# Publications

### Selected journal publications, 2012-2015

#### 2015

- Automatic segmentation of high-and low-field knee MRIs using knee image quantification with data from the osteoarthritis initiative

EB Dam, M Lillholm, J Marques, M Nielsen

Journal of Medical Imaging 2 (2), 024001-024001 - Standardized evaluation of algorithms for computer-aided diagnosis of dementia based on structural MRI: the CADDementia challenge

EE Bron, M Smits, WM Van Der Flier, H Vrenken, F Barkhof, P Scheltens, ...

NeuroImage 111, 562-579 - Inter-observer agreement according to three methods of evaluating mammographic density and parenchymal pattern in a case control study: impact on relative risk of breast cancer

RR Winkel, M Nielsen, P Diao, MB Nielsen, WY Uldall, I Vejborg

BMC cancer 15 (1), 1

#### 2014

- Brain region's relative proximity as marker for Alzheimer's disease based on structural MRI

L Lillemark, L Sørensen, A Pai, EB Dam, M Nielsen

BMC medical imaging 14 (1), 1 - A method to determine the mammographic regions that show early changes due to the development of breast cancer

G Karemore, M Nielsen, N Karssemeijer, SS Brandt

Physics in medicine and biology 59 (22), 6759 - Breast tissue segmentation from x-ray radiographs

C Chen, M Nielsen, N Karssemeijer, SS Brandt

Physics in medicine and biology 59 (10), 2445 - Mammographic texture resemblance generalizes as an independent risk factor for breast cancer

M Nielsen, CM Vachon, CG Scott, K Chernoff, G Karemore, ...

Breast Cancer Research 16 (2), 1

#### 2013

- Is increased joint loading detrimental to obese patients with knee osteoarthritis?
A secondary data analysis from a randomized trial

Osteoarthritis and Cartilage, 2013, 21 (12), 1865-1875

Henriksen, Hunter, Dam, Messier, Andriacchi, Lohmander, Aaboe, Boesen, Gudbergsen, Bliddal, Christensen - Linear feature selection in texture analysis - A PLS based method

Machine Vision and Applications, 2013, 24 (7), 1435-1444

Marques, Igel, Lillholm, Dam - Predicting knee cartilage loss using adaptive partitioning of cartilage thickness maps

Jørgensen, Dam, Lillholm

Computers in biology and medicine 2013, 43 (8), 1045-1052 - Diagnosis of osteoarthritis and prognosis of tibial cartilage loss by quantification of trabecular Tibia bone from MRI

Magnetic Resonance in Medicine, 2013, 70 (2), 568-575

Marques, Genant, Lillholm, Dam - On subregional analysis of cartilage loss from knee MRI

DR Jørgensen, M Lillholm, HK Genant, EB Dam

Cartilage, 2013, 4 (2), 121-130 -
Higher-order momentum distributions and locally affine LDDMM registration.

Sommer, Stefan Horst; Nielsen, Mads; Darkner, Sune; Pennec, Xavier.

SIAM Journal on Imaging Sciences, Vol. 6, Nr. 1, 2013, s. 341-367. - Sparse multi-scale diffeomorphic registration : The Kernel Bundle Framework.

Sommer, Stefan Horst; Lauze, Francois Bernard; Nielsen, Mads; Pennec, Xavier.

Journal of Mathematical Imaging and Vision, Vol. 46, Nr. 3, 2013, s. 292-308. - Toward a theory of statistical tree-shape analysis.

Feragen, Aasa; Lo, Pechin Chien Pau; de Bruijne, Marleen; Nielsen, Mads; Lauze, Francois Bernard.

IEEE Transactions on Pattern Analysis and Machine Intelligence, Vol. 35, Nr. 8, 2013, s. 2008-2021.

#### 2012

- Automatic Quantification of Tibio-Femoral Contact Area and Congruity

IEEE Transactions in Medical Imaging, 2012, 31 (7), 1404-12

Tummala, Nielsen, Lillholm, Christiansen, Dam - Automatic analysis of trabecular bone structure from knee MRI

Computers in Biology and Medicine, 2012, preprint online

Marques, Granlund, Lillholm, Pettersen, Dam - Distribution, Size, and Shape of Abdominal Aortic Calcified Deposits and Their Relationship to Mortality in Postmenopausal Women

International Journal of Biomedical Imaging, 2012, 8

Ganz, de Bruijne, Dam, Pettersen, Karsdal, Christiansen, Nielsen - Texture-Based Analysis of COPD: : a Data-Driven Approach.

Sørensen, Lauge Emil Borch Laurs; Nielsen, Mads; Lo, Pechin Chien Pau; Ashraf, Haseem; Pedersen, Jesper Johannes Holst; de Bruijne, Marleen.

IEEE Transactions on Medical Imaging, Vol. 31, Nr. 1, 2012, s. 70-78. - A unifying framework for automatic and semi-automatic segmentation of vertebrae from radiographs using sample-driven active shape models.

Mysling, Peter; Petersen, Peter Kersten; Nielsen, Mads; Lillholm, Martin.

Machine Vision & Applications, 11.2012, s. 1-14. - Mass preserving image registration for lung CT.

Gorbunova, Vladlena; Sporring, Jon; Lo, Pechin; Loeve, Martine; Tiddens, Harm A; Nielsen, Mads; Dirksen, Asger; de Bruijne, Marleen.

Medical Image Analysis, Vol. 16, Nr. 4, 2012, s. 786-795. - Shape-based Assessment of Vertebral Fracture Risk in Postmenopausal Women Using Discriminative Shape Alignment.

Crimi, Alessandro; Loog, Marco; de Bruijne, Marleen; Nielsen, Mads; Lillholm, Martin.

Academic Radiology, Vol. 19, Nr. 4, 2012, s. 446-454.

