Marco Reisert

Contact: Marco Reisert Medical Physics Department of Radiology University Hospital Freiburg Breisacher Str. 60a 79106 Freiburg phone: +49 761 270 93860 fax: +49 761 270 73920 e-mail: marco.reisert (the-at-character) uniklinik-freiburg.de

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Research Interests

Publications

Software

Awards

Videos

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Research Interests

• Diffusion Tensor Imaging
• Fiber Tracking, Global Tractography
• MR Image Reconstruction
• Invariance in Pattern Recognition and Machine Learning
• 3D Signal Processing
• Spherical Tensor Analysis

Publications

Journal Papers / Book Chapter / Thesis

2013

• Laura-Adela Harsan, Csaba Dávid, Marco Reisert, Susanne Schnell, Jürgen Hennig, Dominik von Elverfeldt, and Jochen F. Staiger
  "Mapping remodeling of thalamocortical projections in the living reeler mouse brain by diffusion tractography"
  PNAS 2013 ; published ahead of print April 22, 2013, doi:10.1073/pnas.1218330110

• B. Zahneisen, J.Asslaender, P.Levan, T.Hugger, M.Reisert, T.Ernst and J.Hennig
  "Quantification and Correction of Respiration Induced Dynamic Field Map Changes in fMRI using 3D single shot techniques"
  accepted, Magnetic Resonance in Medicine

• Marco Reisert, Irina Mader, Roza Umarova, Simon Maier, Ludger Tebartz van Elst and Valerij G. Kiselev
  "Fiber Density Estimation from Single Q-Shell Diffusion Imaging by Tensor Divergence"
  Neuroimage. 2013 Mar 26;77C:166-176. doi: 10.1016/j.neuroimage.2013.03.032

• Henrik Skibbe and Marco Reisert
  "Rotation Covariant Image Processing for Biomedical Applications"
  Computational and Mathematical Methods in Medicine, Volume 2013, ID 931507, http://dx.doi.org/10.1155/2013/931507, Special Issue on Mathematical Methods in Biomedical Imaging

• Jakob Assländer, Benjamin Zahneisen, Thimo Hugger, Marco Reisert, Hsu-Lei Lee, Pierre LeVan and Jürgen Hennig
  "Single shot whole brain imaging using spherical stack of spirals trajectories"
  Neuroimage, Volume 73, June 2013, Pages 59–70

• Nguyen-Thanh T, Reisert M, Anastasopoulos C, Hamzei F, Reithmeier T, Vry MS, Kiselev VG, Weyerbrock A and Mader I
  "Global Tracking in Human Gliomas: A Comparison with Established Tracking Methods"
  Clin Neuroradiol. 2013 Jan 18.

2012

• K.H. Fritzsche, P.Neher, I.Reicht, T.van Bruggen, C.Goch, M. Reisert, M.Nolden, S.Zelzer, H.P.Meinzer and B.Stieltjes
  "MITK Diffusion Imaging"
  Methods of Information in Medicine, Schattauer Verlag, 2012, to appear

• E. Kellner and I. Mader and M. Mix and D. Splitthoff and M. Reisert and K. Foerster and T. Nguyen-Thanh and P.Gall and V.G. Kiselev
  "Arterial input function measurements for bolus tracking perfusion imaging in the brain."
  Magn Reson Med. 2012 May 18. doi: 10.1002/mrm.24319.

• Marco Reisert, Elias Kellner, Valerij Kiselev
  "About the Geometry of Asymmetric Fiber Orientation Distributions"
  IEEE Transactions on Medical Imaging, to appear

• Henrik Skibbe and Marco Reisert and Thorsten Schmidt and Thomas Brox and Olaf Ronneberger and Hans Burkhardt
  "Fast Rotation Invariant 3D Feature Computation utilizing Efficient Local Neighborhood Operators"
  IEEE Trans. on PAMI 2012, 10.1109/TPAMI.2011.263

• Lingyu Ma, Marco Reisert, Hans Burkhardt
  "A Novel Alpha-helices Identification Approach for Intermediate Resolution Electron Density Maps"
  IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2012, in press

2011

• Marco Reisert, Valerij Kiselev
  "Fiber Continuity: An Anisotropic Prior for ODF Estimation. "
  IEEE Transactions on Medical Imaging, 2011, June 2011, Volume: 30, Issue:6, On page(s): 1274 - 1283

• Benjamin Zahneisen, Thimo Hugger, Kuan J. Lee, Pierre LeVan, Marco Reisert, Hsu-Lei Lee, Jakob Assländer, Maxim Zaitsev, Jürgen Hennig
  "Single shot concentric shells trajectories for ultra fast fMRI"
  Magnetic Resonance in Medicine, Nov 2011, Epub, DOI: 10.1002/mrm.23256

• Benjamin Zahneisen, Thimo Grotz, Kuan J. Lee, Sabine Ohlendorf, