Ida-Maria Sintorn
Professor vid Institutionen för informationsteknologi; Vi3; Bildanalys
- Telefon:
- 018-471 34 61
- E-post:
- ida.sintorn@it.uu.se
- Besöksadress:
- Hus 10, Regementsvägen 10
- Postadress:
- Box 337
751 05 UPPSALA
- Akademiska meriter:
- civ.ing., Docent
Kort presentation
Professor in Computerized image processing, at the Vi3: image analysis division, Department of Information Technology.
Nyckelord
- electron microscopy
- machine learning
- deep learning
- image processing
- maskininlärning
- artifical intelligence
- ai
Biografi
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.
Forskning
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)

Publikationer
Senaste publikationer
Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
Ingår i Pattern Recognition, 2024
- DOI för Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
- Ladda ner fulltext (pdf) av Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
Classification of rotation-invariant biomedical images using equivariant neural networks
Ingår i Scientific Reports, 2024
- DOI för Classification of rotation-invariant biomedical images using equivariant neural networks
- Ladda ner fulltext (pdf) av Classification of rotation-invariant biomedical images using equivariant neural networks
Evaluating the utility of brightfield image data for mechanism of action prediction
Ingår i PloS Computational Biology, 2023
- DOI för Evaluating the utility of brightfield image data for mechanism of action prediction
- Ladda ner fulltext (pdf) av Evaluating the utility of brightfield image data for mechanism of action prediction
Ingår i IEEE journal of biomedical and health informatics, s. 4079-4089, 2022
- DOI för SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images
- Ladda ner fulltext (pdf) av SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images
Towards Better Guided Attention and Human Knowledge Insertion in Deep Convolutional Neural Networks
2022
Alla publikationer
Artiklar i tidskrift
Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
Ingår i Pattern Recognition, 2024
- DOI för Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
- Ladda ner fulltext (pdf) av Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
Classification of rotation-invariant biomedical images using equivariant neural networks
Ingår i Scientific Reports, 2024
- DOI för Classification of rotation-invariant biomedical images using equivariant neural networks
- Ladda ner fulltext (pdf) av Classification of rotation-invariant biomedical images using equivariant neural networks
Evaluating the utility of brightfield image data for mechanism of action prediction
Ingår i PloS Computational Biology, 2023
- DOI för Evaluating the utility of brightfield image data for mechanism of action prediction
- Ladda ner fulltext (pdf) av Evaluating the utility of brightfield image data for mechanism of action prediction
Ingår i IEEE journal of biomedical and health informatics, s. 4079-4089, 2022
- DOI för SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images
- Ladda ner fulltext (pdf) av SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images
Ingår i PLOS ONE, 2022
- DOI för Assessment of the percentage of full recombinant adeno-associated virus particles in a gene therapy drug using CryoTEM
- Ladda ner fulltext (pdf) av Assessment of the percentage of full recombinant adeno-associated virus particles in a gene therapy drug using CryoTEM
TEM image restoration from fast image streams
Ingår i PLOS ONE, 2021
- DOI för TEM image restoration from fast image streams
- Ladda ner fulltext (pdf) av TEM image restoration from fast image streams
Ingår i NeuroImage, s. 102735, 2021
Ingår i GigaScience, s. 1-14, 2021
- DOI för Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit
- Ladda ner fulltext (pdf) av Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit
TEM virus images: Benchmark dataset and deep learning classification
Ingår i Computer Methods and Programs in Biomedicine, 2021
- DOI för TEM virus images: Benchmark dataset and deep learning classification
- Ladda ner fulltext (pdf) av TEM virus images: Benchmark dataset and deep learning classification
Ingår i International journal of imaging systems and technology (Print), s. 327-339, 2020
Ingår i Communications Biology, 2019
