diff --git a/docs/_data/publications.yml b/docs/_data/publications.yml index 76cdd8b..5ccfebb 100644 --- a/docs/_data/publications.yml +++ b/docs/_data/publications.yml @@ -1,3 +1,17 @@ +- title: "vOARiability: Interobserver and intermodality variability analysis in OAR\ + \ contouring from head and neck CT and MR images" + author: "G Podobnik, B Ibragimov, P Peterlin, P Strojan, T Vrtovec" + year: 2024 + journal: "Medical Physics" +- title: "A systematic comparison between FEBio and PolyFEM for biomechanical systems" + author: "L Martin, P Jain, Z Ferguson, T Gholamalizadeh, F Moshfeghifar, ..." + year: 2024 + journal: "Computer Methods and Programs in Biomedicine 244, 107938" +- title: "Neuroanatomical dimensions in medication-free individuals with major depressive\ + \ disorder and treatment response to SSRI antidepressant medications or placebo" + author: "CHY Fu, M Antoniades, G Erus, JA Garcia, Y Fan, D Arnone, SR Arnott, ..." + year: 2024 + journal: "Nature Mental Health, 1-13" - title: "Multiscale and multiresolution analysis" author: "J Sporring" year: 2024 @@ -6,166 +20,234 @@ author: "PA Yushkevich, M Zhang, J Sporring" year: 2024 journal: "Medical Image Analysis, 331-354" -- title: "Prediction of brain age using structural magnetic resonance imaging: A comparison\ - \ of accuracy and test-retest reliability of publicly available software packages" - author: "RP Dörfel, JM Arenas-Gomez, PM Fisher, M Ganz, GM Knudsen, ..." +- title: "Method and system of global position prediction for imu motion capture" + author: "P Schreiner, K Erleben, S Darkner" year: 2023 - journal: "BioRxiv.01. 26.525514" -- title: "HaN‐Seg: The head and neck organ‐at‐risk CT and MR segmentation dataset" - author: "G Podobnik, P Strojan, P Peterlin, B Ibragimov, T Vrtovec" + journal: "US Patent App. 17/892,009" +- title: "Refractive Pose Refinement: Generalising the Geometric Relation between\ + \ Camera and Refractive Interface" + author: "X Hu, F Lauze, KS Pedersen" year: 2023 - journal: "Medical physics 50 (3), 1917-1927" -- title: "Collision-constrained deformable image registration framework for discontinuity\ - \ management" - author: "T Alscher, K Erleben, S Darkner" + journal: "International Journal of Computer Vision 131 (6), 1448-1476" +- title: "10 years of reproducibility in biomedical research: how can we achieve generalizability\ + \ and fairness?" + author: "AS Wagner, C Maumet, M Ganz, CG van Praag" year: 2023 - journal: "Plos one 18 (8), e0290243" -- title: "Young glial progenitor cells competitively replace aged and diseased human\ - \ glia in the adult chimeric mouse brain" - author: "R Vieira, JN Mariani, NPT Huynh, HJT Stephensen, R Solly, A Tate, ..." + journal: "20th IEEE International Symposium on Biomedical Imaging (ISBI 2023)" +- title: "Assignment Theory-Augmented Neural Network for Dental Arch Labeling" + author: "T Dascalu, B Ibragimov" year: 2023 - journal: "Nature Biotechnology, 1-12" -- title: "Neuroanatomical dimensions in medication-free individuals with major depressive\ - \ disorder and treatment response to SSRI antidepressant medications or placebo" - author: "CHY Fu, M Antoniades, G Erus, JA Garcia, Y Fan, D Arnone, SR Arnott, ..." + journal: "International Conference on Medical Image Computing and Computer-Assisted\ + \ …" +- title: "3D mitochondrial ultrastructure using volume electron microscopy" + author: "C Wang, L Østergaard, S Hasselholt, J Sporring" year: 2023 - journal: "Nature Mental Health" -- title: "Morphology on categorical distributions" - author: "SN Ørting, HJT Stephensen, J Sporring" + journal: "" +- title: "Performance and Agreement When Annotating Chest X-ray Text Reports—A Preliminary\ + \ Step in the Development of a Deep Learning-Based Prioritization and Detection\ + \ System" + author: "D Li, LM Pehrson, R Bonnevie, M Fraccaro, J Thrane, L Tøttrup, ..." year: 2023 - journal: "Journal of Mathematical Imaging and Vision, 1-13" -- title: "Test-Time Augmentation Towards Improved Cross-Center PET/CT Segmentations\ - \ by the Swin UNETR" - author: "F Yousefirizi, S Amiri, B Ibragimov, C Gowdy, C Uribe, A Rahmim" + journal: "Diagnostics 13 (6), 1070" +- title: "Differentiable Depth for Real2Sim Calibration of Soft Body Simulations" + author: "K Arnavaz, MK Nielsen, PG Kry, M Macklin, K Erleben" year: 2023 - journal: "2023 IEEE Nuclear Science Symposium, Medical Imaging Conference and …" -- title: "Deep phenotyping towards precision psychiatry of first-episode depression—\ - the Brain Drugs-Depression cohort" - author: "KHR Jensen, VH Dam, M Ganz, PMD Fisher, CT Ip, A Sankar, ..." + journal: "Computer Graphics Forum 42 (1), 277-289" +- title: "Alignment techniques for percutaneous access" + author: "E Ayvali, B Ibragimov, S Plewe, JZ Bone, M Drahos, Y Malinin" year: 2023 - journal: "BMC psychiatry 23 (1), 151" -- title: "Three-dimensional model reconstruction" - author: "E Ayvali, B Ibragimov" + journal: "US Patent App. 18/321,571" +- title: "U-Sleep: Automatic Clinical Sleep Staging" + author: "PJ Jennum, M Perslev, C Igel, S Darkner" year: 2023 - journal: "US