### Publications, 2003-2011

#### 2011

- S. H. Sommer, M. Nielsen, F. B. Lauze, and X. Pennec, "A Multi-Scale Kernel Bundle for LDDMM: Towards Sparse Deformation Description Across Space and Scales," in Information Processing in Medical Imaging 2011, Proceedings, Springer, 2011.
- M. Nielsen, G. R. Karemore, M. Loog, J. Raundahl, N. Karssemeijer, J. D. M. Otten, M. A. Karsdal, C. M. Vachon, and C. Christiansen, "A novel and automatic mammographic texture resemblance marker is an independent risk factor for breast cancer," Cancer Epidemiology, 2011.
- A. Feragen, P. C. P. Lo, V. Gorbunova, M. Nielsen, A. Dirksen, J. Reinhardt, F. B. Lauze, and M. de Bruijne, "An airway tree-shape model for geodesic airway branch labeling," in Mathematical Foundations of Computational Anatomy, 2011.
- S. Brandt, G. R. Karemore, N. Karssemeijer, and M. Nielsen, "An Anatomically Oriented Breast Coordinate System for Mammogram Analysis," I E E E Transactions on Medical Imaging, 2011.
- G. R. Karemore, S. Brandt, N. Karssemeijer, and M. Nielsen, Anatomic Breast Coordinate System for Mammogram Analysis. 2011.
- S. S. Brandt, G. R. Karemore, N. Karssemeijer, and M. Nielsen, Anatomy driven breast coordinate system for mammogram analysis. 2011.
- G. R. Karemore, S. Brandt, N. Karssemeijer, and M. Nielsen, "Automatic breast cancer risk assessment from digital mammograms," in European Congress of Radiology (ECR) , Vienna, 2011.
- S. Tummala, E. Dam, and M. Nielsen, "Automatic Quantification of Congruity from knee MRI," in MICCAI CBM6 workshop, 2011.
- P. Mysling, K. Petersen, M. Nielsen, and M. Lillholm, "Automatic segmentation of vertebrae from radiographs: a sample-driven active shape model approach," in Proceedings of the Second international conference on Machine learning in medical imaging, Berlin, Heidelberg, 2011, pp. 10–17.
- S. Sun, G. R. Karemore, K. Chernoff, N. Karssemeijer, and M. Nielsen, Combining Different Views of Mammographic Texture Resemblance (MTR) Marker of Breast Cancer Risk. 2011.
- S. Tummala, A. C. Bay-Jensen, M. A. Karsdal, and E. B. Dam, "Diagnosis of Osteoarthritis by Cartilage Surface Smoothness Quantified Automatically from Knee MRI," Cartilage, vol. 2, no. 1, p. 50, 2011.
- M. Ganz, M. Nielsen, M. de Bruijne, E. Dam, M. Karsdal, and C. Christiansen, "Distribution, Size, and Shape of Abdominal Aortic Calcified Deposits and their Relationship to Mortality in Postmenopausal Women," in Proceedings of the 97th Annual Meeting of the Radiological Society of North America (RSNA), 2011.
- A.-C. Bay-Jensen, Q. Liu, I. Byrjalsen, Y. Li, J. Wang, C. Pedersen, D. J. Leeming, E. B. Dam, Q. Zheng, P. Qvist, and M. A. Karsdal, "Enzyme-linked immunosorbent assay (ELISAs) for metalloproteinase derived type II collagen neoepitope, CIIM--increased serum CIIM in subjects with severe radiographic osteoarthritis," Clinical Biochemistry, vol. 44, no. 5-6, pp. 423-429, Apr. 2011.
- S. H. Sommer, F. B. Lauze, M. Nielsen, and X. Pennec, "Kernel Bundle EPDiff: Evolution Equations for Multi-Scale Diffeomorphic Image Registration," in Scale Space and Variational Methods in Computer Vision 2011, Springer, 2011.
- J. Petersen, V. Gorbunova, M. Nielsen, A. Dirksen, P. C. P. Lo, and M. de Bruijne, "Longitudinal Analysis of Airways using Registration," in Fourth International Workshop on Pulmonary Image Analysis, 2011.
- K. Chernoff, S. G. Christopher, G. R. Karemore, N. Karssemeijer, M. Nielsen, and C. M. Vachon, Mammographic Texture Resemblance generalizes as an independent risk factor of breast cancer. 2011.
- A. Crimi, M. Lillholm, M. Nielsen, A. Ghosh, M. de Bruijne, E. B. Dam, and J. Sporring, "Maximum a Posteriori Estimation of Linear Shape Variation With Application to Vertebra and Cartilage Modeling," IEEE Transactions on Medical Imaging, vol. 30, no. 8, pp. 1514-1526, Aug. 2011.
- A. Feragen, S. Hauberg, M. Nielsen, and F. B. Lauze, "Means in spaces of treelike shapes," in International Conference of Computer Vision 2011, 2011.
- X. Huang, L. L. Rakêt, H. V. Luong, M. Nielsen, F. B. Lauze, and S. Forchhammer, Multi-hypothesis Transform Domain Wyner-Ziv Video Coding including Optical Flow. 2011.
- C. Chen, K. Chernoff, J. G. Karemore, P. C. P. Lo, M. Nielsen, and F. B. Lauze, Novel classication using adaptive metric k-NN. 2011.
- J. Petersen, M. Nielsen, P. C. P. Lo, Z. Saghir, A. Dirksen, and M. de Bruijne, "Optimal Graph Based Segmentation using Flow Lines with Application to Airway Wall Segmentation," in Information Processing in Medical Imaging, 2011, pp. 49-60.
- M. Ganz, M. Nielsen, and S. Brandt, "Patch-Based Generative Shape Model and MDL Model Selection for Statistical Analysis of Archipelagos," in Machine Learning in Medical Imaging, vol. 6357, Lecture Notes in Computer Science, 2011, p. 34.
- E. B. Dam, I. Byrjalsen, L. Arendt-Nielsen, C. Christiansen, and M. A. Karsdal, "Relationships Between Knee Pain and Osteoarthritis Biomarkers Based on Systemic Fluids and Magnetic Resonance Imaging," Journal of Musculoskeletal Pain, vol. 19, pp. 144-153, Jul. 2011.
- G. R. Karemore, J. G. Karemore, D. R. KV, M. Nielsen, and D. S. Chidangil, "Relevance of Echo-Structure and Texture Features: An Application in Ultrasound Breast Tumor Classification," in EUROSON 2010 proceedings, ultraschall in der medizin - European Journal of Ultrasound, 2011.
- L. E. B. L. Sørensen, M. Nielsen, P. C. P. Lo, H. Ashraf, J. J. H. Pedersen, and M. de Bruijne, "Texture-Based Analysis of COPD: a Data-Driven Approach," I E E E Transactions on Medical Imaging, 2011.
- S. H. Sommer, F. B. Lauze, and M. Nielsen, "The Differential of the Exponential Map, Jacobi Fields and Exact Principal Geodesic Analysis," Foundations of Computational Mathematics, 2011.
- C. Chen, F. B. Lauze, C. Igel, A. Feragen, M. Loog, and M. Nielsen, "Towards Exaggerated Image Stereotypes," in Proceedings of The First Asian Conference on Pattern Recognition 2011,, 2011.
- L. L. Rakêt, L. Roholm, M. Nielsen, and F. B. Lauze, "TV-L1 Optical Flow for Vector Valued Images," in Energy Minimization Methods in Computer Vision and Pattern Recognition, Y. Boykov, F. Kahl, and V. Lempitsky, Eds. Springer Verlag, 2011.
- M. Lillholm, A. Ghosh, P. C. Pettersen, M. de Bruijne, E. B. Dam, M. A. Karsdal, C. Christiansen, H. K. Genant, and M. Nielsen, "Vertebral fracture risk (VFR) score for fracture prediction in postmenopausal women," Osteoporosis International: A Journal Established as Result of Cooperation Between the European Foundation for Osteoporosis and the National Osteoporosis Foundation of the USA, vol. 22, no. 7, pp. 2119-2128, Jul. 2011.
- S. H. Keller, F. B. Lauze, and M. Nielsen, "Video super-resolution using simultaneous motion and intensity calculations," I E E E Transactions on Image Processing, 2011.

