Difficulties and Recommendations for AI-Based Prediction of Prostate Cancer Aggressiveness in Digital Pathology

Brehler, Michael; Walhagen, Peter; Busch, Christer; Bonn, Stefan et al.

Part of Medical Research Archives, 2023

• DOI for Difficulties and Recommendations for AI-Based Prediction of Prostate Cancer Aggressiveness in Digital Pathology
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Can Representation Learning for Multimodal Image Registration be Improved by Supervision of Intermediate Layers?

Wetzer, Elisabeth; Lindblad, Joakim; Sladoje, Nataša

Part of IbPRIA 2023: Pattern Recognition and Image Analysis, p. 261-275, 2023

• DOI for Can Representation Learning for Multimodal Image Registration be Improved by Supervision of Intermediate Layers?

Evaluating the utility of brightfield image data for mechanism of action prediction

Harrison, Philip John; Gupta, Ankit; Rietdijk, Jonne; Wieslander, Håkan et al.

Part of PloS Computational Biology, 2023

• DOI for Evaluating the utility of brightfield image data for mechanism of action prediction
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Introducing Spatial Context in Patch-Based Deep Learning for Semantic Segmentation in Whole Body MRI

Breznik, Eva; Kullberg, Joel; Ahlström, Håkan; Strand, Robin

Part of Scandinavian Conference on Image Analysis, p. 214-228, 2023

A whole-body diffusion MRI normal atlas: development, evaluation and initial use

Sjöholm, Therese; Tarai, Sambit; Malmberg, Filip; Strand, Robin et al.

Part of Cancer Imaging, 2023

• DOI for A whole-body diffusion MRI normal atlas: development, evaluation and initial use
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Deep Curriculum Learning for Follow-up MRI Registration in Glioblastoma

Banerjee, Subhashis; Toumpanakis, Dimitrios; Dhara, Ashis; Wikström, Johan et al.

Part of Medical Imaging 2023, 2023

• DOI for Deep Curriculum Learning for Follow-up MRI Registration in Glioblastoma

Lifelong Learning with Dynamic Convolutions for Glioma: Segmentation from Multi-Modal MRI

Banerjee, Subhashis; Strand, Robin

Part of Medical Imaging 2023, 2023

Partial dimensional collapse in contrastive learning when using intermediate layers

Wetzer, Elisabeth; Lindblad, Joakim; Sladoje, Nataša

2023

Robust Imaging of Speed-of-Sound Using Virtual Source Transmission

Schweizer, Dieter; Rau, Richard; Bezek, Can Deniz; Kubik-Huch, Rahel A. et al.

Part of IEEE Transactions on Ultrasonics, Ferroelectrics and Frequency Control, p. 1-1, 2023

• DOI for Robust Imaging of Speed-of-Sound Using Virtual Source Transmission

Weakly supervised joint whole-slide segmentation and classification in prostate cancer

Pati, Pushpak; Jaume, Guillaume; Ayadi, Zeineb; Thandiackal, Kevin et al.

Part of Medical Image Analysis, 2023

• DOI for Weakly supervised joint whole-slide segmentation and classification in prostate cancer

Generative appearance replay for continual unsupervised domain adaptation

Chen, Boqi; Thandiackal, Kevin; Pati, Pushpak; Göksel, Orcun

Part of Medical Image Analysis, p. 102924-102924, 2023

• DOI for Generative appearance replay for continual unsupervised domain adaptation
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Deep Active Learning for Glioblastoma Quantification

Banerjee, Subhashis; Strand, Robin

Part of Scandinavian Conference on Image Analysis, p. 190-200, 2023

Introducing spatial context in patch-based deep learning for semantic segmentation in whole body MRI

Breznik, Eva; Kullberg, Joel; Ahlström, Håkan; Strand, Robin

Part of Proceedings of the 22nd Scandinavian conference on image analysis (SCIA), 2023

Analytical Estimation of Beamforming Speed-of-Sound Using Transmission Geometry

Bezek, Can Deniz; Göksel, Orcun

Part of Ultrasonics, 2023

• DOI for Analytical Estimation of Beamforming Speed-of-Sound Using Transmission Geometry
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Model-based Deep Learning of Ultrasound Beamforming

Bezek, Can Deniz; Zhu, Lingkai; Göksel, Orcun

2023

Speed-of-sound as a Novel Ultrasound Imaging Biomarker for Breast Cancer and Density

Bezek, Can Deniz; Schweizer, Dieter; Kubik-Huch, Rahel A.; Göksel, Orcun

2023

Motion Sensitivity of Transmit Sequences for Pulse-Echo Mapping of Sound Speed Based on Apparent Speckle Shifts

Schweizer, Dieter; Bezek, Can Deniz; Farkas, Monika; Göksel, Orcun

2023

3-D Attention-SEV-Net for Segmentation of Post-operative Glioblastoma with Interactive Correction of Over-Segmentation

Kundu, Swagata; Banerjee, Subhashis; Toumpanakis, Dimitrios; Wikström, Johan et al.

Part of Pattern Recognition and Machine Intelligence, PREMI 2023, p. 380-387, 2023

• DOI for 3-D Attention-SEV-Net for Segmentation of Post-operative Glioblastoma with Interactive Correction of Over-Segmentation

Label-free deep learning-based species classification of bacteria imaged by phase-contrast microscopy

Hallström, Erik; Kandavalli, Vinodh; Ranefall, Petter; Elf, Johan et al.

Part of PloS Computational Biology, 2023

• DOI for Label-free deep learning-based species classification of bacteria imaged by phase-contrast microscopy
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Automated detection, segmentation and measurement of major vessels and the trachea in CT pulmonary angiography

Kahraman, Ali T.; Fröding, Tomas; Toumpanakis, Dimitrios; Sladoje, Nataša et al.

Part of Scientific Reports, 2023

• DOI for Automated detection, segmentation and measurement of major vessels and the trachea in CT pulmonary angiography
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Pulse-Echo Speed-of-Sound as Imaging Biomarker for Breast Density: Virtual Source Acquisitions for In-Vivo Application

Bezek, Can Deniz; Göksel, Orcun

2023

Sound-Speed Reconstruction with Learned Kernels Based on a Convolutional Formulation of Sound-Speed and Speckle-Shift Relation

Bezek, Can Deniz; Göksel, Orcun

2023

INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Nataša

Part of PLOS ONE, 2023

• DOI for INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration
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Communicating Awareness: Designing a Framework for Cognitive Human-Agent Interaction for Autonomous Vehicles

Tanevska, Ana; Ghosh, Arabinda; Winkle, Katie; Castellano, Ginevra et al.

2023

RegiSTORM: channel registration for multi-color stochastic optical reconstruction microscopy

ovrebo, Oystein; Ojansivu, Miina; Kartasalo, Kimmo; Barriga, Hanna M. G. et al.

Part of BMC Bioinformatics, 2023

• DOI for RegiSTORM: channel registration for multi-color stochastic optical reconstruction microscopy
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Guest Editorial Special Issue on Emerging Topics on Development and Learning

Luo, Dingsheng; Cangelosi, Angelo; Sciutti, Alessandra; Wan, Weiwei et al.

Part of IEEE Transactions on Cognitive and Developmental Systems, p. 1795-1800, 2023

• DOI for Guest Editorial Special Issue on Emerging Topics on Development and Learning

A Practical Algorithm for Max-Norm OptimalBinary Labeling of Graphs

Malmberg, Filip; Falcão, Alexandre X

Part of Graph-Based Representations in Pattern Recognition, 2023

Cell Segmentation of in situ Transcriptomics Data using Signed Graph Partitioning

Andersson, Axel; Behanova, Andrea; Wählby, Carolina; Malmberg, Filip

Part of Graph-Based Representations in Pattern Recognition, p. 139-148, 2023

• DOI for Cell Segmentation of in situ Transcriptomics Data using Signed Graph Partitioning

Age-Invariant Face Recognition using Face Feature Vectors and Embedded Prototype Subspace Classifiers

Hast, Anders

Part of Advanced Concepts for Intelligent Vision Systems, p. 88-99, 2023

• DOI for Age-Invariant Face Recognition using Face Feature Vectors and Embedded Prototype Subspace Classifiers

Consensus Ranking for Efficient Face Image Retrieval: A Novel Method for Maximising Precision and Recall

Hast, Anders

Part of Image Analysis and Processing – ICIAP 2023, p. 159-170, 2023

• DOI for Consensus Ranking for Efficient Face Image Retrieval: A Novel Method for Maximising Precision and Recall

Refusion: Enabling Large-Size Realistic Image Restoration With Latent-Space Diffusion Models

Luo, Ziwei; Gustafsson, Fredrik K.; Zhao, Zheng; Sjölund, Jens et al.

Part of 2023 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW), p. 1680-1691, 2023

• DOI for Refusion: Enabling Large-Size Realistic Image Restoration With Latent-Space Diffusion Models

Sex Classification of Face Images using Embedded Prototype Subspace Classifiers.

Hast, Anders

Part of Proceedings of the 31th International Conference in Central Europe on Computer Graphics, Visualization and Computer Vision WSCG 2023, p. 43-52, 2023

Dental hygienists and dentists as providers of brush biopsies for oral mucosa screening

Edman, Kristina; Runow Stark, Christina; Basic, Vladimir; Lindblad, Joakim et al.

Part of International Journal of Dental Hygiene, p. 524-532, 2023

• DOI for Dental hygienists and dentists as providers of brush biopsies for oral mucosa screening
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A Study of Augmentation Methods for Handwritten Stenography Recognition

Heil, Raphaela; Breznik, Eva

2023

• DOI for A Study of Augmentation Methods for Handwritten Stenography Recognition

An image registration method for voxel-wise analysis of whole-body oncological PET-CT

Jönsson, Hanna; Ekström, Simon; Strand, Robin; Pedersen, Mette A et al.

Part of Scientific Reports, 2022

• DOI for An image registration method for voxel-wise analysis of whole-body oncological PET-CT
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Computational analysis of subscapularis tears and pectoralis major transfers on muscular activity

Pean, Fabien; Favre, Philippe; Göksel, Orcun

Part of Clinical Biomechanics, 2022

• DOI for Computational analysis of subscapularis tears and pectoralis major transfers on muscular activity
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Segmentation of Major Cerebral Vessel from MRA images and Evaluation using U-Net Family

Pal, Subhash; Banerjee, Subhashis; Toumpanakis, Dimitrios; Wikström, Johan et al.

Part of 2022 IEEE 6th International Conference on Condition Assessment Techniques in Electrical Systems (CATCON), p. 235-238, 2022

• DOI for Segmentation of Major Cerebral Vessel from MRA images and Evaluation using U-Net Family

Haptic-Assisted Surgical Planning (HASP) in a Case of Bilateral Mandible Fracture

Moafi, Roya; Nysjö, Fredrik; Kämpe, Johan; Riben, Christopher et al.

Part of International Medical Case Reports Journal, p. 707-712, 2022

• DOI for Haptic-Assisted Surgical Planning (HASP) in a Case of Bilateral Mandible Fracture
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DCNN based Oral Cancer Screening using Whole Slide Cytology Images: Effect of Increased Patch Size

Chatterjee, Swarnadip; Sladoje, Nataša; Lindblad, Joakim

2022

Rotation-Equivariant Semantic Instance Segmentation on Biomedical Images

Bengtsson Bernander, Karl; Lindblad, Joakim; Strand, Robin; Nystrom, Ingela

Part of MEDICAL IMAGE UNDERSTANDING AND ANALYSIS, MIUA 2022, p. 283-297, 2022

• DOI for Rotation-Equivariant Semantic Instance Segmentation on Biomedical Images

Is image-to-image translation the panacea for multimodal image registration?: A comparative study

Lu, Jiahao; Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Nataša

Part of PLOS ONE, 2022

• DOI for Is image-to-image translation the panacea for multimodal image registration?: A comparative study
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Global Speed-of-Sound Prediction Using Transmission Geometry

Bezek, Can Deniz; Bilgin, Mert; Zhang, Lin; Göksel, Orcun

Part of Proceedings of the 2022 IEEE International Ultrasonics Symposium (IUS), p. 1-4, 2022

• DOI for Global Speed-of-Sound Prediction Using Transmission Geometry

Efficient Algorithms for Global Multimodal Image Registration

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2022

Mean Speed-of-Sound Estimation Using Geometric Disparities

Bezek, Can Deniz; Bilgin, Mert; Zhang, Lin; Göksel, Orcun

2022

SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images

Gupta, Ankit; Sabirsh, Alan; Wählby, Carolina; Sintorn, Ida-Maria

Part of IEEE journal of biomedical and health informatics, p. 4079-4089, 2022

• DOI for SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images
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Topology-Aware Learning for Volumetric Cerebrovascular Segmentation

Banerjee, Subhashis; Toumpanakis, Dimitrios; Dhara, Ashis Kumar; Wikström, Johan et al.

Part of 2022 IEEE International Symposium on Biomedical Imaging (IEEE ISBI 2022), p. 1-4, 2022

• DOI for Topology-Aware Learning for Volumetric Cerebrovascular Segmentation
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MIMIR: Deep Regression for Automated Analysis of UK Biobank MRI Scans

Langner, Taro; Martínez Mora, Andrés; Strand, Robin; Ahlström, Håkan et al.

Part of Radiology: Artificial Intelligence, 2022

• DOI for MIMIR: Deep Regression for Automated Analysis of UK Biobank MRI Scans

Spectral Ultrasound Imaging of Speed-of-Sound and Attenuation Using an Acoustic Mirror

Chintada, Bhaskara Rao; Rau, Richard; Göksel, Orcun

Part of Frontiers in Physics, 2022

• DOI for Spectral Ultrasound Imaging of Speed-of-Sound and Attenuation Using an Acoustic Mirror
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Rotationally Equivariant Representation Learning for Multimodal Images

Wetzer, Elisabeth; Pielawski, Nicolas; Öfverstedt, Johan; Lu, Jiahao et al.

2022

Cross-Sim-NGF: FFT-Based Global Rigid Multimodal Alignment of Image Volumes using Normalized Gradient Fields

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2022

• DOI for Cross-Sim-NGF: FFT-Based Global Rigid Multimodal Alignment of Image Volumes using Normalized Gradient Fields

Label-Free Reverse Image Search of Multimodal Microscopy Images

Breznik, Eva; Wetzer, Elisabeth; Lindblad, Joakim; Sladoje, Natasa

2022

Hierarchical graph representations in digital pathology

Pati, Pushpak; Jaume, Guillaume; Foncubierta-Rodriguez, Antonio; Feroce, Florinda et al.

Part of Medical Image Analysis, 2022

• DOI for Hierarchical graph representations in digital pathology
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Re-Ranking Strategies in Cross-Modality Microscopy Retrieval

Wetzer, Elisabeth; Breznik, Eva; Lindblad, Joakim; Sladoje, Nataša

2022

A unified deep learning approach for OCT segmentation from different devices and retinal diseases

Gomariz, Alvaro; Lu, Huanxiang; Albrecht, Thomas; Maunz, Andreas et al.

Part of Investigative Ophthalmology & Visual Science, p. 2053, 2022

Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Pattern Recognition Letters, p. 196-203, 2022

• DOI for Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment
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End-to-End Learning and Analysis of Infant Engagement During Guided Play: Prediction and Explainability

Fraile, Marc; Fawcett, Christine; Lindblad, Joakim; Sladoje, Nataša et al.

Part of ICMI '22, p. 444-454, 2022

• DOI for End-to-End Learning and Analysis of Infant Engagement During Guided Play: Prediction and Explainability
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Restoration of Archival Images Using NeuralNetworks

Heil, Raphaela; Wahlberg, Fredrik

Part of Proceedings of the 6th Digital Humanities in the Nordic and Baltic Countries Conference (DHNB 2022), p. 79-93, 2022

Differentiable Zooming for Multiple Instance Learning on Whole-Slide Images

Thandiackal, Kevin; Chen, Boqi; Pati, Pushpak; Jaume, Guillaume et al.

Part of COMPUTER VISION, ECCV 2022, PT XXI, p. 699-715, 2022

• DOI for Differentiable Zooming for Multiple Instance Learning on Whole-Slide Images

Towards Better Guided Attention and Human Knowledge Insertion in Deep Convolutional Neural Networks

Gupta, Ankit; Sintorn, Ida-Maria

2022

Guest Editorial: Discrete Geometry and Mathematical Morphology

Malmberg, Filip; Lindblad, Joakim; Sladoje, Natasa

Part of Journal of Mathematical Imaging and Vision, p. 691-692, 2022

• DOI for Guest Editorial: Discrete Geometry and Mathematical Morphology

A Preliminary Case Study on Gender Norms in Robot-Assisted Diagnosis of Perinatal Depression: A Socio-Legal HRI Perspective

Tanqueray, Laetitia; Castellano, Ginevra; Larsson, Stefan

2022

AI based prostate analysis system trained without human supervision to predict patient outcome from tissue samples

Walhagen, Peter; Bengtsson, Ewert; Lennartz, Maximilian; Sauter, Guido et al.

Part of Journal of Pathology Informatics, 2022

• DOI for AI based prostate analysis system trained without human supervision to predict patient outcome from tissue samples
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Early Detection of Oral Potentially Malignant Disorders: A Review on Prospective Screening Methods with Regard to Global Challenges

Haj-Hosseini, Neda; Lindblad, Joakim; Hasséus, Bengt; Kumar, Vinay Vijaya et al.