Patent App. 18/067,698" -- title: "Deep Learning-Assisted Localisation of Nanoparticles in synthetically generated\ - \ two-photon microscopy images" - author: "R Netterstrøm, N Kutuzov, S Darkner, MJ Pallesen, MJ Lauritzen, ..." + journal: "" +- title: "Selective MRI reacquisition to extend the working range of retrospective\ + \ motion correction" + author: "M Laustsen, J Slipsager, T Gaaß, A Van der Kouwe, M Ganz, LG Hanson" year: 2023 - journal: "arXiv preprint arXiv:2303.16903" -- title: "Assignment Theory-Augmented Neural Network for Dental Arch Labeling" - author: "T Dascalu, B Ibragimov" + journal: "2023 ISMRM & SMRT Annual Meeting & Exhibition" +- title: "Dance style transfer with cross-modal transformer" + author: "W Yin, H Yin, K Baraka, D Kragic, M Björkman" year: 2023 - journal: "International Conference on Medical Image Computing and Computer-Assisted\ + journal: "Proceedings of the IEEE/CVF Winter Conference on Applications of Computer\ \ …" -- title: "3DTeethSeg'22: 3D Teeth Scan Segmentation and Labeling Challenge" - author: "A Ben-Hamadou, O Smaoui, A Rekik, S Pujades, E Boyer, H Lim, M Kim, ..." +- title: "cRedAnno+: Annotation Exploitation In Self-Explanatory Lung Nodule Diagnosis" + author: "J Lu, C Yin, K Erleben, MB Nielsen, S Darkner" year: 2023 - journal: "arXiv preprint arXiv:2305.18277" -- title: "Cross-Modal Conceptualization in Bottleneck Models" - author: "D Alukaev, S Kiselev, I Pershin, B Ibragimov, V Ivanov, A Kornaev, I Titov" + journal: "2023 IEEE 20th International Symposium on Biomedical Imaging (ISBI), 1-5" +- title: "Young glial progenitor cells competitively replace aged and diseased human\ + \ glia in the adult chimeric mouse brain" + author: "R Vieira, JN Mariani, NPT Huynh, HJT Stephensen, R Solly, A Tate, ..." year: 2023 - journal: "arXiv preprint arXiv:2310.14805" + journal: "Nature Biotechnology, 1-12" +- title: "Prediction of pulp exposure before caries excavation using artificial intelligence:\ + \ Deep learning-based image data versus standard dental radiographs" + author: "S Ramezanzade, TL Dascalu, B Ibragimov, A Bakhshandeh, L Bjørndal" + year: 2023 + journal: "Journal of Dentistry 138, 104732" - title: "Localise to segment: crop to improve organ at risk segmentation accuracy" author: "AG Smith, D Kutnár, IR Vogelius, S Darkner, J Petersen" year: 2023 journal: "arXiv preprint arXiv:2304.04606" -- title: "Postprocessing of MRIs Using FreeSurfer in Epilepsy Surgery Patients Provides\ - \ an Excellent Imaging Marker of Hippocampal Sclerosis but Fails to Separate Subtypes" - author: "AG Kloster, G Opheim, KÅ Alfstad, KB Larsen, P Niehusmann, E Holm, ..." +- title: "Cross-Modal Conceptualization in Bottleneck Models" + author: "D Alukaev, S Kiselev, I Pershin, B Ibragimov, V Ivanov, A Kornaev, I Titov" year: 2023 - journal: "Acta Neurologica Scandinavica 2023" -- title: "Improving Deep Learning on Hyperspectral Images of Grain by Incorporating\ - \ Domain Knowledge from Chemometrics" - author: "OCG Engstrøm, ES Dreier, BM Jespersen, KS Pedersen" + journal: "arXiv preprint arXiv:2310.14805" +- title: "Astrocytic engagement of the corticostriatal synaptic cleft is disrupted\ + \ in a mouse model of Huntington’s disease" + author: "CB Villanueva, HJT Stephensen, R Mokso, A Benraiss, J Sporring, ..." year: 2023 - journal: "Proceedings of the IEEE/CVF International Conference on Computer Vision,\ - \ 485-494" -- title: "A systematic comparison between FEBio and PolyFEM for biomechanical systems" - author: "L Martin, P Jain, Z Ferguson, T Gholamalizadeh, F Moshfeghifar, ..." + journal: "Proceedings of the National Academy of Sciences 120 (24), e2210719120" +- title: "A hybrid approach to full-scale reconstruction of renal arterial network" + author: "P Xu, NH Holstein-Rathlou, SB Søgaard, C Gundlach, CM Sørensen, ..." year: 2023 - journal: "Computer Methods and Programs in Biomedicine, 107938" -- title: "Alignment techniques for percutaneous access" - author: "E Ayvali, B Ibragimov, S Plewe, JZ Bone, M Drahos, Y Malinin" + journal: "Scientific Reports 13 (1), 7569" +- title: "Deep learning for detection of clinical operations in robot-assisted percutaneous\ + \ renal access" + author: "B Ibragimov, J Zhen, E Ayvali" year: 2023 - journal: "US Patent App. 18/321,571" -- title: "An Automatic DWI/FLAIR Mismatch Assessment of Stroke Patients" - author: "J Johansen, CM Offersen, JF Carlsen, S Ingala, AE Hansen, MB Nielsen, ..." + journal: "IEEE Access" +- title: "AI-based dimensional neuroimaging system for characterizing heterogeneity\ + \ in brain structure and function in major depressive disorder: COORDINATE-MDD\ + \ consortium design and …" + author: "CHY Fu, G Erus, Y Fan, M Antoniades, D Arnone, SR Arnott, T Chen, ..." year: 2023 - journal: "Diagnostics 14 (1), 69" -- title: "Dance style transfer with cross-modal transformer" - author: "W Yin, H Yin, K Baraka, D Kragic, M Björkman" + journal: "BMC psychiatry 23 (1), 59" +- title: "Three-dimensional model reconstruction" + author: "E Ayvali, B Ibragimov" year: 2023 - journal: "Proceedings of the IEEE/CVF Winter Conference on Applications of Computer\ - \ …" -- title: "Three-dimensional instrument pose estimation" - author: "E Ayvali, B Ibragimov, J Li" + journal: "US Patent App. 18/067,698" +- title: "Bias in context: What to do when complete bias removal is not an option" + author: "S Holm, E Petersen, M Ganz, A Feragen" year: 2023 - journal: "US Patent App. 18/067,688" + journal: "Proceedings of the National Academy of Sciences 120 (23), e2304710120" +- title: "Data sharing in neuroimaging: experiences from the BIDS project" + author: "M Ganz, RA Poldrack" + year: 2023 + journal: "Nature Reviews Neuroscience 24 (12), 729-730" - title: "Multimodal dance style transfer" author: "W Yin, H Yin, K Baraka, D Kragic, M Björkman" year: 2023 journal: "Machine Vision and Applications 34 (4), 1-14" -- title: "The art, science, and secrets of scanning young children" - author: "MN Spann, JL Wisnowski, B Ahtam, W Gao, H Huang, MB Nebel, ..." +- title: "Postprocessing of MRIs Using FreeSurfer in Epilepsy Surgery Patients Provides\ + \ an Excellent Imaging Marker of Hippocampal Sclerosis but Fails to Separate Subtypes" + author: "AG Kloster, G Opheim, KÅ Alfstad, KB Larsen, P Niehusmann, E Holm, ..." year: 2023 - journal: "Biological psychiatry 93 (10), 858-860" -- title: "On (assessing) the fairness of risk score models" - author: "E Petersen, M Ganz, S Holm, A Feragen" + journal: "Acta Neurologica Scandinavica 2023" +- title: "A Practical Approach to Estimating the Effect of Synchrotron Radiation on\ + \ Sperm Motility and Viability" + author: "MB Lindhøj, A Bonnin, K Almstrup, TB Dyrby, R Mokso, J Sporring" year: 2023 - journal: "Proceedings of the 2023 ACM Conference on Fairness, Accountability, and\ - \ …" -- title: "Association between the loudness dependence of auditory evoked potential,\ - \ serotonergic neurotransmission and treatment outcome in patients with depression" - author: "CT Ip, M Ganz, B Ozenne, S Olbrich, V Beliveau, VH Dam, ..." + journal: "bioRxiv.06. 08.544169" +- title: "A Sequential Framework for Detection and Classification of Abnormal Teeth\ + \ in Panoramic X-rays" + author: "T Dascalu, S Ramezanzade, A Bakhshandeh, L Bjorndal, B Ibragimov" year: 2023 - journal: "European Neuropsychopharmacology 70, 32-44" -- title: "Music-and Lyrics-driven Dance Synthesis" - author: "W Yin, Q Yao, Y Yu, H Yin, D Kragic, M Björkman" + journal: "arXiv preprint arXiv:2309.00027" +- title: "Scalable Motion Style Transfer with Constrained Diffusion Generation" + author: "W Yin, Y Yu, H Yin, D Kragic, M Björkman" year: 2023 - journal: "arXiv preprint arXiv:2310.00455" + journal: "arXiv preprint arXiv:2312.07311" +- title: "Prediction of brain age using structural magnetic resonance imaging: A comparison\ + \ of accuracy and test-retest reliability of publicly available software packages" + author: "RP Dörfel, JM Arenas-Gomez, PM Fisher, M Ganz, GM Knudsen, ..." + year: 2023 + journal: "BioRxiv.01. 26.525514" +- title: "Collision-constrained deformable image registration framework for discontinuity\ + \ management" + author: "T Alscher, K Erleben, S Darkner" + year: 2023 + journal: "Plos one 18 (8), e0290243" +- title: "Deep-learning-based segmentation of individual tooth and bone with periodontal\ + \ ligament interface details for simulation purposes" + author: "P Xu, T Gholamalizadeh, F Moshfeghifar, S Darkner, K Erleben" + year: 2023 + journal: "IEEE Access" +- title: "Improving Deep Learning on Hyperspectral Images of Grain by Incorporating\ + \ Domain Knowledge from Chemometrics" + author: "OCG Engstrøm, ES Dreier, BM Jespersen, KS Pedersen" + year: 2023 + journal: "Proceedings of the IEEE/CVF International Conference on Computer Vision,\ + \ 485-494" - title: "Two-dimensional image registration" author: "E Ayvali, B Ibragimov" year: 2023 journal: "US Patent App. 18/067,691" -- title: "cRedAnno+: Annotation Exploitation In Self-Explanatory Lung Nodule Diagnosis" - author: "J Lu, C Yin, K Erleben, MB Nielsen, S Darkner" +- title: "Learning Geometric Representations of Objects via Interaction" + author: "A Reichlin, GL Marchetti, H Yin, A Varava, D Kragic" year: 2023 - journal: "2023 IEEE 20th International Symposium on Biomedical Imaging (ISBI), 1-5" -- title: "Selective MRI reacquisition to extend the working range of retrospective\ - \ motion correction" - author: "M Laustsen, J Slipsager, T Gaaß, A Van der Kouwe, M Ganz, LG Hanson" + journal: "Joint European Conference on Machine Learning and Knowledge Discovery\ + \ in …" +- title: "On (assessing) the fairness of risk score models" + author: "E Petersen, M Ganz, S Holm, A Feragen" year: 2023 - journal: "2023 ISMRM & SMRT Annual Meeting & Exhibition" + journal: "Proceedings of the 2023 ACM Conference on Fairness, Accountability, and\ + \ …" - title: "Changes in Radiologists’ Gaze Patterns Against Lung X-rays with Different\ \ Abnormalities: a Randomized Experiment" author: "I Pershin, T Mustafaev, D Ibragimova, B Ibragimov" year: 2023 journal: "Journal of Digital Imaging 36 (3), 767-775" -- title: "Multimodal CT and MR Segmentation of Head and Neck Organs-at-Risk" - author: "G Podobnik, P Strojan, P Peterlin, B Ibragimov, T Vrtovec" +- title: "Target anatomical feature localization" + author: "E Ayvali, YE Menglong, B Ibragimov, DB Berman" year: 2023 - journal: "International Conference on Medical Image Computing and Computer-Assisted\ - \ …" -- title: "Bias in context: What to do when complete bias removal is not an option" - author: "S Holm, E Petersen, M Ganz, A Feragen" + journal: "US Patent 11,737,663" +- title: "Three-dimensional instrument pose estimation" + author: "E Ayvali, B Ibragimov, J Li" year: 2023 - journal: "Proceedings of the National Academy of Sciences 120 (23), e2304710120" + journal: "US Patent App. 18/067,688" - title: "Contrastive Learning Approach to Predict Radiologist's Error Based on Gaze\ \ Data" author: "I Pershin, T Mustafaev, B Ibragimov" year: 2023 journal: "2023 IEEE Congress on Evolutionary Computation (CEC), 1-6" -- title: "A Sequential Framework for Detection and Classification of Abnormal Teeth\ - \ in Panoramic X-rays" - author: "T Dascalu, S Ramezanzade, A Bakhshandeh, L Bjorndal, B Ibragimov" +- title: "Check for updates AI-Based Extraction of Radiologists Gaze Patterns Corresponding\ + \ to Lung Regions" + author: "I Pershin¹, B Maksudov, T Mustafaev¹, B Ibragimov" year: 2023 - journal: "arXiv preprint arXiv:2309.00027" + journal: "Intelligent Systems Design and Applications: 22nd International Conference\ + \ …" +- title: "The past, present, and future of the brain imaging data structure (BIDS)" + author: "RA Poldrack, CJ Markiewicz, S Appelhoff, YK Ashar, T Auer, S Baillet, ..." + year: 2023 + journal: "Arxiv" - title: "Are demographically invariant models and representations in medical imaging\ \ fair?" author: "E Petersen, E Ferrante, M Ganz, A Feragen" year: 2023 journal: "arXiv preprint arXiv:2305.01397" +- title: "Why is the winner the best?" + author: "M Eisenmann, A Reinke, V Weru, MD Tizabi, F Isensee, TJ Adler, S Ali, ..." + year: 2023 + journal: "Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern\ + \ …" +- title: "Phase segmentation of a percutaneous medical procedure" + author: "E Ayvali, B Ibragimov" + year: 2023 + journal: "US Patent App. 18/186,124" +- title: "Ultrastructure of mitochondria in 3D from volume electron microscopy" + author: "C Wang, L Østergaard, S Hasselholt, J Sporring" + year: 2023 + journal: "Euromit: International meeting on mitochondrial pathology" +- title: "Iron Oxide Nanoparticles as a Contrast Agent for Synchrotron Imaging of\ + \ Sperm" + author: "MB Lindhøj, SR Cooper, AS Anker, A Bonnin, M Kristensen, K Qvortrup, ..." + year: 2023 + journal: "arXiv preprint arXiv:2309.03908" +- title: "Association between the loudness dependence of auditory evoked potential,\ + \ serotonergic neurotransmission and treatment outcome in patients with depression" + author: "CT Ip, M Ganz, B Ozenne, S Olbrich, V Beliveau, VH Dam, ..." + year: 2023 + journal: "European Neuropsychopharmacology 70, 32-44" +- title: "Multimodal CT and MR segmentation of head and neck organs-at-risk" + author: "G Podobnik, P Strojan, P Peterlin, B Ibragimov, T Vrtovec" + year: 2023 + journal: "International Conference on Medical Image Computing and Computer-Assisted\ + \ …" +- title: "Morphology on categorical distributions" + author: "SN Ørting, HJT Stephensen, J Sporring" + year: 2023 + journal: "Journal of Mathematical Imaging and Vision, 1-13" - title: "Extremely weakly-supervised blood vessel segmentation with physiologically\ \ based synthesis and domain adaptation" author: "P Xu, B Lee, O Sosnovtseva, CM Sørensen, K Erleben, S Darkner" @@ -177,359 +259,285 @@ author: "CE Hoei-Hansen, L Weber, M Johansen, R Fabricius, JK Hansen, ..." year: 2023 journal: "BMC pediatrics 23 (1), 544" -- title: "Astrocytic engagement of the corticostriatal synaptic cleft is disrupted\ - \ in a mouse model of Huntington’s disease" - author: "CB Villanueva, HJT Stephensen, R Mokso, A Benraiss, J Sporring, ..." +- title: "Deep phenotyping towards precision psychiatry of first-episode depression—\ + the Brain Drugs-Depression cohort" + author: "KHR Jensen, VH Dam, M Ganz, PMD Fisher, CT Ip, A Sankar, ..." year: 2023 - journal: "Proceedings of the National Academy of Sciences 120 (24), e2210719120" -- title: "AI-based dimensional neuroimaging system for characterizing heterogeneity\ - \ in brain structure and function in major depressive disorder: COORDINATE-MDD\ - \ consortium design and …" - author: "CHY Fu, G Erus, Y Fan, M Antoniades, D Arnone, SR Arnott, T Chen, ..." + journal: "BMC psychiatry 23 (1), 151" +- title: "Endoscopic anatomical feature tracking" + author: "E Ayvali, YE Menglong, B Ibragimov, DB Berman" year: 2023 - journal: "BMC psychiatry 23 (1), 59" -- title: "Refractive Pose Refinement: Generalising the Geometric Relation between\ - \ Camera and Refractive Interface" - author: "X Hu, F Lauze, KS Pedersen" + journal: "US Patent App. 18/221,333" +- title: "Deep Learning-Assisted Localisation of Nanoparticles in synthetically generated\ + \ two-photon microscopy images" + author: "R Netterstrøm, N