Facilitating Ultrastructural Pathology through Automated Imaging and Analysis
Ingår i Journal of Pathology Informatics, s. 38-39, 2019
Reducing the U-Net size for practical scenarios: Virus recognition in electron microscopy images
Ingår i Computer Methods and Programs in Biomedicine, s. 31-39, 2019
Image-Based Detection of Patient-Specific Drug-Induced Cell-Cycle Effects in Glioblastoma
Ingår i SLAS Discovery, s. 1030-1039, 2018
Ingår i Pattern Recognition and Image Analysis, s. 261-272, 2018
A short feature vector for image matching: The Log-Polar Magnitude feature descriptor
Ingår i PLOS ONE, 2017
ProViz: a tool for explorative 3-D visualization and template matching in electron tomograms
Ingår i COMPUTER METHODS IN BIOMECHANICS AND BIOMEDICAL ENGINEERING-IMAGING AND VISUALIZATION, s. 446-454, 2017
Mechanochemical Polarization of Contiguous Cell Walls Shapes Plant Pavement Cells
Ingår i Developmental Cell, s. 290-304, 2017
Case-specific potentiation of glioblastoma drugs by pterostilbene
Ingår i Oncotarget, s. 73200-73215, 2016
Ingår i Skeletal Radiology, s. 763-769, 2016
Ingår i PLOS ONE, 2016
On the influence of interpolation method on rotation invariance in texture recognition
Ingår i EURASIP Journal on Image and Video Processing, 2016
BoneSplit - A 3D Texture Painting Tool for Interactive Bone Separation in CT Images
Ingår i Journal of WSCG, s. 157-166, 2015
Ingår i RSC Advances, s. 16405-16413, 2015
Evaluation of noise robustness for local binary pattern descriptors in texture classification
Ingår i EURASIP Journal on Image and Video Processing, 2013
- DOI för Evaluation of noise robustness for local binary pattern descriptors in texture classification
- Ladda ner fulltext (pdf) av Evaluation of noise robustness for local binary pattern descriptors in texture classification
Movement on Uneven Surfaces Displays Characteristic Features of Hop Diffusion
Ingår i Biophysical Journal, 2013
Improving the stochastic watershed
Ingår i Pattern Recognition Letters, s. 993-1000, 2013
- DOI för Improving the stochastic watershed
- Ladda ner fulltext (pdf) av Improving the stochastic watershed
Segmentation of virus particle candidates in transmission electron microscopy images
Ingår i Journal of Microscopy, s. 140-147, 2012
Gradient based intensity normalization
Ingår i Journal of Microscopy, s. 249-258, 2010
Weighted distance transforms for volume images digitized in elongated voxel grids
Ingår i Pattern Recognition Letters, s. 571-580, 2004
Ingår i Journal of Microscopy, s. 67-76, 2004
Ingår i Computer Methods and Programs in Biomedicine, s. 95-102, 2004
Tripeptide Interference with Human Immunodeficiency Virus Type 1 Morphogenesis
Ingår i Antimicrobial Agents and Chemotherapy, s. 3597-3605, 2002
Artiklar, forskningsöversikt
Deep Learning in Image Cytometry: A Review
Ingår i Cytometry Part A, s. 366-380, 2019
- DOI för Deep Learning in Image Cytometry: A Review
- Ladda ner fulltext (pdf) av Deep Learning in Image Cytometry: A Review
Dataset
Konferensbidrag
Towards Better Guided Attention and Human Knowledge Insertion in Deep Convolutional Neural Networks
2022
Is brightfield all you need for MoA prediction?
2022
Towards automated multiscale Glomeruli detection and analysis in TEM by fusion of CNN and LBP maps
Ingår i 3rd NEUBIAS Conference, 2019
Ingår i Computer Vision, s. 465-475, 2019
Super-resolution Reconstruction of Transmission Electron Microscopy Images using Deep Learning
Ingår i 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019), s. 548-551, 2019
Denoising of Short Exposure Transmission Electron Microscopy Images using CNN
Ingår i Swedish Symposium on Image Analysis, 2018
Ingår i Swedish Symposium on Deep Learning, 2018
Minimal annotation training for segmentation of microscopy images
Ingår i Proc. 15th International Symposium on Biomedical Imaging, s. 387-390, 2018
Denoising of short exposure transmission electron microscopy images for ultrastructural enhancement
Ingår i Proc. 15th International Symposium on Biomedical Imaging, s. 921-925, 2018
Ingår i Medical Image Understanding and Analysis, s. 182-194, 2017
Ingår i Image Analysis, s. 362-374, 2017
Ingår i Swedish Symposium on Image Analysis, 2017
Ingår i Swedish Symposium on Image Analysis, 2017
Ingår i Image Analysis, s. 407-418, 2017