Part of Journal of Maxillofacial and Oral Surgery, p. 23-32, 2022

• DOI for Early Detection of Oral Potentially Malignant Disorders: A Review on Prospective Screening Methods with Regard to Global Challenges
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End-to-end Multiple Instance Learning with Gradient Accumulation

Andersson, Axel; Koriakina, Nadezhda; Sladoje, Nataša; Lindblad, Joakim

Part of 2022 IEEE International Conference on Big Data (Big Data), p. 2742-2746, 2022

• DOI for End-to-end Multiple Instance Learning with Gradient Accumulation

Patient specific deep learning based segmentation for magnetic resonance guided prostate radiotherapy

Fransson, Samuel; Tilly, David; Strand, Robin

Part of Physics and Imaging in Radiation Oncology, p. 38-42, 2022

• DOI for Patient specific deep learning based segmentation for magnetic resonance guided prostate radiotherapy
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Efficient Parallel Thinning of 3d Objects on the Body-centered Cubic Lattice

Brunner, David; Brunnett, Guido; Kronfeld, Thomas; Strand, Robin

Part of Computer-Aided Design, 2022

• DOI for Efficient Parallel Thinning of 3d Objects on the Body-centered Cubic Lattice

Serum levels of perfluoroalkyl substances (PFAS) and body composition - A cross-sectional study in a middle-aged population

Lind, P. Monica; Lind, Lars; Salihovic, Samira; Ahlström, Håkan et al.

Part of Environmental Research, p. 112677, 2022

• DOI for Serum levels of perfluoroalkyl substances (PFAS) and body composition - A cross-sectional study in a middle-aged population
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Probabilistic spatial analysis in quantitative microscopy with uncertainty-aware cell detection using deep Bayesian regression

Gomariz, Alvaro; Portenier, Tiziano; Nombela-Arrieta, Cesar; Göksel, Orcun

Part of Science Advances, 2022

• DOI for Probabilistic spatial analysis in quantitative microscopy with uncertainty-aware cell detection using deep Bayesian regression

Improved geometric accuracy of whole body diffusion-weighted imaging at 1.5T and 3T using reverse polarity gradients

Sjöholm, Therese; Kullberg, Joel; Strand, Robin; Engström, M. et al.

Part of Scientific Reports, 2022

• DOI for Improved geometric accuracy of whole body diffusion-weighted imaging at 1.5T and 3T using reverse polarity gradients
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Is brightfield all you need for MoA prediction?

Gupta, Ankit; Harrison, Philip J; Wieslander, Håkan; Rietdijk, Jonne et al.

2022

Regular Use of Depot Medroxyprogesterone Acetate Causes Thinning of the Superficial Lining and Apical Distribution of Human Immunodeficiency Virus Target Cells in the Human Ectocervix

Edfeldt, Gabriella; Lajoie, Julie; Röhl, Maria; Oyugi, Julius et al.

Part of Journal of Infectious Diseases, p. 1151-1161, 2022

• DOI for Regular Use of Depot Medroxyprogesterone Acetate Causes Thinning of the Superficial Lining and Apical Distribution of Human Immunodeficiency Virus Target Cells in the Human Ectocervix
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A Hitchhiker's guide through the bio‐image analysis software universe

Haase, Robert; Fazeli, Elnaz; Legland, David; Doube, Michael et al.

Part of FEBS Letters, p. 2472-2485, 2022

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A Spatially Detailed Approach to the Assessment of Rooftop Solar Energy Potential based on LiDAR Data

Aslani, Mohammad; Seipel, Stefan

Part of GISTAM, p. 56-63, 2022

• DOI for A Spatially Detailed Approach to the Assessment of Rooftop Solar Energy Potential based on LiDAR Data

Unsupervised Domain Adaptation with Contrastive Learning for OCT Segmentation

Gomariz, Alvaro; Lu, Huanxiang; Li, Yun Yvonna; Albrecht, Thomas et al.

Part of Medical Image Computing and Computer Assisted Intervention, MICCAI 2022, pt viii, p. 351-361, 2022

• DOI for Unsupervised Domain Adaptation with Contrastive Learning for OCT Segmentation

Magnitude of Semicircle Tiles in Fourier-space: A Handcrafted Feature Descriptor for Word Recognition using Embedded Prototype Subspace Classifiers

Hast, Anders

Part of Journal of WSCG, p. 82-90, 2022

• DOI for Magnitude of Semicircle Tiles in Fourier-space: A Handcrafted Feature Descriptor for Word Recognition using Embedded Prototype Subspace Classifiers

Icke-invasiv kontroll av cellförändringar i munslemhinnan

Hirsch, Jan-Michaél; Haj-Hosseini, Neda; Krüger Weiner, Carina; Hasséus, Bengt et al.

Part of Tandläkartidningen, p. 48-55, 2021

The Effect of Within-Bag Sampling on End-to-End Multiple Instance Learning

Koriakina, Nadezhda; Sladoje, Natasa; Lindblad, Joakim

Part of Proceedings of the 12th International Symposium on Image and Signal Processing and Analysis (ISPA), p. 183-188, 2021

• DOI for The Effect of Within-Bag Sampling on End-to-End Multiple Instance Learning

Effects of distance transform choice in training with boundary loss

Breznik, Eva; Strand, Robin

2021

Towards automatic protein co-expression quantification in immunohistochemical TMA slides

Solorzano, Leslie; Pereira, Carla; Martins, Diana; Almeida, Raquel et al.

Part of IEEE journal of biomedical and health informatics, p. 393-402, 2021

• DOI for Towards automatic protein co-expression quantification in immunohistochemical TMA slides
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Deep learning and conformal prediction for hierarchical analysis of large-scale whole-slide tissue images

Wieslander, Håkan; Harrison, Philip J.; Skogberg, Gabriel; Jackson, Sonya et al.

Part of IEEE journal of biomedical and health informatics, p. 371-380, 2021

• DOI for Deep learning and conformal prediction for hierarchical analysis of large-scale whole-slide tissue images
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Replacing data augmentation with rotation-equivariant CNNs in image-based classification of oral cancer

Bengtsson Bernander, Karl; Lindblad, Joakim; Strand, Robin; Nyström, Ingela

Part of Progress in Pattern Recognition, Image Analysis, Computer Vision, and Applications, p. 24-33, 2021

• DOI for Replacing data augmentation with rotation-equivariant CNNs in image-based classification of oral cancer

Learning to see colours: Biologically relevant virtual staining for adipocyte cell images

Wieslander, Håkan; Gupta, Ankit; Bergman, Ebba; Hallström, Erik et al.

Part of PLOS ONE, 2021

• DOI for Learning to see colours: Biologically relevant virtual staining for adipocyte cell images
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Evaluation of in-house, haptic assisted surgical planning for virtual reduction of complex mandibular fractures

Nilsson, Johanna; Nysjö, Fredrik; Nyström, Ingela; Kämpe, Johan et al.

Part of International Journal of Computer Assisted Radiology and Surgery, p. 1059-1068, 2021

• DOI for Evaluation of in-house, haptic assisted surgical planning for virtual reduction of complex mandibular fractures
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Contrastive Learning for Equivariant Multimodal Image Representations

Wetzer, Elisabeth; Pielawski, Nicolas; Breznik, Eva; Öfverstedt, Johan et al.

2021

Modality attention and sampling enables deep learning with heterogeneous marker combinations in fluorescence microscopy

Gomariz, Alvaro; Portenier, Tiziano; Helbling, Patrick M.; Isringhausen, Stephan et al.

Part of Nature Machine Intelligence, p. 799-811, 2021

• DOI for Modality attention and sampling enables deep learning with heterogeneous marker combinations in fluorescence microscopy

Phase-Aberration Correction in Shear-Wave Elastography Imaging Using Local Speed-of-Sound Adaptive Beamforming

Chintada, Bhaskara R.; Rau, Richard; Goksel, Orcun

Part of Frontiers in Physics, 2021

• DOI for Phase-Aberration Correction in Shear-Wave Elastography Imaging Using Local Speed-of-Sound Adaptive Beamforming
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Content-Preserving Unpaired Translation from Simulated to Realistic Ultrasound Images

Tomar, Devavrat; Zhang, Lin; Portenier, Tiziano; Goksel, Orcun

Part of Medical Image Computing and Computer Assisted Intervention, p. 659-669, 2021

• DOI for Content-Preserving Unpaired Translation from Simulated to Realistic Ultrasound Images

Learning Whole-Slide Segmentation from Inexact and Incomplete Labels Using Tissue Graphs

Anklin, Valentin; Pati, Pushpak; Jaume, Guillaume; Bozorgtabar, Behzad et al.

Part of Medical Image Computing and Computer Assisted Intervention, p. 636-646, 2021

• DOI for Learning Whole-Slide Segmentation from Inexact and Incomplete Labels Using Tissue Graphs

Estimating Mean Speed-of-Sound from Sequence-Dependent Geometric Disparities

Augustin, Xenia; Zhang, Lin; Goksel, Orcun

2021

TEM image restoration from fast image streams

Wieslander, Håkan; Wählby, Carolina; Sintorn, Ida-Maria

Part of PLOS ONE, 2021

• DOI for TEM image restoration from fast image streams
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Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer

Chelebian, Eduard; Avenel, Christophe; Kartasalo, Kimmo; Marklund, Maja et al.

Part of Cancers, 2021

• DOI for Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer
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Image-to-Image Translation in Multimodal Image Registration: How Well Does It Work?