Kutuzov, S Darkner, MJ Pallesen, MJ Lauritzen, ..." year: 2023 - journal: "International Journal of Computer Vision 131 (6), 1448-1476" + journal: "arXiv preprint arXiv:2303.16903" +- title: "The path toward equal performance in medical machine learning" + author: "E Petersen, S Holm, M Ganz, A Feragen" + year: 2023 + journal: "Patterns 4 (7)" - title: "SE (3) Group Convolutional Neural Networks and a Study on Group Convolutions\ \ and Equivariance for DWI Segmentation" author: "R Liu, F Lauze, E Bekkers, K Erleben, S Darkner" year: 2023 journal: "" -- title: "Deep learning for detection of clinical operations in robot-assisted percutaneous\ - \ renal access" - author: "B Ibragimov, J Zhen, E Ayvali" - year: 2023 - journal: "IEEE Access" -- title: "Learning Geometric Representations of Objects via Interaction" - author: "A Reichlin, GL Marchetti, H Yin, A Varava, D Kragic" - year: 2023 - journal: "Joint European Conference on Machine Learning and Knowledge Discovery\ - \ in …" -- title: "Endoscopic anatomical feature tracking" - author: "E Ayvali, YE Menglong, B Ibragimov, DB Berman" - year: 2023 - journal: "US Patent App. 18/221,333" -- title: "Data sharing in neuroimaging: experiences from the BIDS project" - author: "M Ganz, RA Poldrack" +- title: "Analyzing Near-Infrared Hyperspectral Imaging for Protein Content Regression\ + \ and Grain Variety Classification Using Bulk References and Varying Grain-to-Background\ + \ Ratios" + author: "OCG Engstrøm, ES Dreier, BM Jespersen, KS Pedersen" year: 2023 - journal: "Nature Reviews Neuroscience, 1-2" -- title: "A Practical Approach to Estimating the Effect of Synchrotron Radiation on\ - \ Sperm Motility and Viability" - author: "MB Lindhøj, A Bonnin, K Almstrup, TB Dyrby, R Mokso, J Sporring" + journal: "arXiv preprint arXiv:2311.04042" +- title: "An Automatic DWI/FLAIR Mismatch Assessment of Stroke Patients" + author: "J Johansen, CM Offersen, JF Carlsen, S Ingala, AE Hansen, MB Nielsen, ..." year: 2023 - journal: "bioRxiv.06. 08.544169" + journal: "Diagnostics 14 (1), 69" - title: "Controllable Motion Synthesis and Reconstruction with Autoregressive Diffusion\ \ Models" author: "W Yin, R Tu, H Yin, D Kragic, H Kjellström, M Björkman" year: 2023 journal: "arXiv preprint arXiv:2304.04681" -- title: "Differentiable Depth for Real2Sim Calibration of Soft Body Simulations" - author: "K Arnavaz, MK Nielsen, PG Kry, M Macklin, K Erleben" - year: 2023 - journal: "Computer Graphics Forum 42 (1), 277-289" -- title: "Deep-learning-based segmentation of individual tooth and bone with periodontal\ - \ ligament interface details for simulation purposes" - author: "P Xu, T Gholamalizadeh, F Moshfeghifar, S Darkner, K Erleben" - year: 2023 - journal: "IEEE Access" -- title: "Scalable Motion Style Transfer with Constrained Diffusion Generation" - author: "W Yin, Y Yu, H Yin, D Kragic, M Björkman" - year: 2023 - journal: "arXiv preprint arXiv:2312.07311" -- title: "A hybrid approach to full-scale reconstruction of renal arterial network" - author: "P Xu, NH Holstein-Rathlou, SB Søgaard, C Gundlach, CM Sørensen, ..." - year: 2023 - journal: "Scientific Reports 13 (1), 7569" -- title: "U-Sleep: Automatic Clinical Sleep Staging" - author: "PJ Jennum, M Perslev, C Igel, S Darkner" - year: 2023 - journal: "" -- title: "Iron Oxide Nanoparticles as a Contrast Agent for Synchrotron Imaging of\ - \ Sperm" - author: "MB Lindhøj, SR Cooper, AS Anker, A Bonnin, M Kristensen, K Qvortrup, ..." - year: 2023 - journal: "arXiv preprint arXiv:2309.03908" -- title: "The path toward equal performance in medical machine learning" - author: "E Petersen, S Holm, M Ganz, A Feragen" - year: 2023 - journal: "Patterns 4 (7)" -- title: "Why is the winner the best?" - author: "M Eisenmann, A Reinke, V Weru, MD Tizabi, F Isensee, TJ Adler, S Ali, ..." - year: 2023 - journal: "Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern\ - \ …" -- title: "Phase segmentation of a percutaneous medical procedure" - author: "E Ayvali, B Ibragimov" - year: 2023 - journal: "US Patent App. 18/186,124" -- title: "10 years of reproducibility in biomedical research: how can we achieve generalizability\ - \ and fairness?" - author: "AS Wagner, C Maumet, M Ganz, CG van Praag" - year: 2023 - journal: "20th IEEE International Symposium on Biomedical Imaging (ISBI 2023)" -- title: "Performance and Agreement When Annotating Chest X-ray Text Reports—A Preliminary\ - \ Step in the Development of a Deep Learning-Based Prioritization and Detection\ - \ System" - author: "D Li, LM Pehrson, R Bonnevie, M Fraccaro, J Thrane, L Tøttrup, ..." - year: 2023 - journal: "Diagnostics 13 (6), 1070" -- title: "Method and system of global position prediction for imu motion capture" - author: "P Schreiner, K Erleben, S Darkner" - year: 2023 - journal: "US Patent App. 17/892,009" -- title: "Target anatomical feature localization" - author: "E Ayvali, YE Menglong, B Ibragimov, DB Berman" - year: 2023 - journal: "US Patent 11,737,663" -- title: "Check for updates AI-Based Extraction of Radiologists Gaze Patterns Corresponding\ - \ to Lung Regions" - author: "I Pershin¹, B Maksudov, T Mustafaev¹, B Ibragimov" +- title: "Test-Time Augmentation Towards Improved Cross-Center PET/CT Segmentations\ + \ by the Swin UNETR" + author: "F Yousefirizi, S Amiri, B Ibragimov, C Gowdy, C Uribe, A Rahmim" year: 2023 - journal: "Intelligent Systems Design and Applications: 22nd International Conference\ - \ …" -- title: "The past, present, and future of the brain imaging data structure (BIDS)" - author: "RA Poldrack, CJ Markiewicz, S Appelhoff, YK Ashar, T Auer, S Baillet, ..." + journal: "2023 IEEE Nuclear Science Symposium, Medical Imaging Conference and …" +- title: "Music-and Lyrics-driven Dance Synthesis" + author: "W Yin, Q Yao, Y Yu, H Yin, D Kragic, M Björkman" year: 2023 - journal: "ArXiv" -- title: "Analyzing Near-Infrared Hyperspectral Imaging for Protein Content Regression\ - \ and Grain Variety Classification Using Bulk References and Varying Grain-to-Background\ - \ Ratios" - author: "OCG Engstrøm, ES Dreier, BM Jespersen, KS Pedersen" + journal: "arXiv preprint arXiv:2310.00455" +- title: "The art, science, and secrets of scanning young children" + author: "MN Spann, JL Wisnowski, B Ahtam, W Gao, H Huang, MB Nebel, ..." year: 2023 - journal: "arXiv preprint arXiv:2311.04042" -- title: "Prediction of pulp exposure before caries excavation using artificial intelligence:\ - \ Deep learning-based image data versus standard dental radiographs" - author: "S Ramezanzade, TL Dascalu, B Ibragimov, A Bakhshandeh, L Bjørndal" + journal: "Biological psychiatry 93 (10), 858-860" +- title: "3DTeethSeg'22: 3D Teeth Scan Segmentation and Labeling Challenge" + author: "A Ben-Hamadou, O Smaoui, A Rekik, S Pujades, E Boyer, H Lim, M Kim, ..." year: 2023 - journal: "Journal of Dentistry 138, 104732" -- title: "An algebra for local histograms" - author: "J Sporring, S Darkner" - year: 2022 - journal: "Frontiers in Computer Science 4, 939563" -- title: "Layer III pyramidal cells in the prefrontal cortex reveal morphological\ - \ changes in subjects with depression, schizophrenia, and suicide" - author: "NY Larsen, N Vihrs, J Møller, J Sporring, X Tan, X Li, G Ji, G Rajkowska,\ - \ ..." + journal: "arXiv preprint arXiv:2305.18277" +- title: "Auto-segmentation of Hip Joints Using MultiPlanar UNet with Transfer Learning" + author: "P Xu, F Moshfeghifar, T Gholamalizadeh, MB Nielsen, K Erleben, ..." year: 2022 - journal: "Translational psychiatry 12 (1), 363" -- title: "Bundle geodesic convolutional neural network for diffusion-weighted imaging\ - \ segmentation" - author: "R Liu, F Lauze, K Erleben, RW Berg, S Darkner" + journal: "Workshop on Medical Image Learning with Limited and Noisy Data, 153-162" +- title: "Back to the manifold: Recovering from out-of-distribution states" + author: "A Reichlin, GL Marchetti, H Yin, A Ghadirzadeh, D Kragic" year: 2022 - journal: "Journal of Medical Imaging 9 (6), 064002-064002" -- title: "Group convolutional neural networks for DWI segmentation" - author: "R Liu, F Lauze, E Bekkers, K Erleben, S Darkner" + journal: "2022 IEEE/RSJ International Conference on Intelligent Robots and Systems\ + \ …" +- title: "Learning Geometric Representations of Interactive Objects" + author: "A Reichlin, GL Marchetti, H Yin, A Varava, D Kragic" year: 2022 - journal: "Geometric Deep Learning in Medical Image Analysis, 96-106" -- title: "Inter-and Intra-Observer Agreement When Using a Diagnostic Labeling Scheme\ - \ for Annotating Findings on Chest X-rays—An Early Step in the Development of\ - \ a Deep Learning-Based …" - author: "D Li, LM Pehrson, L Tøttrup, M Fraccaro, R Bonnevie, J Thrane, ..." + journal: "" +- title: "Leveraging hierarchy in multimodal generative models for effective cross-modality\ + \ inference" + author: "M Vasco, H Yin, FS Melo, A Paiva" year: 2022 - journal: "Diagnostics 12 (12), 3112" -- title: "Embedding Koopman Optimal Control in Robot Policy Learning" - author: "H Yin, MC Welle, D Kragic" + journal: "Neural Networks 146, 238-255" +- title: "Numerical methods for linear complementarity problems in physics-based animation" + author: "S Niebe, K Erleben" year: 2022 - journal: "2022 IEEE/RSJ International Conference on Intelligent Robots and Systems\ - \ …" -- title: "Accuracy and consistency of intensity-based deformable image registration\ - \ in 4DCT for tumor motion estimation in liver radiotherapy planning" - author: "JD Tascón-Vidarte, LB Stick, M Josipovic, S Risum, J Jomier, K Erleben,\ - \ ..." + journal: "Springer Nature" +- title: "Structural and functional changes in a genetic model of amyotrophic lateral\ + \ sclerosis" + author: "S Hasselholt, HJT Stephensen, D Janssen, A Hasselholt, A Dubois, ..." year: 2022 - journal: "Plos one 17 (7), e0271064" + journal: "" +- title: "Bundle geodesic convolutional neural network for diffusion-weighted imaging\ + \ segmentation" + author: "R Liu, F Lauze, K Erleben, RW Berg, S Darkner" + year: 2022 + journal: "Journal of Medical Imaging 9 (6), 064002-064002" - title: "Contact and friction simulation for computer graphics" author: "S Andrews, K Erleben, Z Ferguson" year: 2022 journal: "ACM SIGGRAPH 2022 Courses, 1-172" +- title: "Reconstructing binary signals from local histograms" + author: "J Sporring, S Darkner" + year: 2022 + journal: "Entropy 24 (3), 433" - title: "Biomedical image analysis competitions: The state of current participation\ \ practice" author: "M Eisenmann, A Reinke, V Weru, MD Tizabi, F Isensee, TJ Adler, ..." year: 2022 journal: "arXiv preprint arXiv:2212.08568" -- title: "LibHip: An open-access hip joint model repository suitable for finite element\ - \ method simulation" - author: "F Moshfeghifar, T Gholamalizadeh, Z Ferguson, T Schneider, MB Nielsen,\ - \ ..." +- title: "Rove-Tree-11: The not-so-Wild Rover, A hierarchically structured image dataset\ + \ for deep metric learning research" + author: "R Hunt, KS Pedersen" year: 2022 - journal: "Computer Methods and Programs in Biomedicine 226, 107140" -- title: "Call for Papers Focused Section on Design, Modeling, Learning and Control\ - 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journal: "Neuroimage 264, 119716" -- title: "Consensus-based Normalizing-Flow Control: A Case Study in Learning Dual-Arm\ - \ Coordination" - author: "H Yin, CK Verginis, D Kragic" + journal: "Diagnostics 12 (12), 3112" +- title: "On the Subspace Structure of Gradient-Based Meta-Learning" + author: "G Tegnér, A Reichlin, H Yin, M Björkman, D Kragic" year: 2022 - journal: "2022 IEEE/RSJ International Conference on Intelligent Robots and Systems\ - \ …" -- title: "Enabling visual action planning for object manipulation through latent space\ - \ roadmap" - author: "M Lippi, P Poklukar, MC Welle, A Varava, H Yin, A Marino, D Kragic" + journal: "arXiv preprint arXiv:2207.03804" +- title: "Reducing Annotation Need in Self-explanatory Models for Lung Nodule Diagnosis" + author: "J Lu, C Yin, O Krause, K Erleben, MB Nielsen, S Darkner" year: 2022 - journal: "IEEE Transactions on Robotics 39 (1), 57-75" -- title: "Geometric multimodal contrastive representation learning" - author: "P Poklukar, M Vasco, H Yin, FS Melo, A Paiva, D Kragic" + journal: "International Workshop on Interpretability of Machine Intelligence in\ + \ …" +- title: "LibHip: An open-access hip joint model repository suitable for finite element\ + \ method simulation" + author: "F Moshfeghifar, T Gholamalizadeh, Z Ferguson, T Schneider, MB Nielsen,\ + \ ..." year: 2022 - journal: "International Conference on Machine Learning, 17782-17800" + journal: "Computer Methods and Programs in Biomedicine 226, 107140" - title: "Hyperspectral imaging for classification of bulk grain samples with deep\ \ convolutional neural networks" author: "ES Dreier, KM Sorensen, T Lund-Hansen, BM Jespersen, KS Pedersen" year: 2022 journal: "Journal of Near Infrared Spectroscopy 30 (3), 107-121" -- title: "Leveraging hierarchy in multimodal generative models for effective cross-modality\ - \ inference" - author: "M Vasco, H Yin, FS Melo, A Paiva" - year: 2022 - journal: "Neural Networks 146, 238-255" -- title: "Auto-segmentation of Hip Joints Using MultiPlanar UNet with Transfer Learning" - author: "P Xu, F Moshfeghifar, T Gholamalizadeh, MB Nielsen, K Erleben, ..." - year: 2022 - journal: "Workshop on Medical Image Learning with Limited and Noisy Data, 153-162" - title: "Open-Full-Jaw: An open-access dataset and pipeline for finite element models\ \ of human jaw" author: "T Gholamalizadeh, F Moshfeghifar, Z Ferguson, T Schneider, D Panozzo, ..." year: 2022 journal: "Computer Methods and Programs in Biomedicine 224, 107009" -- title: "Back to the manifold: Recovering from out-of-distribution states" - author: "A Reichlin, GL Marchetti, H Yin, A Ghadirzadeh, D Kragic" - year: 2022 - journal: "2022 IEEE/RSJ International Conference on Intelligent Robots and Systems\ - \ …" -- title: "Rove-Tree-11: The not-so-Wild Rover, A hierarchically structured image dataset\ - \ for deep metric learning research" - author: "R Hunt, KS Pedersen" - year: 2022 - journal: "Proceedings of the Asian Conference on Computer Vision, 2967-2983" -- title: "Reconstructing binary signals from local histograms" - author: "J Sporring, S Darkner" - year: 2022 - journal: "Entropy 24 (3), 433" -- title: "Numerical methods for linear complementarity problems in physics-based animation" - author: "S Niebe, K Erleben" +- title: "Group convolutional neural networks for DWI segmentation" + author: "R Liu, F Lauze, E Bekkers, K Erleben, S Darkner" year: 2022 - journal: "Springer Nature" -- title: "Learning Geometric Representations of Interactive Objects" - author: "A Reichlin, GL Marchetti, H Yin, A Varava, D Kragic" + journal: "Geometric Deep Learning in Medical Image Analysis, 96-106" +- title: "Psilocybin modulation of time-varying functional connectivity is associated\ + \ with plasma psilocin and subjective effects" + author: "AS Olsen, A Lykkebo-Valløe, B Ozenne, MK Madsen, DS Stenbæk, ..." year: 2022 - journal: "" -- title: "Pseudo-label guided image synthesis for semi-supervised covid-19 pneumonia\ - \ infection segmentation" - author: "F Lyu, M Ye, JF Carlsen, K Erleben, S Darkner, PC