#### 2010

- A. A. Qazi, D. R. Jørgensen, M. Lillholm, M. Loog, M. Nielsen, and E. B. Dam, "A framework for optimizing measurement weight maps to minimize the required sample size," Medical Image Analysis, vol. 14, no. 3, pp. 255-264, Jun. 2010.
- G. R. Karemore, S. Brandt, J. Sporring, and M. Nielsen, "Anisotropic Diffusion Tensor Applied to Temporal Mammograms," I E E E Engineering in Medicine and Biology Society. Conference Proceedings, vol. 1, pp. 3178–81, 2010.
- M. Nielsen, P. Pettersen, P. Alexandersen, G. R. Karemore, J. Raundahl, M. Loog, and C. Christiansen, "Breast density changes associated with postmenopausal hormone replacement therapy: post hoc radiologist- and computer-based analyses.," Menopause, vol. 17, no. 4, 2010.
- C. Chen, K. Chernoff, G. R. Karemore, P. C. P. Lo, M. Nielsen, and F. B. Lauze, "Classification in Medical Image Analysis Using Adaptive Metric KNN," in Proceedings of SPIE 2010, vol. 7623, 2010.
- G. R. Karemore, J. B. Mullick, S. R, M. Nielsen, and S. C, "Classification of protein profiles using fuzzy clustering techniques," I E E E Engineering in Medicine and Biology Society. Conference Proceedings, vol. 1, pp. 6361–4, 2010.
- P. Naur, B. Vinter, K. Hansen, T. Æ. Mogensen, K. Erleben, D. Pisinger, M. Nielsen, M. Kringelbach, E. W. Pedersen, P. E. Blume, R. Helles, T. O. Andersen, J. P. Bansler, H. R. Clausen, I. H. Jensen, and M. Zachariasen, Den digitale revolution. Datalogisk Institut, 2010.
- M. Nielsen, M. Ganz, F. Lauze, P. C. Pettersen, M. de Bruijne, T. B. Clarkson, E. B. Dam, C. Christiansen, and M. A. Karsdal, "Distribution, size, shape, growth potential and extent of abdominal aortic calcified deposits predict mortality in postmenopausal women," BMC Cardiovascular Disorders, vol. 10, p. 56, 2010.
- V. Gorbunova, S. S. A. M. Jacobs, P. C. P. Lo, A. Dirksen, M. Nielsen, A. Bab-Hadiashar, and M. de Bruijne, "Early Detection of Emphysema Progression," in Medical Image Computing and Computer-Assisted Intervention - MICCAI 2010, T. Jiang, N. Navab, J. P. W. Pluim, and M. A. Viergever, Eds. 2010, pp. 193-200.
- A. Feragen, F. B. Lauze, and M. Nielsen, Fundamental geodesic deformations in spaces of treelike shapes. 2010.
- L. L. Larsen, M. Ganz, N. Barascuk, E. B. Dam, and M. Nielsen, "Growth patterns of abdominal atherosclerotic calcified deposits from lumbar lateral X-rays," International Journal of Cardiovascular Imaging, vol. 26, no. 7, pp. 751–761, 2010.
- M. Ganz, M. de Bruijne, and M. Nielsen, "MACD: an imaging marker for cardiovascular disease," in Proceedings of the SPIE, 1st ed., vol. 7624, SPIE - International Society for Optical Engineering, 2010, p. 76240P-76240P-9.
- S. H. Sommer, F. B. Lauze, S. Hauberg, and M. Nielsen, "Manifold Valued Statistics, Exact Principal Geodesic Analysis and the Effect of Linear Approximations," in Computer Vision - ECCV 2010, K. Daniilidis, P. Maragos, and N. Paragios, Eds. 2010, pp. 43-56.
- V. Andersen, H. Aanæs, J. A. Bærentzen, and M. Nielsen, "Markov Random Fields on Triangle Meshes," in WSCG 2010 Comunication Papers Proceedings, 2010, pp. 265-270.
- A. J. Tatu, F. B. Lauze, S. H. Sommer, and M. Nielsen, "On Restricting Planar Curve Evolution to Finite Dimensional Implicit Subspaces with Non-Euclidean Metric," Journal of Mathematical Imaging and Vision, vol. 38, no. 3, pp. 226–240, 2010.
- J. Petersen, P. Lo, M. Nielsen, G. Edula, H. Ashraf, A. Dirksen, and M. de Bruijne, "Quantitative analysis of airway abnormalities in CT," in Proceedings of SPIE 2010, vol. 7624, 2010.
- L. D. Griffin and M. Lillholm, "Symmetry Sensitivities of Derivative-of-Gaussian Filters," IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 32, no. 6, pp. 1072-1083, Jun. 2010.
- S. H. Keller, F. B. Lauze, and M. Nielsen, "Temporal Super Resolution Using Variation Methods," in High Quality Visual Experience, M. Mrak, M. Grgic, and M. Kunt, Eds. Springer, 2010, pp. 275-96.
- K. Chernoff and M. Nielsen, Weighting of the k-Nearest-Neighbors. 2010.