Lu, Jiahao; Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2021

CytoBrowser: a browser-based collaborative annotation platform for whole slide images

Rydell, Christopher; Lindblad, Joakim

Part of F1000 Research, 2021

• DOI for CytoBrowser: a browser-based collaborative annotation platform for whole slide images

Time Of Arrival Delineation In Echo Traces For Reflection Ultrasound Tomography

Chintada, Bhaskara R; Rau, Richard; Göksel, Orcun

p. 1342-1345, 2021

• DOI for Time Of Arrival Delineation In Echo Traces For Reflection Ultrasound Tomography

Registration of Multimodal Microscopy Images using CoMIR – learned structural image representations

Wetzer, Elisabeth; Pielawski, Nicolas; Öfverstedt, Johan; Lu, Jiahao et al.

2021

Fast Computation of Mutual Information with Application to Global Multimodal Image Alignment of Micrographs

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2021

Machine learning for cell classification and neighborhood analysis in glioma tissue

Solorzano, Leslie; Wik, Lina; Bontell, Thomas Olsson; Wang, Yuyu et al.

Part of Cytometry Part A, p. 1176-1186, 2021

• DOI for Machine learning for cell classification and neighborhood analysis in glioma tissue
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Relationships Between Plasma Levels And Six Proinflammatory Interleukins And Body Composition Using A New Magnetic Resonance Imaging Voxel-based Technique

Strand, Robin; Kullberg, Joel; Ahlström, Håkan; Lind, Lars

Part of Cytokine: X, p. 100050, 2021

• DOI for Relationships Between Plasma Levels And Six Proinflammatory Interleukins And Body Composition Using A New Magnetic Resonance Imaging Voxel-based Technique

Segmentation of Intracranial Aneurysm Remnant in MRA using Dual-Attention Atrous Net

Banerjee, Subhashis; Kumar Dhara, Ashis; Wikström, Johan; Strand, Robin

Part of 25th International Conference on Pattern Recognition (ICPR), p. 9265-9272, 2021

• DOI for Segmentation of Intracranial Aneurysm Remnant in MRA using Dual-Attention Atrous Net

Graph-based image decoding for multiplexed in situ RNA detection

Partel, Gabriele; Wählby, Carolina

Part of 2020 25th International Conference on Pattern Recognition (ICPR), p. 3783-3790, 2021

• DOI for Graph-based image decoding for multiplexed in situ RNA detection
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Word Recognition using Embedded Prototype Subspace Classifiers on a new Imbalanced Dataset

Hast, Anders; Vats, Ekta

Part of Journal of WSCG, p. 39-47, 2021

• DOI for Word Recognition using Embedded Prototype Subspace Classifiers on a new Imbalanced Dataset

Editorial of special section on CIARP 2019

Nyström, Ingela; Ruiz-Shulcloper, Jose

Part of Pattern Recognition Letters, p. 82-83, 2021

• DOI for Editorial of special section on CIARP 2019

Strikethrough Removal from Handwritten Words Using CycleGANs

Heil, Raphaela; Vats, Ekta; Hast, Anders

Part of Document Analysis and Recognition -- ICDAR 2021, p. 572-586, 2021

• DOI for Strikethrough Removal from Handwritten Words Using CycleGANs

Quantifying Explainers of Graph Neural Networks in Computational Pathology

Jaume, Guillaume; Pati, Pushpak; Bozorgtabar, Behzad; Foncubierta, Antonio et al.

Part of 2021 IEEE/CVF Conference on Computer Vision and Pattern Recognition, CVPR 2021, p. 8102-8112, 2021

• DOI for Quantifying Explainers of Graph Neural Networks in Computational Pathology

Utilizing Uncertainty Estimation in Deep Learning Segmentation of Fluorescence Microscopy Images with Missing Markers

Gomariz, Alvaro; Egli, Raphael; Portenier, Tiziano; Nombela-Arrieta, Cesar et al.

2021

• DOI for Utilizing Uncertainty Estimation in Deep Learning Segmentation of Fluorescence Microscopy Images with Missing Markers

Shorthand Secrets: Deciphering Astrid Lindgren's Stenographed Drafts with HTR Methods

Heil, Raphaela; Nauwerck, Malin; Hast, Anders

p. 169-177, 2021

Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit

Blamey, Ben; Toor, Salman; Dahlö, Martin; Wieslander, Håkan et al.

Part of GigaScience, p. 1-14, 2021

• DOI for Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit
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Efficient and decision boundary aware instance selection for support vector machines

Aslani, Mohammad; Seipel, Stefan

Part of Information Sciences, p. 579-598, 2021

• DOI for Efficient and decision boundary aware instance selection for support vector machines
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Does visual saliency affect decision-making?

Milutinovic, Goran; Ahonen-Jonnarth, Ulla; Seipel, Stefan

Part of Journal of Visualization, p. 1267-1285, 2021

• DOI for Does visual saliency affect decision-making?
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ImageJ and CellProfiler: Complements in Open‐Source Bioimage Analysis

Dobson, Ellen T.A.; Cimini, Beth; Klemm, Anna H; Wählby, Carolina et al.

Part of Current Protocols in Microbiology, 2021

• DOI for ImageJ and CellProfiler: Complements in Open‐Source Bioimage Analysis

Assessing Damage – Can the Crowd Interpret Colour and 3D Information?

Seffers, Gaëlle; Åhlén, Juia; Seipel, Stefan; Ooms, Kristien

Part of Cartographic Journal, p. 69-82, 2021

• DOI for Assessing Damage – Can the Crowd Interpret Colour and 3D Information?

Learning Cell Nuclei Segmentation Using Labels Generated with Classical Image Analysis Methods

Matuszewski, Damian J.; Ranefall, Petter

Part of Proceedings of the WSCG 2021, p. 335-338, 2021

• DOI for Learning Cell Nuclei Segmentation Using Labels Generated with Classical Image Analysis Methods

When texture matters: Texture-focused CNNs outperform general data augmentation and pretraining in oral cancer detection

Wetzer, Elisabeth; Gay, Jo; Harlin, Hugo; Lindblad, Joakim et al.

Part of 2020 IEEE 17th International Symposium on Biomedical Imaging (ISBI), p. 517-521, 2020

• DOI for When texture matters: Texture-focused CNNs outperform general data augmentation and pretraining in oral cancer detection

Fast graph-cut based optimization for practical dense deformable registration of volume images

Ekström, Simon; Malmberg, Filip; Ahlström, Håkan; Kullberg, Joel et al.

Part of Computerized Medical Imaging and Graphics, 2020

• DOI for Fast graph-cut based optimization for practical dense deformable registration of volume images

CoMIR: Contrastive Multimodal Image Representation for Registration

Pielawski, Nicolas; Wetzer, Elisabeth; Öfverstedt, Johan; Lu, Jiahao et al.

Part of NeurIPS - 34th Conference on Neural Information Processing Systems, 2020

Recent Advances in Large Scale Whole Body MRI Image Analysis – Imiomics

Strand, Robin; Ekström, Simon; Breznik, Eva; Sjöholm, Therese et al.

Part of In Proceedings of The 5th International Conference on Sustainable Information Engineering and Technology (SIET 2020), Malang, Indonesia, 2020

Patient-specific fine-tuning of CNNs for follow-up lesion quantification

Jansen, Marielle J A; Kuijf, Hugo J; Kumar Dhara, Ashis; Weaver, Nick A et al.

Part of Journal of Medical Imaging, 2020

Large-scale Inference of Liver Fat with Neural Networks on UK Biobank Body MRI

Langner, Taro; Strand, Robin; Ahlström, Håkan; Kullberg, Joel

Part of International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2020, p. 602-611, 2020

• DOI for Large-scale Inference of Liver Fat with Neural Networks on UK Biobank Body MRI

Cross-modal Representation Learning for Efficient Registration of Multiphoton and Brightfield Microscopy Images of Skin Tissue

Wetzer, Elisabeth; Pielawski, Nicolas; Öfverstedt, Johan; Jiahao, Lu et al.

Part of 4th NEUBIAS Conference, Bordeaux, France, 2020

A Deep Learning Based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images

Lu, Jiahao; Sladoje, Natasa; Runow Stark, Christina; Darai Ramqvist, Eva et al.

Part of Image Analysis and Recognition, p. 249-261, 2020

• DOI for A Deep Learning Based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images

BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows.

Rubens, Ulysse; Mormont, Romain; Paavolainen, Lassi; Bäcker, Volker et al.

Part of Patterns (New York, N.Y.), 2020

• DOI for BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows.
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Large-scale biometry with interpretable neural network regression on UK Biobank body MRI

Langner, Taro; Strand, Robin; Ahlström, Håkan; Kullberg, Joel

Part of Scientific Reports, 2020

• DOI for Large-scale biometry with interpretable neural network regression on UK Biobank body MRI
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Large-scale inference of liver fat with neural networks on UK Biobank body MRI

Langner, Taro; Strand, Robin; Ahlström, Håkan; Kullberg, Joel

Part of Lecture Notes in Computer Science LNCS Vol. 12265, pages 602-611, Springer, Cham., p. 602-611, 2020

zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging

Zhang, Hanqing; Waldmann, Laura; Manuel, Remy; Boije, Henrik et al.