Yuen" + journal: "Neuroimage 264, 119716" +- title: "Call for Papers Focused Section on Design, Modeling, Learning and Control\ + \ for Bimanual Manipulation Mechatronics" + author: "S Calinon, F Chen, M Li, N Figueroa, H Yin, J Silverio, A Billard" year: 2022 - journal: "IEEE Transactions on Medical Imaging 42 (3), 797-809" + journal: "IEEE-ASME TRANSACTIONS ON MECHATRONICS 27 (3), 1813-1814" - title: "Gradient-Based Transfer Learning" author: "G Tegnér, A Reichlin, H Yin, H Kjellstrom, M Björkman, D Kragic" year: 2022 journal: "" -- title: "On the Subspace Structure of Gradient-Based Meta-Learning" - author: "G Tegnér, A Reichlin, H Yin, M Björkman, D Kragic" +- title: "Accuracy and consistency of intensity-based deformable image registration\ + \ in 4DCT for tumor motion estimation in liver radiotherapy planning" + author: "JD Tascón-Vidarte, LB Stick, M Josipovic, S Risum, J Jomier, K Erleben,\ + \ ..." year: 2022 - journal: "arXiv preprint arXiv:2207.03804" -- title: "Reducing Annotation Need in Self-explanatory Models for Lung Nodule Diagnosis" - author: "J Lu, C Yin, O Krause, K Erleben, MB Nielsen, S Darkner" + journal: "Plos one 17 (7), e0271064" +- title: "Consensus-based Normalizing-Flow Control: A Case Study in Learning Dual-Arm\ + \ Coordination" + author: "H Yin, CK Verginis, D Kragic" year: 2022 - journal: "International Workshop on Interpretability of Machine Intelligence in\ + journal: "2022 IEEE/RSJ International Conference on Intelligent Robots and Systems\ + \ …" +- title: "Embedding Koopman Optimal Control in Robot Policy Learning" + author: "H Yin, MC Welle, D Kragic" + year: 2022 + journal: "2022 IEEE/RSJ International Conference on Intelligent Robots and Systems\ \ …" +- title: "Layer III pyramidal cells in the prefrontal cortex reveal morphological\ + \ changes in subjects with depression, schizophrenia, and suicide" + author: "NY Larsen, N Vihrs, J Møller, J Sporring, X Tan, X Li, G Ji, G Rajkowska,\ + \ ..." + year: 2022 + journal: "Translational psychiatry 12 (1), 363" +- title: "Enabling visual action planning for object manipulation through latent space\ + \ roadmap" + author: "M Lippi, P Poklukar, MC Welle, A Varava, H Yin, A Marino, D Kragic" + year: 2022 + journal: "IEEE Transactions on Robotics 39 (1), 57-75" +- title: "An algebra for local histograms" + author: "J Sporring, S Darkner" + year: 2022 + journal: "Frontiers in Computer Science 4, 939563" - 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title: "Cellular 3D-reconstruction and analysis in the human cerebral cortex using\ \ automatic serial sections" author: "NY Larsen, X Li, X Tan, G Ji, J Lin, G Rajkowska, J Møller, N Vihrs, ..." year: 2021 journal: "Communications Biology 4 (1), 1030" -- title: "How few annotations are needed for segmentation using a multi-planar U-Net?" - author: "WM Laprade, M Perslev, J Sporring" - year: 2021 - journal: "MICCAI Workshop on Deep Generative Models, 209-216" - title: "Learning deep energy shaping policies for stability-guaranteed manipulation" author: "SA Khader, H Yin, P Falco, D Kragic" year: 2021 journal: "IEEE Robotics and Automation Letters 6 (4), 8583-8590" -- title: "Dynamic environments with deformable objects" - author: "R Antonova, P Shi, H Yin, Z Weng, DK Jensfelt" +- title: "How to sense the world: Leveraging hierarchy in multimodal perception for\ + \ robust reinforcement learning agents" + author: "M Vasco, H Yin, FS Melo, A Paiva" year: 2021 - journal: "Thirty-fifth conference on neural information processing systems datasets\ + journal: "arXiv preprint arXiv:2110.03608" +- title: "Measuring shape relations using r-parallel sets" + author: "HJT Stephensen, AM Svane, CB Villanueva, SA Goldman, J Sporring" + year: 2021 + journal: "Journal of Mathematical Imaging and Vision 63 (8), 1069-1083" +- title: "Absolute and relative pose estimation in refractive multi view" + author: "X Hu, F Lauze, KS Pedersen, J Mélou" + year: 2021 + journal: "Proceedings of the IEEE/CVF international conference on computer vision\ \ …" - title: "Currents and K-functions for Fiber Point Processes" author: "PEH Hansen, R Waagepetersen, AM Svane, J Sporring, HJT Stephensen, ..." year: 2021 journal: "International Conference on Geometric Science of Information, 127-134" -- title: "Measuring shape relations using r-parallel sets" - author: "HJT Stephensen, AM Svane, CB Villanueva, SA Goldman, J Sporring" - year: 2021 - journal: "Journal of Mathematical Imaging and Vision 63 (8), 1069-1083" - title: "Deep learning for detection of railway signs and signals" author: "G Karagiannis, S Olsen, K Pedersen" year: 2020 journal: "Advances in Computer Vision: Proceedings of the 2019 Computer Vision …" -- title: "A Novel Approach to Tongue Standardization and Feature Extraction" - author: "C Wang, C Cattaneo, J Liu, W Bredie, E Pagliarini, J Sporring" - year: 2020 - journal: "International Conference on Medical Image Computing and Computer-Assisted\ - \ …" -- title: "Comparison of manual and machine learning image processing approaches to\ - 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