Ingår i Advanced Concepts for Intelligent Vision Systems, s. 723-734, 2017
Ingår i Biomedical Imaging (ISBI), 2016 IEEE 13th International Symposium on, s. 386-390, 2016
Comparison of Flow Cytometry and Image-Based Screening for Cell Cycle Analysis
Ingår i Image Analysis And Recognition (ICIAR 2016), s. 623-630, 2016
- DOI för Comparison of Flow Cytometry and Image-Based Screening for Cell Cycle Analysis
- Ladda ner fulltext (pdf) av Comparison of Flow Cytometry and Image-Based Screening for Cell Cycle Analysis
High-resolution reconstruction by feature distance minimization from multiple views of an object
Ingår i Proc. 5th International Conference on Image Processing Theory, Tools and Applications, s. 29-34, 2015
Automated Image Acquisition and Particle Size Distribution in the MiniTEM Instrument
2015
A Simple and Efficient Feature Descriptor for Fast Matching
Ingår i WSCG, s. 135-142, 2015
Virus recognition based on local texture
Ingår i Proceedings 22nd International Conference on Pattern Recognition (ICPR), 2014, s. 3227-3232, 2014
miniTEM - a desk-top TEM for fast and easy image acquisition and analysis
2014
MiniTEM - making ultra-structural pathology easier and accessible
2014
The mini-TEM: high quality imaging and analysis of biological specimen
Ingår i Proceedings, 2014
A Desk-Top Low voltage TEM for high quality imaging of biological specimen
Ingår i Proceedings, 2014
Ingår i Proceedings, 2014
Ingår i Proceedings, 2014
Large-Scale Analysis of Cells and Tissue
2014
Precise 3D Angle Measurements in CT Wrist Images
Ingår i Image Analysis and Processing – ICIAP 2013, s. 479-488, 2013
A probabilistic template model for finding macromolecules in MET volume images
Ingår i Pattern Recognition and Image Analysis, s. 855-862, 2013
- DOI för A probabilistic template model for finding macromolecules in MET volume images
- Ladda ner fulltext (pdf) av A probabilistic template model for finding macromolecules in MET volume images
Towards automated Virus Detection and Identification using TEM
Ingår i Proceedings, Part II, s. 397-398, 2013
Factors influencing high quality low voltage TEM imaging of biological routinely stained specimen
Ingår i Proceedings, part I, s. 321-322, 2013
Towards User-Guided Quantitative Evaluation of Wrist Fractures in CT Images
Ingår i Computer Vision and Graphics, s. 204-211, 2012
Rigid registration for MET image exploration using CUDA
Ingår i Proceedings SSBA 2012, 2012
Regional Zernike Moments for Texture Recognition
Ingår i Proceedings of the 21st International Conference on Pattern Recognition (ICPR), s. 1635-1638, 2012
Registration Parameter Spaces for Molecular Electron Tomography Images
Ingår i Image Analysis and Processing – ICIAP 2011, s. 403-412, 2011
Refinement of Segmented Virus Particel Candidates in TEM Images
2011
Investigating measures for transfer function generation for visualization of MET biomedical data
Ingår i WSCG '2011, s. 113-120, 2011
Virus texture analysis using local binary patterns and radial density profiles
Ingår i Progress in Pattern Recognition, Image Analysis, Computer Vision, and Applications, s. 573-580, 2011
Towards Identification of Highly Pathogenic Viruses Based on Image Analysis and TEM
Ingår i TAMSEC 2010, s. 25-25, 2010
Detecting Virus-like Particles Using Transmission Electron Microscopy
Ingår i Proceedings SSBA 2009, Symposium on Image Analysis, s. 13-16, 2009
Ingår i Proc. 6th International Symposium on Image and Signal Processing and Analysis, s. 426-431, 2009
Ingår i Proceedings of the 16th Scandinavian Conference on Image Analysis (SCIA), s. 169-178, 2009
Medial grey-level based representation for proteins in volume images
Ingår i Pattern Recognition and Image Analysis, s. 421-428, 2005
Individual pore segmentation in 3D volumes of fibrous materials
Ingår i SSBA Symposium on Image Analysis 2005, 2005
Shape based identification of proteins in volume images
Ingår i Image Analysis, s. 253-262, 2005
Using grey-level and shape information for decomposing proteins in 3D images
Ingår i IEEE International, s. 800-803, 2004
Description, Segmentation and Classification of Human Cytomegalovirus Capsids
Ingår i Proceedings SSAB'02 Symposium on Image Analysis, s. 21-24, 2002
Weighted distance transforms for images using elongated voxel grids
2002