Part of Biomedical Optics Express, p. 4290-4305, 2020

• DOI for zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging
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Uncovering hidden reasoning of convolutional neural networks in biomedical image classification by using attribution methods

Koriakina, Nadezhda; Sladoje, Natasa; Wetzer, Elisabeth; Lindblad, Joakim

Part of 4th NEUBIAS Conference, Bordeaux, France, 2020

HISTOBREAST: a collection of brightfield microscopy images of Haematoxylin and Eosin stained breast tissue

Buga, Roxana M.; Totu, Tiberiu; Dumitru, Adrian; Costache, Mariana et al.

Part of Scientific Data, 2020

• DOI for HISTOBREAST: a collection of brightfield microscopy images of Haematoxylin and Eosin stained breast tissue
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Bootstrapping Weakly Supervised Segmentation-free Word Spotting through HMM-based Alignment

Wilkinson, Tomas; Nettelblad, Carl

Part of 2020 17th International Conference on Frontiers in Handwriting Recognition (ICFHR), p. 49-54, 2020

• DOI for Bootstrapping Weakly Supervised Segmentation-free Word Spotting through HMM-based Alignment

Detection of pulmonary micronodules in computed tomography images and false positive reduction using 3D convolutional neural networks

Gupta, Anindya; Saar, Tonis; Martens, Olev; Le Moullec, Yannick et al.

Part of International journal of imaging systems and technology (Print), p. 327-339, 2020

• DOI for Detection of pulmonary micronodules in computed tomography images and false positive reduction using 3D convolutional neural networks

Stochastic Distance Transform: Theory, Algorithms and Applications

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Journal of Mathematical Imaging and Vision, p. 751-769, 2020

• DOI for Stochastic Distance Transform: Theory, Algorithms and Applications
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Visualisation of 3D Property Data and Assessment of the Impact of Rendering Attributes

Seipel, Stefan; Andrée, Martin; Larsson, Karolina; Paasch, Jesper M. et al.

Part of Journal of Geovisualization and Spatial Analysis, 2020

• DOI for Visualisation of 3D Property Data and Assessment of the Impact of Rendering Attributes
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A fast instance selection method for support vector machines in building extraction

Aslani, Mohammad; Seipel, Stefan

Part of Applied Soft Computing, 2020

• DOI for A fast instance selection method for support vector machines in building extraction
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Adaptive Mathematical Morphology on Irregularly Sampled Signals in Two Dimensions

Asplund, Teo; Luengo Hendriks, Cris L.; Thurley, Matthew J.; Strand, Robin

Part of Mathematical Morphology - Theory and Applications, p. 108-126, 2020

• DOI for Adaptive Mathematical Morphology on Irregularly Sampled Signals in Two Dimensions
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Clustered Grid Cell Data Structure for Isosurface Rendering

Nysjö, Fredrik

Part of Journal of WSCG, p. 9-17, 2020

• DOI for Clustered Grid Cell Data Structure for Isosurface Rendering

Two Polynomial Time Graph Labeling Algorithms Optimizing Max-Norm-Based Objective Functions

Malmberg, Filip; Ciesielski, Krzysztof Chris Ciesielski

Part of Journal of Mathematical Imaging and Vision, p. 737-750, 2020

• DOI for Two Polynomial Time Graph Labeling Algorithms Optimizing Max-Norm-Based Objective Functions

Generalised deep learning framework for HEp-2 cell recognition using local binary pattern maps

Bajic, Buda; Majtner, Tomas; Lindblad, Joakim; Sladoje, Natasa

Part of IET Image Processing, p. 1201-1208, 2020

• DOI for Generalised deep learning framework for HEp-2 cell recognition using local binary pattern maps

RayCaching: Amortized Isosurface Rendering for Virtual Reality

Nysjö, Fredrik; Malmberg, Filip; Nyström, Ingela

Part of Computer graphics forum (Print), p. 220-230, 2020

• DOI for RayCaching: Amortized Isosurface Rendering for Virtual Reality
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New Definition of Quality-Scale Robustness for Image Processing Algorithms, with Generalized Uncertainty Modeling, Applied to Denoising and Segmentation

Vacavant, Antoine; Lebre, Marie-Ange; Rositi, Hugo; Grand-Brochier, Manuel et al.

Part of RRPR 2018: Reproducible Research in Pattern Recognition, p. 138-149, 2019

• DOI for New Definition of Quality-Scale Robustness for Image Processing Algorithms, with Generalized Uncertainty Modeling, Applied to Denoising and Segmentation

Sparsity promoting super-resolution coverage segmentation by linear unmixing in presence of blur and noise

Bajic, Buda; Lindblad, Joakim; Sladoje, Natasa

Part of Journal of Electronic Imaging (JEI), 2019

• DOI for Sparsity promoting super-resolution coverage segmentation by linear unmixing in presence of blur and noise

Conventional analysis of movement on non-flat surfaces like the plasma membrane makes Brownian motion appear anomalous

Adler, Jeremy; Sintorn, Ida-Maria; Strand, Robin; Parmryd, Ingela

Part of Communications Biology, 2019

• DOI for Conventional analysis of movement on non-flat surfaces like the plasma membrane makes Brownian motion appear anomalous

Facilitating Ultrastructural Pathology through Automated Imaging and Analysis

Sintorn, Ida-Maria; Suveer, Amit; Dragomir, Anca; Hultenby, Kjell et al.

Part of Journal of Pathology Informatics, p. 38-39, 2019

Visualization of convolutional neural network class activations in automated oral cancer detection for interpretation of malignancy associated changes

Koriakina, Nadezhda; Sladoje, Natasa; Bengtsson, Ewert; Ramqvist, Eva Darai et al.

Part of 3rd NEUBIAS Conference, Luxembourg, 2-8 February 2019, 2019

Oral Cancer Detection: A Comparison of Texture Focused Deep Learning Approaches

Gay, Jo; Harlin, Hugo; Wetzer, Elisabeth; Lindblad, Joakim et al.

Part of Proceedings of the Swedish Society for Automated Image Analysis (SSBA), 2019

Towards automated multiscale Glomeruli detection and analysis in TEM by fusion of CNN and LBP maps

Wetzer, Elisabeth; Lindblad, Joakim; Sintorn, Ida-Maria; Hultenby, Kjell et al.

Part of 3rd NEUBIAS Conference, 2019

On the Effectiveness of Generative Adversarial Networks as HEp-2 Image Augmentation Tool

Majtner, Tomáš; Bajić, Buda; Lindblad, Joakim; Sladoje, Natasa et al.

Part of Scandinavian Conference on Image Analysis, p. 439-451, 2019

• DOI for On the Effectiveness of Generative Adversarial Networks as HEp-2 Image Augmentation Tool

A robust multi-variability model based liver segmentation algorithm for CT-scan and MRI modalities

Lebre, Marie-Ange; Vacavant, Antoine; Grand-Brochier, Manuel; Rositi, Hugo et al.

Part of Computerized Medical Imaging and Graphics, 2019

• DOI for A robust multi-variability model based liver segmentation algorithm for CT-scan and MRI modalities

Average volume reference space for large scale registration of whole-body magnetic resonance images

Pilia, Martino; Kullberg, Joel; Ahlström, Håkan; Malmberg, Filip et al.

Part of PLOS ONE, 2019

• DOI for Average volume reference space for large scale registration of whole-body magnetic resonance images
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Rational nanotoolbox with theranostic potential for medicated pro-regenerative corneal implants

Patra, Hirak K.; Azharuddin, Mohammad; Islam, Mohammad M.; Papapavlou, Georgia et al.

Part of Advanced Functional Materials, 2019

• DOI for Rational nanotoolbox with theranostic potential for medicated pro-regenerative corneal implants

Image analysis in digital pathology: Combining automated assessment of Ki67 staining quality with calculation of Ki67 cell proliferation index

Bengtsson, Ewert; Ranefall, Petter

Part of Cytometry Part A, p. 714-716, 2019

• DOI for Image analysis in digital pathology: Combining automated assessment of Ki67 staining quality with calculation of Ki67 cell proliferation index

Embedded Prototype Subspace Classification: A subspace learning framework

Hast, Anders; Lind, Mats; Vats, Ekta

Part of Computer Analysis of Images and Patterns, CAIP 2019, PT II, p. 581-592, 2019

• DOI for Embedded Prototype Subspace Classification: A subspace learning framework

Relationship between endothelium-dependent vasodilation and fat distribution using the new "imiomics" image analysis technique

Lind, Lars; Strand, Robin; Michaëlsson, Karl; Kullberg, Joel et al.

