commonwealth Scientific and Industrial Research Organization (CSIRO) in Sydney, Australia, as Head of R&D at Vironova AB, and as researcher at both Uppsala University and the Swedish University of Agricultural Sciences.
Research
This text is not available in English, therefore the Swedish version is shown.
My main area of research and expertise is image analysis focused towards applications in drug development, cellular, virus and nano-sized particle analysis in fluorescence and electron microscopy images.
My theoretical interests are automated microscopy (multi-scale feed back loops steering acqusition), deep learning, feature descriptors (image registration and stiching) and texture analysis (filter banks and local binary patterns)
Publications
Recent publications
- Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields (2024)
- Evaluating the utility of brightfield image data for mechanism of action prediction (2023)
- Assessment of the percentage of full recombinant adeno-associated virus particles in a gene therapy drug using CryoTEM (2022)
- Is brightfield all you need for MoA prediction? (2022)
- SimSearch (2022)
All publications
Articles
- Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields (2024)
- Evaluating the utility of brightfield image data for mechanism of action prediction (2023)
- Assessment of the percentage of full recombinant adeno-associated virus particles in a gene therapy drug using CryoTEM (2022)
- SimSearch (2022)
- Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit (2021)
- The link between gliomas infiltration and white matter architecture investigated with electron microscopy and diffusion tensor imaging (2021)
- TEM virus images (2021)
- TEM image restoration from fast image streams (2021)
- Detection of pulmonary micronodules in computed tomography images and false positive reduction using 3D convolutional neural networks (2020)
- Conventional analysis of movement on non-flat surfaces like the plasma membrane makes Brownian motion appear anomalous (2019)
- Deep Learning in Image Cytometry (2019)
- Reducing the U-Net size for practical scenarios (2019)
- Facilitating Ultrastructural Pathology through Automated Imaging and Analysis (2019)
- A fast Fourier based feature descriptor and a cascade nearest neighbour search with an efficient matching pipeline for mosaicing of microscopy images (2018)
- Image-Based Detection of Patient-Specific Drug-Induced Cell-Cycle Effects in Glioblastoma (2018)
- Mechanochemical Polarization of Contiguous Cell Walls Shapes Plant Pavement Cells (2017)
- A short feature vector for image matching (2017)
- ProViz (2017)
- Comparison of 2D radiography and a semi-automatic CT-based 3D method for measuring change in dorsal angulation over time in distal radius fractures (2016)
- On the influence of interpolation method on rotation invariance in texture recognition (2016)
- PopulationProfiler (2016)
- Case-specific potentiation of glioblastoma drugs by pterostilbene (2016)
- BoneSplit - A 3D Texture Painting Tool for Interactive Bone Separation in CT Images (2015)
- Asymmetric supercapacitors based on carbon nanofibre and polypyrrole/nanocellulose composite electrodes (2015)
- Improving the stochastic watershed (2013)
- Evaluation of noise robustness for local binary pattern descriptors in texture classification (2013)
- Movement on Uneven Surfaces Displays Characteristic Features of Hop Diffusion (2013)
- Segmentation of virus particle candidates in transmission electron microscopy images (2012)
- Gradient based intensity normalization (2010)
- Weighted distance transforms for volume images digitized in elongated voxel grids (2004)
- A refined circular template matching method for classification of human cytomegalovirus capsids in TEM images (2004)
- Combining intensity, edge, and shape information for 2D and 3D segmentation of cell nuclei in tissue sections (2004)
- Tripeptide Interference with Human Immunodeficiency Virus Type 1 Morphogenesis (2002)
- Classification of Viruses in Transmission Electron Microscopy Images using Equivariant Neural Networks
- Exploring Filter Banks Based on Orthogonal Moments for Texture Recognition
- A Note on: Invariant Features, Overfitting and Generalization Performance in Texture Recognition
- Comparing Rotation Invariance and Interpolation Methods in Texture Recognition Based on Local Binary Pattern Features
Conferences
- Is brightfield all you need for MoA prediction? (2022)
- Towards Better Guided Attention and Human Knowledge Insertion in Deep Convolutional Neural Networks (2022)
- Super-resolution Reconstruction of Transmission Electron Microscopy Images using Deep Learning (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)
- Denoising of short exposure transmission electron microscopy images for ultrastructural enhancement (2018)
- Denoising of Short Exposure Transmission Electron Microscopy Images using CNN (2018)
- Minimal annotation training for segmentation of microscopy images (2018)
- Towards automated multiscale imaging and analysis in TEM: Glomeruli detection by fusion of CNN and LBP maps (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)
- An efficient descriptor based on radial line integration for fast non invariant matching and registration of microscopy images (2017)
- Classification of cross-sections for vascular skeleton extraction using convolutional neural networks (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)
- Comparison of Flow Cytometry and Image-Based Screening for Cell Cycle Analysis (2016)
- Automated detection of cilia in low magnification transmission electron microscopy images using template matching (2016)
- A Simple and Efficient Feature Descriptor for Fast Matching (2015)
- High-resolution reconstruction by feature distance minimization from multiple views of an object (2015)
- Automated Image Acquisition and Particle Size Distribution in the MiniTEM Instrument (2015)
- Low Voltage Mini TEM (2014)
- Large-Scale Analysis of Cells and Tissue (2014)
- Virus recognition based on local texture (2014)
- MiniTEM - making ultra-structural pathology easier and accessible (2014)
- miniTEM - a desk-top TEM for fast and easy image acquisition and analysis (2014)
- Automated multi-scale image acquisition for efficient particle detection and analysis using the mini-TEM (2014)
- The mini-TEM: high quality imaging and analysis of biological specimen (2014)
- A Desk-Top Low voltage TEM for high quality imaging of biological specimen (2014)
- Precise 3D Angle Measurements in CT Wrist Images (2013)
- Towards automated Virus Detection and Identification using TEM (2013)
- Factors influencing high quality low voltage TEM imaging of biological routinely stained specimen (2013)
- A probabilistic template model for finding macromolecules in MET volume images (2013)
- Towards User-Guided Quantitative Evaluation of Wrist Fractures in CT Images (2012)
- Regional Zernike Moments for Texture Recognition (2012)
- Rigid registration for MET image exploration using CUDA (2012)
- Refinement of Segmented Virus Particel Candidates in TEM Images (2011)
- Virus texture analysis using local binary patterns and radial density profiles (2011)
- Registration Parameter Spaces for Molecular Electron Tomography Images (2011)
- Investigating measures for transfer function generation for visualization of MET biomedical data (2011)
- Towards Identification of Highly Pathogenic Viruses Based on Image Analysis and TEM (2010)
- Detecting Virus-like Particles Using Transmission Electron Microscopy (2009)
- Towards Automated TEM for Virus Diagnostics (2009)
- Local Intensity and PCA Based Detection of Virus Particle Candidates in Transmission Electron Microscopy Images (2009)
- Individual pore segmentation in 3D volumes of fibrous materials (2005)
- Shape based identification of proteins in volume images (2005)
- Medial grey-level based representation for proteins in volume images (2005)
- Using grey-level and shape information for decomposing proteins in 3D images (2004)
- Weighted distance transforms for images using elongated voxel grids (2002)
- Description, Segmentation and Classification of Human Cytomegalovirus Capsids (2002)