#### 2009

- H. Ashraf, G. Edula, M. de Bruijne, M. Nielsen, A. D. Dahlbäck, M, and J. H. Pedersen, "A longitudinal follow-up of COPD disease progression in a large cohort of smokers screened for early lung cancer: CBQ study," American Journal of Respiratory and Critical Care Medicine, 2009.
- D. K. J. Gustafsson, K. S. Pedersen, and M. Nielsen, "A SVD Based Image Complexity Measure," in VISAPP 2009, vol. 2, 2009, pp. 34-39.
- G. R. Karemore, S. Brandt, and M. Nielsen, An Automatic Framework for Assessing Breast Cancer Risk Due to Various Hormone Replacement Therapies (HRT). 2009.
- G. R. Karemore, I. A. Carreras, and M. Nielsen, "Automatic and consistent registration framework for temporal pairs of mammograms in application to breast cancer risk assessment due to hormone replacement therapy (HRT)," International Journal of Computer Assisted Radiology and Surgery, no. 1, p. S356, 2009.
- L. D. Griffin, M. Lillholm, M. Crosier, and J. Sande, "Basic Image Features (BIFs) Arising from Approximate Symmetry Type," in Scale Space and Variational Methods in Computer Vision, vol. 5567, X.-C. Tai, K. Mørken, M. Lysaker, and K.-A. Lie, Eds. Berlin, Heidelberg: Springer Berlin Heidelberg, 2009, pp. 343-355.
- A. Crimi, A. Ghosh, J. Sporring, and M. Nielsen, "Bayes estimation of shape model with application to vertebrae boundaries," in Proceedings of SPIE, 2009, vol. 7259, p. 72590A.
- S. Sommer, A. Tatu, C. Chen, D. Jurgensen, M. de Bruijne, M. Loog, M. Nielsen, and F. Lauze, "Bicycle chain shape models," in Computer Vision and Pattern Recognition Workshops, 2009. CVPR Workshops 2009. IEEE Computer Society Conference on, 2009, pp. 157–163.
- M. A. Karsdal, K. Henriksen, D. J. Leeming, P. Mitchell, K. Duffin, N. Barascuk, L. Klickstein, P. Aggarwal, O. Nemirovskiy, I. Byrjalsen, P. Qvist, A. C. Bay-Jensen, E. B. Dam, S. H. Madsen, and C. Christiansen, "Biochemical markers and the FDA Critical Path: how biomarkers may contribute to the understanding of pathophysiology and provide unique and necessary tools for drug development," Biomarkers, vol. 14, no. 3, pp. 181-202, May 2009.
- M. Ganz, M. Nielsen, M. Karsdal, and C. Christiansen, "BMD PREDICTION OF DEATH IS ENCAPSULATED BY THE MORPHOLOGICAL ATHEROSCLEROSIS CALCIFICATION DISTRIBUTION (MACD) INDEX," Bone, no. 2, p. S265, 2009.
- M. Ganz, M. Loog, S. Brandt, and M. Nielsen, "Dense Iterative Contextual Pixel Classification using Kriging," in IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops, 2009. CVPR Workshops 2009., 2009, pp. 87-93.
- G. R. Karemore and M. Nielsen, "Fractal Dimension and Lacunarity analysis of mammographic patterns in assessing breast cancer risk related to HRT treated population," in Medical imaging 2009 : Computer-Aided Diagnosis, vol. 7260, 2009, p. 7260F-72602F-9.
- G. Karemore and M. Nielsen, "Fractal dimension and lacunarity analysis of mammographic patterns in assessing breast cancer risk related to HRT treated population: a longitudinal and cross-sectional study," in Proceedings of SPIE, 2009, vol. 7260, p. 72602F.
- L. L. Larsen, M. Ganz, and M. Nielsen, Growth analysis of individual abdominal atherosclerotic calcified deposits. 2009.
- E. B. Dam, M. Loog, C. Christiansen, I. Byrjalsen, J. M. Folkesson, M. Nielsen, A. A. Qazi, P. Pettersen, P. Garnero, and M. A. Karsdal, "Identification of progressors in osteoarthritis by combining biochemical and MRI based markers.," Arthritis Research & Therapy, vol. 11, no. 4, pp. 1–11, 2009.
- E. B. Dam, M. Loog, C. Christiansen, I. Byrjalsen, J. Folkesson, M. Nielsen, A. A. Qazi, P. C. Pettersen, P. Garnero, and M. A. Karsdal, "Identification of progressors in osteoarthritis by combining biochemical and MRI-based markers," Arthritis Res Ther, vol. 11, no. 4, p. R115, 2009.
- E. B. Dam, I. Byrjalsen, M. A. Karsdal, P. Qvist, and C. Christiansen, "Increased urinary excretion of C-telopeptides of type II collagen (CTX-II) predicts cartilage loss over 21 months by MRI," Osteoarthritis Cartilage, vol. 17, no. 1522-9653 (Electronic), pp. 384-389, 2009.
- L. E. B. L. Sørensen, P. C. P. Lo, H. Ashraf, J. Sporring, M. Nielsen, and M. de Bruijne, Learning COPD Sensitive Filters in Pulmonary CT. 2009.
- M. Nielsen, J. Raundahl, P. Pettersen, M. Loog, G. R. Karemore, M. Karsdal, and C. Christiansen, "Low dose transdermal estradiol induces breast density and heterogeneity changes comparable to those of raloxifene," Menopause, vol. 16, no. 4, pp. 785–791, 2009.
- V. Gorbunova, P. Lo, M. Loeve, H. A. Tiddens, J. Sporring, M. Nielsen, and M. de Bruijne, "Mass preserving registration for lung CT," in Proceedings of SPIE, 2009, vol. 7259, p. 72592R.
- M. Nielsen, W. Niessen, and C.-F. Westin, "Mathematical methods in biomedical image analysis(editorial)," International Journal of Computer Vision, vol. 85, no. 3, pp. 209–210, 2009.
- D. K. J. Gustafsson, K. S. Pedersen, F. B. Lauze, and M. Nielsen, "On the Rate of Structural Change in Scale Spaces," in Proceedings of Scale Space and Variational Methods in Computer Vision (SSVM) 09, 2009, vol. 5567, pp. 832-843.
- A. Crimi, J. Sporring, M. Bruijne, M. Lillholm, and M. Nielsen, "Prior knowledge regularization in statistical medical image tasks," Probabilistic models for medical image analysis, a MICCAI workshop, 2009.
- K. Chernoff and M. Nielsen, "Projected Generalized Procrustes Alignment," in Information Processing in Medical Imaging, 2009, pp. 503–514.
- N. P. K. R. Dandu and M. Nielsen, "Scale focusing of statistical shape models for breast region segmentation and pectoral muscle suppression," in Proceedings of SPIE, 2009, vol. 7260, p. 72600I.
- M. Lillholm and L. D. Griffin, "Statistics and category systems for the shape index descriptor of local 2nd order natural image structure," Image Vision Comput., vol. 27, no. 6, pp. 771–781, May 2009.
- A.-C. Bay-Jensen, S. Hoegh-Madsen, E. Dam, K. Henriksen, B. C. Sondergaard, P. Pastoureau, P. Qvist, and M. A. Karsdal, "Which elements are involved in reversible and irreversible cartilage degradation in osteoarthritis?," Rheumatology International, vol. 30, pp. 435-442, Oct. 2009.
- G. R. Karemore, S. Brandt, and M. Nielsen, Yet Another Mammography Measure to Evaluate Breast Cancer Risk. 2009.

#### 2008

- A. A. Qazi, E. B. Dam, M. Loog, M. Nielsen, F. Lauze, and C. Christiansen, "A variational method for automatic localization of the most pathological ROI in the knee cartilage," in Proceedings of SPIE, 2008, vol. 6914, p. 69140T.
- J. Raundahl, M. Loog, P. Pettersen, L. B. Tanko, and M. Nielsen, "Automated effect-specific mammographic pattern measures," Medical Imaging, IEEE Transactions on, vol. 27, no. 8, pp. 1054–1060, 2008.
- J. Folkesson, E. B. Dam, O. F. Olsen, M. A. Karsdal, P. C. Pettersen, and C. Christiansen, "Automatic quantification of local and global articular cartilage surface curvature: biomarkers for osteoarthritis?," Magn Reson.Med, vol. 59, no. 6, pp. 1340-1346, Jun. 2008.
- E. B. Dam, P. T. Fletcher, and S. M. Pizer, "Automatic Shape Modeling based on Principal Geodesic Analysis Bootstrapping," Medical Image Analysis, vol. 12, no. 2, pp. 136-151, 2008.
- M. Nielsen, P. Johansen, A. D. Jackson, B. Lautrup, and S. Hauberg, "Brownian warps for non-rigid registration," Journal of Mathematical Imaging and Vision, vol. 31, no. 2, pp. 221–231, 2008.
- S. H. Keller, F. Lauze, and M. Nielsen, "Deinterlacing using variational methods," Image Processing, IEEE Transactions on, vol. 17, no. 11, pp. 2015–2028, 2008.
- E. B. Dam and M. Loog, "Efficient Segmentation by Sparse Pixel Classification," IEEE Transactions on Medical Imaging, vol. 27, no. 10, pp. 1525-1534, Oct. 2008.
- A. Cuzol, K. S. Pedersen, and M. Nielsen, "Field of particle filters for image inpainting," Journal of Mathematical Imaging and Vision, vol. 31, no. 2, pp. 147–156, 2008.
- F. Lauze and M. Nielsen, "From Inpainting to Active Contours," International Journal of Computer Vision, vol. 79, no. 1, pp. 31–43, 2008.
- V. Andersen, H. Aan\aes, A. B\aerentzen, and M. Nielsen, "Markov Random Fields on 3D Polygonal Meshes," Eds. SU00F8ren I. Olsen, p. 16, 2008.
- K. Fundana, N. Overgaard, A. Heyden, D. Gustafsson, and M. Nielsen, "Nonrigid Object Segmentation and Occlusion Detection in Image Sequences," 2008.
- M. Lillholm and L. Griffin, "Novel image feature alphabets for object recognition," in Pattern Recognition, 2008. ICPR 2008. 19th International Conference on, 2008, pp. 1–4.
- P. Pettersen, J. Raundahl, M. Loog, M. Nielsen, L. Tanko, and C. Christiansen, "Parallel assessment of the impact of different hormone replacement therapies on breast density by radiologist-and computer-based analyses of mammograms," Climacteric, vol. 11, no. 2, pp. 135–143, 2008.
- M. A. Karsdal, D. J. Leeming, E. B. Dam, K. Henriksen, P. Alexandersen, P. Pastoureau, R. D. Altman, and C. Christiansen, "Should subchondral bone turnover be targeted when treating osteoarthritis?," Osteoarthritis Cartilage, vol. 16, no. 6, pp. 638-646, Jun. 2008.
- M. Nielsen, M. de Bruijne, C. JU00F8rgensen, S. I. Olsen, K. S. Pedersen, and J. Sporring, "Special Issue on Tribute Workshop for Peter Johansen," Journal of Mathematical Imaging and Vision, vol. 31, no. 2, pp. 119–120, 2008.
- P. Qvist, A. C. Bay-Jensen, C. Christiansen, E. B. Dam, P. Pastoureau, and M. A. Karsdal, "The disease modifying osteoarthritis drug (DMOAD): Is it in the horizon?," Pharmacol.Res., vol. 58, no. 1, pp. 1-7, Jul. 2008.
- E. B. Dam, "Toward integrated automated analysis of articular cartilage and trabecular bone in osteoarthritis," Academic Radiology, vol. 15, no. 12, pp. 1479-1481, Dec. 2008.
- V. Gorbunova, P. Lo, H. Ashraf, A. Dirksen, M. Nielsen, and M. de Bruijne, "Weight preserving image registration for monitoring disease progression in lung CT," Medical Image Computing and Computer-Assisted Intervention–MICCAI 2008, pp. 863–870, 2008.

#### 2007

- J. E. Iglesias, M. de Bruijne, M. Loog, F. B. Lauze, and M. Nielsen, "A Family of Principal Component Analyses for Dealing with Outliers," in Medical Image Computing and Computer-Assisted Intervention - MICCAI 2007, N. Ayache, S. Ourselin, and A. Maeder, Eds. Springer, 2007, pp. 178-185.
- J. Folkesson, E. B. Dam, O. F. Olsen, and C. Christiansen, "Accuracy evaluation of automatic quantification of the articular cartilage surface curvature from MRI," Acad Radiol, vol. 14, no. 10, pp. 1221-1228, Oct. 2007.
- A. A. Qazi, E. Dam, O. F. Olsen, M. Nielsen, and C. Christiansen, "Automatic Detection of Diseased Regions in Knee Cartilage," in Medical imaging 2007, J. P. W. Pluim and J. M. Reinhardt, Eds. SPIE, 2007.
- E. B. Dam, J. Folkesson, P. C. Pettersen, and C. Christiansen, "Automatic morphometric cartilage quantification in the medial tibial plateau from MRI for osteoarthritis grading," Osteoarthritis and Cartilage, vol. 15, no. 7, pp. 808-818, 2007.
- A. A. Qazi, E. Dam, O. F. Olsen, M. Nielsen, P. Pettersen, and C. Christiansen, Automatic Quantification of Pathology Indicating Measure Related to Cartilage Structure From Cartilage Scan Data. 2007.
- E. B. Dam, M. Loog, C. Christiansen, and M. A. Karsdal, "Cartilage Longevity: A Prognostic OA Biomarker Combining Biochemical and MRI-Based Cartilage Markers," Osteoarthritis and Cartilage, vol. 15, no. Supplement C, p. C48, 2007.
- M. Lillholm and L. Griffin, "Category systems for local 2nd order image structure in natural images," presented at the From Computational Cognitive Neuroscience to Computer Vision, 2007.
- A. J. Tatu, F. Lauze, M. Nielsen, and O. F. Olsen, "Curve Evolution in Subspaces," in Scale Space and Variational Methods, F. Sgallari, A. Murli, and N. Paragios, Eds. Springer-Verlag, 2007, pp. 754 - 764.
- M. Nielsen, "Evaluation of brownian warps for shape alignment," in Medical imaging 2007, Image Processing, SPIE, 2007.
- J. Raundahl, M. Loog, and M. Nielsen, "Evaluation of four mammographic density measures on HRT data," in Medical imaging 2007, SPIE, 2007.
- L. D. Griffin and M. Lillholm, "Feature category systems for 2nd order local image structure induced by natural image statistics and otherwise," 2007, vol. 6492, pp. 649209-649209-11.
- D. K. J. Gustafsson, K. S. Pedersen, and M. Nielsen, "Geometric and Texture Inpainting by Gibbs Sampling," in Proceedings SSBA 2007, M. Borga, A. Brun, and M. Felsberg, Eds. Linköping University, 2007.
- D. K. J. Gustafsson, K. S. Pedersen, and M. Nielsen, "Image Inpainting by Cooling and Heating," in Image Analysis, Springer-Verlag, 2007, pp. 591-600.
- M. Lillholm and L. D. Griffin, "Maximum Likelihood Metameres for Local 2nd Order Image Structure of Natural Images," in Scale Space and Variational Methods in Computer Vision, Berlin, Heidelberg, 2007, vol. 4485, pp. 394-405.
- S. H. Keller, F. Lauze, and M. Nielsen, "Motion Compensated Video Super Resolution," in Scale Space and Variational Methods in Computer Vision, F. Sgallari, A. Murli, and N. Paragios, Eds. Springer-Verlag, 2007, pp. 801-812.
- M. Nielsen and D. Hawkes, "Ninth International Conference on Mecial Image Computing and Computer-Assisted Interventions, MICCAI 2006," Medical Image Analysis, vol. 11, no. 5, pp. 415–417, 2007.
- A. A. Qazi, E. B. Dam, M. Nielsen, M. A. Karsdal, P. C. Pettersen, and C. Christiansen, "Osteoarthritic cartilage is more homogeneous than healthy cartilage - Identification of a superior region of interest colocalized with a major risk factor for osteoarthritis," Acad Radiol, vol. 14, no. 10, pp. 1209-1220, Oct. 2007.
- L. A. Conrad-Hansen, M. de Bruijne, F. B. Lauze, L. B. Tankó, P. C. Pettersen, Q. He, J. Chen, C. Christiansen, and M. Nielsen, "Quantifying calcification in the lumbar aorta on X-ray images," in Medical Image Computing and Computer-Assisted Intervention, N. Ayache, S. Ourselin, and A. Maeder, Eds. Springer, 2007, pp. 352-359.
- M. Loog, J. Raundahl, p. pettersen, l. b. tanko, and M. Nielsen, "Quantifying effect-specific mammographic density," in Medical Image Computing and Computer-Assisted Intervention, N. Ayache, S. Ourselin, and A. Maeder, Eds. Springer, 2007, pp. 580-587.
- E. B. Dam, "Quantitative automated musculoskeletal analysis," Acad Radiol, vol. 14, no. 10, pp. 1153-1155, Oct. 2007.
- M. de Bruijne, M. T. Lund, L. B. Tankó, P. Pettersen, and M. Nielsen, "Quantitative vertebral morphometry using neighbor-conditional shape models," Medical Image Analysis, vol. 11, no. 5, pp. 503–512, 2007.
- J. Folkesson, E. B. Dam, O. F. Olsen, P. C. Pettersen, and C. Christiansen, "Segmenting Articular Cartilage Automatically Using a Voxel Classification Approach," IEEE Trans.on Medical Imaging, vol. 26, no. 1, pp. 106-115, 2007.
- L. A. Conrad-Hansen, M. de Bruijne, M. Nielsen, and M. Petrou, "Semi-automatic detection of calcifications using nonlinear stretching on X-ray images," in Medical Imaging 2007, M. L. Giger and N. Karssemeijer, Eds. SPIE, 2007.
- A. A. Qazi, J. Folkesson, P. C. Pettersen, M. A. Karsdal, C. Christiansen, and E. B. Dam, "Separation of healthy and early osteoarthritis by automatic quantification of cartilage homogeneity," Osteoarthritis and Cartilage, vol. 15, no. 10, pp. 1199-1206, 2007.
- D. K. J. Gustafsson, K. Fundana, N.-C. Overgaard, A. Heyden, and M. Nielsen, Variational Segmentation and Contour Matching of Non-Rigid Moving Object. 2007.
- M. de Bruijne, P. C. Pettersen, L. B. Tankó, and M. Nielsen, "Vertebral Fracture Classification," in Medical Imaging 2007, J. P. W. Pluim and J. M. Reinhardt, Eds. SPIE, 2007.

#### 2006

- A. Kuijper, O. F. Olsen, P. Giblin, and M. Nielsen, "Alternative 2D Shape Representations using the Symmetry Set," Journal of Mathematical Imaging and Vision, vol. 26, no. 1-2, pp. 127–147, 2006.
- E. B. Dam, J. Folkesson, P. C. Pettersen, and C. Christiansen, "Automatic Cartilage Thickness Quantification using a Statistical Shape Model," 2006, vol. MICCAI Joint Disease Workshop, pp. 42-49.
- J. Folkesson, E. B. Dam, O. F. Olsen, P. C. Pettersen, and C. Christiansen, "Automatic Curvature Analysis of the Articular Cartilage Surface," 2006, vol. MICCAI Joint Disease Workshop, pp. 17-24.
- E. B. Dam, J. Folkesson, M. Loog, P. C. Pettersen, and C. Christiansen, "Efficient Automatic Cartilage Segmentation," pub, 2006, vol. MICCAI Joint Disease Workshop, pp. 88-95.
- L. D. Griffin and M. Lillholm, "Hypotheses for Image Features, Icons and Textons," International Journal of Computer Vision, vol. 70, pp. 213-230, Dec. 2006.
- M. Nielsen, J. Sporring, and R. Larsen, Medical Image Computing and Computer-Assisted Intervention -MICCAI 2006 Part I. Springer, 2006.
- R. Larsen, M. Nielsen, and J. Sporring, Medical Image Computing and Computer-Assisted Intervention -MICCAI 2006 Part II. Springer, 2006.
- J. Folkesson, E. B. Dam, O. F. Olsen, P. C. Pettersen, and C. Christiansen, "Position Normalization in Automatic Cartilage Segmentation," 2006, vol. MICCAI Joint Disease Workshop, pp. 9-16.
- R. Larsen, M. Nielsen, and J. Sporring, "Preface," Proceedings of Medical Image Computing and Computer-Assisted Intervention (MICCAI), p. V–VI, 2006.
- E. B. Dam, J. Folkesson, P. C. Pettersen, and C. Christiansen, "Semi-Automatic Knee Cartilage Segmentation," 2006.
- O. F. Olsen and M. Nielsen, "The Generic Structure of the Optic Flow Field," Journal of Mathematical Imaging and Vision, vol. 24, no. 1, pp. 37–53, 2006.