Part of NMCD. Nutrition Metabolism and Cardiovascular Diseases, p. 1077-1086, 2019

• DOI for Relationship between endothelium-dependent vasodilation and fat distribution using the new "imiomics" image analysis technique
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Tracking Microscope Performance: A Workflow to Compare Point Spread Function Evaluations Over Time

Klemm, Anna H.; Thomae, Andreas W.; Wachal, Katarina; Dietzel, Steffen

Part of Microscopy and Microanalysis, p. 699-704, 2019

• DOI for Tracking Microscope Performance: A Workflow to Compare Point Spread Function Evaluations Over Time

Glandular Segmentation of Prostate Cancer: An Illustration of How the Choice of Histopathological Stain Is One Key to Success for Computational Pathology

Avenel, Christophe; Tolf, Anna; Dragomir, Anca; Carlbom, Ingrid

Part of Frontiers in Bioengineering and Biotechnology, 2019

• DOI for Glandular Segmentation of Prostate Cancer: An Illustration of How the Choice of Histopathological Stain Is One Key to Success for Computational Pathology
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Special Section on Image Cytometry

Bengtsson, Ewert; Tárnok, Attila

Part of Cytometry Part A, p. 363-365, 2019

• DOI for Special Section on Image Cytometry

Fast and Robust Symmetric Image Registration Based on Distances Combining Intensity and Spatial Information

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of IEEE Transactions on Image Processing, p. 3584-3597, 2019

• DOI for Fast and Robust Symmetric Image Registration Based on Distances Combining Intensity and Spatial Information
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Correcting exorbitism by monobloc frontofacial advancement in Crouzon–Pfeiffer syndrome: An age-specific, time-related, controlled study

Way, Benjamin L. M.; Khonsari, Roman H.; Karunakaran, Tharsika; Nysjö, Johan et al.

Part of Plastic and reconstructive surgery (1963), 2019

• DOI for Correcting exorbitism by monobloc frontofacial advancement in Crouzon–Pfeiffer syndrome: An age-specific, time-related, controlled study

Towards automated multiscale imaging and analysis in TEM: Glomerulus detection by fusion of CNN and LBP maps

Wetzer, Elisabeth; Lindblad, Joakim; Sintorn, Ida-Maria; Hultenby, Kjell et al.

Part of Computer Vision, p. 465-475, 2019

• DOI for Towards automated multiscale imaging and analysis in TEM: Glomerulus detection by fusion of CNN and LBP maps

A strategy for OCT estimation of the optic nerve head pigment epithelium central limit-inner limit of the retina minimal distance, PIMD-2π

Sandberg Melin, Camilla; Malmberg, Filip; Söderberg, Per G.

Part of Acta Ophthalmologica, p. 208-213, 2019

• DOI for A strategy for OCT estimation of the optic nerve head pigment epithelium central limit-inner limit of the retina minimal distance, PIMD-2π

Content-Based Image Retrieval System for Pulmonary Nodules Using Optimal Feature Sets and Class Membership-Based Retrieval

Mehre, Shrikant A.; Dhara, Ashis Kumar; Garg, Mandeep; Kalra, Naveen et al.

Part of Journal of digital imaging, p. 362-385, 2019

• DOI for Content-Based Image Retrieval System for Pulmonary Nodules Using Optimal Feature Sets and Class Membership-Based Retrieval

A whole-body FDG PET/MR atlas for multiparametric voxel-based analysis

Sjöholm, Therese; Ekström, Simon; Strand, Robin; Ahlström, Håkan et al.

Part of Scientific Reports, 2019

• DOI for A whole-body FDG PET/MR atlas for multiparametric voxel-based analysis
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Brown adipose tissue estimated with the magnetic resonance imaging fat fraction is associated with glucose metabolism in adolescents

Lundström, Elin; Ljungberg, Joy; Andersson, Jonathan; Manell, Hannes et al.

Part of Pediatric Obesity, 2019

• DOI for Brown adipose tissue estimated with the magnetic resonance imaging fat fraction is associated with glucose metabolism in adolescents

Robust Symmetric Affine Image Registration

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Swedish Symposium on Image Analysis, 2019

Modeling spatial correlation of transcripts with application to developing pancreas

Liu, Ruishan; Mignardi, Marco; Jones, Robert; Enge, Martin et al.

Part of Scientific Reports, 2019

• DOI for Modeling spatial correlation of transcripts with application to developing pancreas

Deep Learning in Image Cytometry: A Review

Gupta, Anindya; Harrison, Philip J.; Wieslander, Håkan; Pielawski, Nicolas et al.

Part of Cytometry Part A, p. 366-380, 2019

• DOI for Deep Learning in Image Cytometry: A Review
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Segmentation of Post-operative Glioblastoma in MRI by U-Net with Patient-specific Interactive Refinement

Dhara, Ashis Kumar; Ayyalasomayajula, Kalyan Ram; Arvids, Erik; Fahlström, Markus et al.

Part of Brainlesion, p. 115-122, 2019

• DOI for Segmentation of Post-operative Glioblastoma in MRI by U-Net with Patient-specific Interactive Refinement

Super-resolution Reconstruction of Transmission Electron Microscopy Images using Deep Learning

Suveer, Amit; Gupta, Anindya; Kylberg, Gustaf; Sintorn, Ida-Maria

Part of 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019), p. 548-551, 2019

• DOI for Super-resolution Reconstruction of Transmission Electron Microscopy Images using Deep Learning

Optimization of max-norm objective functions in image processing and computer vision

Malmberg, Filip; Ciesielski, Krzysztof Chris; Strand, Robin

Part of Discrete Geometry for Computer Imagery, p. 206-218, 2019

• DOI for Optimization of max-norm objective functions in image processing and computer vision

Capturing and characterizing human activities using building locations in America

Ren, Zheng; Jiang, Bin; Seipel, Stefan

Part of ISPRS International Journal of Geo-Information, 2019

• DOI for Capturing and characterizing human activities using building locations in America

Stochastic Distance Functions with Applications in Object Detection and Image Segmentation

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Swedish Symposium on Image Analysis, 2019

PDNet: Semantic segmentation integrated with a primal-dual network for document binarization

Ayyalasomayajula, Kalyan Ram; Malmberg, Filip; Brun, Anders

Part of Pattern Recognition Letters, p. 52-60, 2019

• DOI for PDNet: Semantic segmentation integrated with a primal-dual network for document binarization
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Learning Socially Appropriate Robot Approaching Behavior Toward Groups using Deep Reinforcement Learning

Gao, Alex Yuan; Yang, Fangkai; Frisk, Martin; Hernandez, Daniel et al.

Part of 2019 28th IEEE International Conference On Robot And Human Interactive Communication (RO-MAN), 2019

• DOI for Learning Socially Appropriate Robot Approaching Behavior Toward Groups using Deep Reinforcement Learning

Stochastic Distance Transform

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Discrete Geometry for Computer Imagery, p. 75-86, 2019

• DOI for Stochastic Distance Transform

Region-by-region analysis of PET, MRI, and histology in en bloc-resected oligodendrogliomas reveals intra-tumoral heterogeneity

Roodakker, Kenney Roy; Alhuseinalkhudhur, Ali; Al-Jaff, Mohammed; Georganaki, Maria et al.

Part of European Journal of Nuclear Medicine and Molecular Imaging, p. 569-579, 2019

• DOI for Region-by-region analysis of PET, MRI, and histology in en bloc-resected oligodendrogliomas reveals intra-tumoral heterogeneity

Distance Transform Based on Weight Sequences

Nagy, Benedek; Strand, Robin; Normand, Nicolas

Part of DGCI 2019: Discrete Geometry for Computer Imagery, p. 62-74, 2019

• DOI for Distance Transform Based on Weight Sequences

CNNs on Graphs: A New Pooling Approach and Similarities to Mathematical Morphology

Asplund, Teo; Bengtsson Bernander, Karl; Breznik, Eva

2019

Mathematical Morphology on Irregularly Sampled Data Applied to Segmentation of 3D Point Clouds of Urban Scenes

Asplund, Teo; Serna, Andrés; Marcotegui, Beatriz; Strand, Robin et al.

Part of International Symposium on Mathematical Morphology and Its Applications to Signal and Image Processing, 2019

• DOI for Mathematical Morphology on Irregularly Sampled Data Applied to Segmentation of 3D Point Clouds of Urban Scenes

Progress in Pattern Recognition, Image Analysis, Computer Vision, and Applications

Nyström, Ingela; Heredia, Yanio Hernández; Núñez, Vladimir Milián

2019

Training-Free and Segmentation-Free Word Spotting using Feature Matching and Query Expansion

Vats, Ekta; Hast, Anders; Fornés, Alicia

Part of Proc. 15th International Conference on Document Analysis and Recognition, 2019

Texture-based oral cancer detection: A performance analysis of deep learning approaches.

Gay, Jo; Harlin, Hugo; Wetzer, Elisabeth; Lindblad, Joakim et al.

Part of 3rd NEUBIAS Conference, 2019

Creating an Atlas over Handwritten Script Signs

Hast, Anders; Mårtensson, Lasse; Vats, Ekta; Heil, Raphaela

Part of Digital Humanities in the Nordic Countries, 2019

Making large collections of handwritten material easily accessible and searchable

Hast, Anders; Cullhed, Per; Vats, Ekta; Abrate, Matteo

Part of Digital Libraries, p. 18-28, 2019

• DOI for Making large collections of handwritten material easily accessible and searchable

In search of the scribe: Letter spotting as a tool for identifying scribes in large handwritten text corpora

Mårtensson, Lasse; Vats, Ekta; Hast, Anders; Fornés, Alicia

Part of Human IT, p. 95-120, 2019

Segmentation of Lung Field in HRCT Images Using U-Net Based Fully Convolutional Networks

Kumar, Abhishek; Agarwala, Sunita; Dhara, Ashis Kumar; Nandi, Debashis et al.

Part of Medical Image Understanding and Analysis, p. 84-93, 2018

• DOI for Segmentation of Lung Field in HRCT Images Using U-Net Based Fully Convolutional Networks

Brush Biopsy For HR-HPV Detection With FTA Card And AI For Cytology Analysis - A Viable Non-invasive Alternative

Runow Stark, Christina; Gustavsson, Inger M.; Gyllensten, Ulf B.; Darai Ramqvist, Eva et al.

Part of EAOM2018, 2018

Interactive segmentation of glioblastoma for post-surgical treatment follow-up

Dhara, Ashis Kumar; Arvids, Erik; Fahlström, Markus; Wikström, Johan et al.

Part of 2018 24th International Conference on Pattern Recognition (ICPR), p. 1199-1204, 2018

• DOI for Interactive segmentation of glioblastoma for post-surgical treatment follow-up
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Denoising of Short Exposure Transmission Electron Microscopy Images using CNN

Gupta, Anindya; Suveer, Amit; Bajic, Buda; Pepic, Ivana et al.

Part of Swedish Symposium on Image Analysis, 2018

Whole Slide Image Registration for the Study of Tumor Heterogeneity

Solorzano, Leslie; Almeida, Gabriela; Mesquita, Bárbara; Martins, Diana et al.

Part of MICCAI 2018 - International Workshop on Ophthalmic Medical Image Analysis, p. 95-102, 2018

• DOI for Whole Slide Image Registration for the Study of Tumor Heterogeneity

Towards automated multiscale imaging and analysis in TEM: Glomeruli detection by fusion of CNN and LBP maps

Wetzer, Elisabeth; Lindblad, Joakim; Sintorn, Ida-Maria; Hultenby, Kjell et al.

Part of Swedish Symposium on Deep Learning, 2018

An Objective Scoring Framework for Histology Slide Image Mosaics Applicable for the Reliable Benchmarking of Image Quality Assessment Algorithms

Totu, Tiberiu; Buga, Roxana; Dumitru, Adrian; Costache, Mariana et al.

Part of IEEE Access, p. 53080-53091, 2018

• DOI for An Objective Scoring Framework for Histology Slide Image Mosaics Applicable for the Reliable Benchmarking of Image Quality Assessment Algorithms

SoftCut: A Virtual Planning Tool for Soft Tissue Resection on CT Images

Blache, Ludovic; Nysjö, Fredrik; Malmberg, Filip; Thor, Andreas et al.

Part of Medical Image Understanding and Analysis, p. 299-310, 2018

• DOI for SoftCut: A Virtual Planning Tool for Soft Tissue Resection on CT Images

Localization of lung fields in HRCT images using a deep convolution neural network

Kumar, Abhishek; Agarwala, Sunita; Dhara, Ashis Kumar; Mukhopadhyay, Sudipta et al.

Part of Medical Imaging 2018, 2018

• DOI for Localization of lung fields in HRCT images using a deep convolution neural network

Comparison analysis of orbital shape and volume in unilateral fractured orbits

Nilsson, Johanna; Nysjö, Johan; Carlsson, Anders-Petter; Thor, Andreas

Part of Journal of Cranio-Maxillofacial Surgery, p. 381-387, 2018

• DOI for Comparison analysis of orbital shape and volume in unilateral fractured orbits

Minimal annotation training for segmentation of microscopy images

Matuszewski, Damian J.; Sintorn, Ida-Maria

Part of Proc. 15th International Symposium on Biomedical Imaging, p. 387-390, 2018

• DOI for Minimal annotation training for segmentation of microscopy images

Denoising of short exposure transmission electron microscopy images for ultrastructural enhancement

Bajic, Buda; Suveer, Amit; Gupta, Anindya; Pepic, Ivana et al.

Part of Proc. 15th International Symposium on Biomedical Imaging, p. 921-925, 2018

• DOI for Denoising of short exposure transmission electron microscopy images for ultrastructural enhancement

Automatic detection of multisize pulmonary nodules in CT images: Large-scale validation of the false-positive reduction step

Gupta, Anindya; Saar, Tonis; Martens, Olev; Le Moullec, Yannick

Part of Medical physics (Lancaster), p. 1135-1149, 2018

• DOI for Automatic detection of multisize pulmonary nodules in CT images: Large-scale validation of the false-positive reduction step

Detection of Malignancy-Associated Changes Due to Precancerous and Oral Cancer Lesions: A Pilot Study Using Deep Learning

Bengtsson, Ewert; Wieslander, Håkan; Forslid, Gustav; Wählby, Carolina et al.

Part of CYTO2018, 2018

Multiplexed fluorescence microscopy reveals heterogeneity among stromal cells in mouse bone marrow sections

Holzwarth, Karolin; Köhler, Ralf; Philipsen, Lars; Tokoyoda, Koji et al.

Part of Cytometry Part A, p. 876-888, 2018

• DOI for Multiplexed fluorescence microscopy reveals heterogeneity among stromal cells in mouse bone marrow sections

Finish line distinctness and accuracy in 7 intraoral scanners versus conventional impression: an in vitro descriptive comparison

Nedelcu, Robert; Olsson, Pontus; Nyström, Ingela; Thor, Andreas

Part of BMC Oral Health, 2018

• DOI for Finish line distinctness and accuracy in 7 intraoral scanners versus conventional impression: an in vitro descriptive comparison

Quantitative image analysis of protein expression and colocalisation in skin sections

Zhang, Hanqian; Ericsson, Maja; Virtanen, Marie; Weström, Simone et al.

Part of Experimental dermatology, p. 196-199, 2018

• DOI for Quantitative image analysis of protein expression and colocalisation in skin sections

Visual GISwaps: an interactive visualization framework for geospatial decision making

Milutinovic, Goran; Seipel, Stefan

Part of Proc. 13th International Joint Conference on Computer Vision, Imaging and Computer Graphics Theory and Applications, p. 236-243, 2018

• DOI for Visual GISwaps: an interactive visualization framework for geospatial decision making

Image-Based Detection of Patient-Specific Drug-Induced Cell-Cycle Effects in Glioblastoma

Matuszewski, Damian J.; Wählby, Carolina; Krona, Cecilia; Nelander, Sven et al.

Part of SLAS Discovery, p. 1030-1039, 2018

• DOI for Image-Based Detection of Patient-Specific Drug-Induced Cell-Cycle Effects in Glioblastoma

Distance Between Vector-valued Images based on Intersection Decomposition with Applications in Object Detection

Öfverstedt, Johan; Sladoje, Natasa; Lindblad, Joakim

Part of Swedish Symposium on Image Analysis, 2018

Extracting script features from a large corpus of handwritten documents

Vats, Ekta; Hast, Anders; Mårtensson, Lasse

Part of Digital Humanities in the Nordic Countries, 2018

A fast Fourier based feature descriptor and a cascade nearest neighbour search with an efficient matching pipeline for mosaicing of microscopy images

Hast, Anders; Sablina, Victoria A.; Sintorn, Ida-Maria; Kylberg, Gustaf

Part of Pattern Recognition and Image Analysis, p. 261-272, 2018

• DOI for A fast Fourier based feature descriptor and a cascade nearest neighbour search with an efficient matching pipeline for mosaicing of microscopy images

The Scarcity of Universal Colour Names

Borgefors, Gunilla

Part of Proceedings of 7th International Conference on Pattern Recognition Applications and Methods (ICPRAM 2018), p. 496-502, 2018

• DOI for The Scarcity of Universal Colour Names

Word Spotting in Historical Handwritten Manuscripts using Capsule Networks

Heil, Raphaela; Vats, Ekta; Hast, Anders

2018

Exploring the Applicability of Capsule Networks for WordSpotting in Historical Handwritten Manuscripts

Heil, Raphaela; Vats, Ekta; Hast, Anders

2018

GISwaps: A new method for decision making in continuous choice models based on even swaps

Milutinovic, Goran; Ahonen-Jonnarth, Ulla; Seipel, Stefan

Part of International Journal of Decision Support System Technology, p. 57-78, 2018

• DOI for GISwaps: A new method for decision making in continuous choice models based on even swaps
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BIM and 3D property visualisation

Andrée, Martin; Paasch, Jesper M.; Paulsson, Jenny; Seipel, Stefan

Part of Proc. FIG Congress 2018, 2018

Radial line Fourier descriptor for historical handwritten text representation

Hast, Anders; Vats, Ekta

Part of Proc. 26th International Conference on Computer Graphics, 2018

When Can lp-norm Objective Functions Be Minimized via Graph Cuts?