#### 2005

- E. B. Dam, J. Folkesson, P. Pettersen, and C. Christiansen, "Automatic Cartilage Thickness Quantification from Knee MRI," Osteoarthritis and Cartilage, vol. 13, 2005.
- J. Folkesson, E. B. Dam, O. F. Olsen, P. C. Pettersen, and C. Christiansen, "Automatic Quantification of Articular Cartilage From Knee MR Scans using Surface Smoothness as Osteoarthritis Indicator," Osteoarthritis and Cartilage, vol. 13, 2005.
- J. Folkesson, E. B. Dam, O. F. Olsen, P. Pettersen, and C. Christiansen, "Automatic Segmentation of the Articular Cartilage in Knee MRI Using a Hierarchical Multiclass Classification Scheme," 2005.
- J. Folkesson, O. F. Olsen, E. B. Dam, P. C. Pettersen, and C. Christiansen, "Combining Binary Classifiers for Automatic Cartilage Segmentation in Knee MRI," 2005, pp. 230-239.
- L. D. Griffin and M. Lillholm, "Image Features and the 1-D, 2 nd Order Gaussian Derivative Jet," in Scale Space and PDE Methods in Computer Vision, vol. 3459, R. Kimmel, N. A. Sochen, and J. Weickert, Eds. Berlin, Heidelberg: Springer Berlin Heidelberg, 2005, pp. 26-37.
- J. Folkesson, E. B. Dam, P. C. Pettersen, M. Nielsen, O. F. Olsen, and C. Christiansen, "Locating Articular Cartilage in MR Images," 2005.
- F. Kanters, M. Lillholm, R. Duits, B. Janssen, B. Platel, L. Florack, and B. Haar Romeny, "On Image Reconstruction from Multiscale Top Points," in Scale Space and PDE Methods in Computer Vision, vol. 3459, R. Kimmel, N. A. Sochen, and J. Weickert, Eds. Berlin, Heidelberg: Springer Berlin Heidelberg, 2005, pp. 431-442.
- M. Nielsen, "Preface," in Deep Structure, Singularities, and Computer Vision, Springer Berlin / Heidelberg, 2005, p. VI.
- J. Folkesson, E. B. Dam, O. F. Olsen, P. C. Pettersen, P. Alexandersen, and C. Christiansen, "Robust Volume Estimation of Articular Cartilage from Knee MR Scans," Osteoarthritis and Cartilage, vol. 13, 2005.

#### 2004

- M. Nielsen and P. Johansen, "A PDE Solution of Brownian Warping," in Computer Vision - ECCV 2004, Springer Berlin / Heidelberg, 2004, pp. 180-191.
- M. Nielsen, A variational method of finding brownian warps. 2004.
- K. S. Pedersen and M. Lillholm, "Brownian images: A generic background model," presented at the Statistical Learning in Computer Vision, ECCV ’04 workshop, 2004.
- J. Raundahl, M. Nielsen, O. F. Olsen, and Y. Z. Bagger, "Effect of projective viewpoint in detecting temporal density changes," in Proceedings of SPIE, 2004, pp. 85-92.
- A. Kuijper, O. F. Olsen, P. Giblin, P. Bille, and M. Nielsen, "From a 2D Shape to a String Structure Using the Symmetry Set," in Computer Vision - ECCV 2004, Springer Berlin / Heidelberg, 2004, pp. 313-325.
- E. B. Dam, M. Loog, and M. Letteboer, "Integrating Automatic and Interactive Brain Tumor Segmentation," 2004.
- M. Lillholm and K. S. Pedersen, "Jet based feature classification," in Proceedings of the 17th International Conference on Pattern Recognition, 2004. ICPR 2004, 2004, vol. 2, pp. 787- 790 Vol.2.
- L. D. Griffin, M. Lillholm, and M. Nielsen, "Natural image profiles are most likely to be step edges," Vision Research, vol. 44, no. 4, pp. 407-421, Feb. 2004.
- M. Lillholm, On Spatial Metamerism in Computational Vision. 2004.
- L. A. Conrad-Hansen, J. Raundahl, L. B. Tankó, and M. Nielsen, Prediction of the location of the lumbar aorta using the first four lumbar vertebrae as a predictor. 2004.
- E. B. Dam, P. T. Fletcher, D. Pizer, G. Tracton, and D. Rosenman, "Prostate Shape Modeling based on Principal Geodesic Analysis Bootstrapping," 2004, vol. 3216-3217.
- M. Letteboer, O. F. Olsen, E. B. Dam, P. Willems, M. Viergever, and W. Niessen, "Segmentation of tumors in MR brain images using an interactive multi-scale watershed algorithm," Academic Radiology, 2004.

#### 2003

- E. B. Dam, O. F. Olsen, and M. Nielsen, "Approximating Non-linear Diffusion," 2003, vol. 2695.
- E. B. Dam and B. ter H. Romeny, "Chapters 13-15: Deep Structure I, II & III," in Front End Vision and Multi-Scale Image Analysis, Kluwer, 2003.
- E. B. Dam, "Committing Medical Image Analysis," 2003.
- J. Sporring, N. H. Olsen, and M. Nielsen, "Detection and Localization of Random Signals," in Scale Space Methods in Computer Vision, Springer Berlin / Heidelberg, 2003, pp. 785-797.
- M. Lillholm, M. Nielsen, and L. D. Griffin, "Feature-Based Image Analysis," International Journal of Computer Vision, vol. 52, no. 2-3, pp. 73–95, 2003.
- M. Loog, M. Lillholm, M. Nielsen, and M. A. Viergever, "Gaussian scale space from insufficient image information," in Proceedings of the 4th international conference on Scale space methods in computer vision, Berlin, Heidelberg, 2003, pp. 757–769.
- L. D. Griffin and M. Lillholm, "Mode estimation using pessimistic scale space tracking," in Proceedings of the 4th international conference on Scale space methods in computer vision, Berlin, Heidelberg, 2003, pp. 266–280.
- E. B. Dam and M. Letteboer, "Non-linear Diffusion in 3D for Interactive Segmentation of Brain Tissue," 2003.
- N. H. Olsen, J. Sporring, M. Nielsen, C. Hnida, and S. Ziebe, "Reconstruction of Optical Thickness from Hoffman Modulation Contrast Images," in Image Analysis, Springer Berlin / Heidelberg, 2003, pp. 445-454.
- L. D. Griffin and M. Lillholm, Eds., Scale space methods in computer vision, vol. 2695. 2003.