Malmberg, Filip; Strand, Robin

Part of Combinatorial Image Analysis, p. 112-117, 2018

• DOI for When Can lp-norm Objective Functions Be Minimized via Graph Cuts?

Learning surrogate models of document image quality metrics for automated document image processing

Singh, Prashant; Vats, Ekta; Hast, Anders

Part of Proc. 13th IAPR International Workshop on Document Analysis Systems, p. 67-72, 2018

• DOI for Learning surrogate models of document image quality metrics for automated document image processing

An intelligent user interface for efficient semi-automatic transcription of historical handwritten documents

Hast, Anders; Vats, Ekta

Part of Proc. 23rd International Conference on Intelligent User Interfaces Companion, 2018

• DOI for An intelligent user interface for efficient semi-automatic transcription of historical handwritten documents

The Effect of DMPA Use on the Human Cervical Epithelium: Mechanisms Revealed by Image Analysis

Edfeldt, Gabriella; Lajoie, Julie; Röhl, Maria; Omollo, Kenneth et al.

Part of AIDS Research and Human Retroviruses, p. 310-310, 2018

TexT – Text extractor tool for handwritten document transcription and annotation

Hast, Anders; Cullhed, Per; Vats, Ekta

Part of Digital Libraries and Multimedia Archives, p. 81-92, 2018

• DOI for TexT – Text extractor tool for handwritten document transcription and annotation

Human Immunodeficiency Virus-Infected Women Have High Numbers of CD103^-CD8⁺ T Cells Residing Close to the Basal Membrane of the Ectocervical Epithelium

Gibbs, Anna; Buggert, Marcus; Edfeldt, Gabriella; Ranefall, Petter et al.

Part of Journal of Infectious Diseases, p. 453-465, 2018

• DOI for Human Immunodeficiency Virus-Infected Women Have High Numbers of CD103^-CD8⁺ T Cells Residing Close to the Basal Membrane of the Ectocervical Epithelium

Radial line Fourier descriptor for historical handwritten text representation

Hast, Anders; Vats, Ekta

Part of Journal of WSCG, p. 31-40, 2018

• DOI for Radial line Fourier descriptor for historical handwritten text representation

Robots as companions in feelings and discussions

Asai, Ryoko; Kavathatzopoulos, Iordanis

Part of Retfærdighed – Justice, Robophilosophy, p. 42-42, 2017

Differential neuroprotective effects of interleukin-1 receptor antagonist on spinal cord neurons after excitotoxic injury

Schizas, Nikos; Perry, Sharn; Andersson, Brittmarie; Wählby, Carolina et al.

Part of Neuroimmunomodulation, p. 220-230, 2017

• DOI for Differential neuroprotective effects of interleukin-1 receptor antagonist on spinal cord neurons after excitotoxic injury

Bridging Histology and Bioinformatics: Computational analysis of spatially resolved transcriptomics

Mignardi, Marco; Ishaq, Omer; Qian, Xiaoyan; Wählby, Carolina

Part of Proceedings of the IEEE, p. 530-541, 2017

• DOI for Bridging Histology and Bioinformatics: Computational analysis of spatially resolved transcriptomics

Automated segmentation of lung field in HRCT images using active shape model

Agarwala, Sunita; Nandi, Debashis; Kumar, Abhishek; Dhara, Ashis Kumar et al.

Part of Proc. 37th Region 10 Conference, p. 2516-2520, 2017

• DOI for Automated segmentation of lung field in HRCT images using active shape model

Further analysis of clinical feasibility of OCT-based glaucoma diagnosis with Pigment epithelium central limit–Inner limit of the retina Minimal Distance (PIMD)

Söderberg, Per G.; Malmberg, Filip; Sandberg Melin, Camilla

Part of Ophthalmic Technologies XXVII, 2017

• DOI for Further analysis of clinical feasibility of OCT-based glaucoma diagnosis with Pigment epithelium central limit–Inner limit of the retina Minimal Distance (PIMD)

Hormonal contraceptive use affects HIV susceptibility: mechanisms revealed by image analysis

Edfeldt, Gabriella; Lajoie, Julie; Röhl, Maria; Tjernlund, Annelie et al.

Part of Scandinavian Journal of Immunology, p. 281-281, 2017

• DOI for Hormonal contraceptive use affects HIV susceptibility: mechanisms revealed by image analysis

Enhancement of cilia sub-structures by multiple instance registration and super-resolution reconstruction

Suveer, Amit; Sladoje, Nataša; Lindblad, Joakim; Dragomir, Anca et al.

Part of Image Analysis, p. 362-374, 2017

• DOI for Enhancement of cilia sub-structures by multiple instance registration and super-resolution reconstruction

Decoding gene expression in 2D and 3D

Bombrun, Maxime; Ranefall, Petter; Lindblad, Joakim; Allalou, Amin et al.

Part of Image Analysis, p. 257-268, 2017

• DOI for Decoding gene expression in 2D and 3D
• Download full text (pdf) of Decoding gene expression in 2D and 3D

Quantitative high-content/high-throughput microscopy analysis of lipid droplets in subject-specific adipogenesis models

Bombrun, Maxime; Gao, Hui; Ranefall, Petter; Mejhert, Niklas et al.

Part of Cytometry Part A, p. 1068-1077, 2017

• DOI for Quantitative high-content/high-throughput microscopy analysis of lipid droplets in subject-specific adipogenesis models

Using anti-aliased signed distance fields for generating surgical guides and plates from CT images

Nysjö, Fredrik; Olsson, Pontus; Malmberg, Filip; Carlbom, Ingrid B. et al.

Part of Journal of WSCG, p. 11-20, 2017

• Download full text (pdf) of Using anti-aliased signed distance fields for generating surgical guides and plates from CT images

False positive reduction of cilia detected in low resolution TEM images using a convolutional neural network

Gupta, Anindya; Suveer, Amit; Lindblad, Joakim; Dragomir, Anca et al.

Part of Swedish Symposium on Image Analysis, 2017

• Download full text (pdf) of False positive reduction of cilia detected in low resolution TEM images using a convolutional neural network

Cilia ultrastructural visibility enhancement by multiple instance registration and super-resolution reconstruction

Suveer, Amit; Sladoje, Natasa; Lindblad, Joakim; Dragomir, Anca et al.

Part of Swedish Symposium on Image Analysis, 2017

Deep convolutional neural networks for detecting cellular changes due to malignancy

Wieslander, Håkan; Forslid, Gustav; Bengtsson, Ewert; Wählby, Carolina et al.

Part of Proc. 16th International Conference on Computer Vision Workshops, p. 82-89, 2017

• DOI for Deep convolutional neural networks for detecting cellular changes due to malignancy

Spheroid segmentation using multiscale deep adversarial networks

Kecheril Sadanandan, Sajith; Karlsson, Johan; Wählby, Carolina

Part of IEEE International Conference on Computer Vision, 2017

• DOI for Spheroid segmentation using multiscale deep adversarial networks

Automated training of deep convolutional neural networks for cell segmentation

Kecheril Sadanandan, Sajith; Ranefall, Petter; Le Guyader, Sylvie; Wählby, Carolina

Part of Scientific Reports, 2017

• DOI for Automated training of deep convolutional neural networks for cell segmentation
• Download full text (pdf) of Automated training of deep convolutional neural networks for cell segmentation

Objective automated quantification of fluorescence signal in histological sections of rat lens

Talebizadeh, Nooshin; Zhou Hagström, Nanna; Yu, Zhaohua; Kronschläger, Martin et al.

Part of Cytometry Part A, p. 815-821, 2017

• DOI for Objective automated quantification of fluorescence signal in histological sections of rat lens

Osteochondrosis, Synovial Fossae, and Articular Indentations in the Talus and Distal Tibia of Growing Domestic Pigs and Wild Boars

Etterlin, P. E.; Ekman, S.; Strand, Robin; Olstad, K. et al.

Part of Veterinary pathology, p. 445-456, 2017

• DOI for Osteochondrosis, Synovial Fossae, and Articular Indentations in the Talus and Distal Tibia of Growing Domestic Pigs and Wild Boars

Automated deep-phenotyping of the vertebrate brain

Allalou, Amin; Wu, Yuelong; Ghannad-Rezaie, Mostafa; Eimon, Peter M. et al.

Part of eLIFE, 2017

• DOI for Automated deep-phenotyping of the vertebrate brain

Improved centerline tree detection of diseased peripheral arteries with a cascading algorithm for vascular segmentation

Lidayová, Kristína; Frimmel, Hans; Bengtsson, Ewert; Smedby, Örjan

Part of Journal of Medical Imaging, 2017

• DOI for Improved centerline tree detection of diseased peripheral arteries with a cascading algorithm for vascular segmentation

Classification of cross-sections for vascular skeleton extraction using convolutional neural networks

Lidayová, Kristína; Gupta, Anindya; Frimmel, Hans; Sintorn, Ida-Maria et al.

Part of Medical Image Understanding and Analysis, p. 182-194, 2017

• DOI for Classification of cross-sections for vascular skeleton extraction using convolutional neural networks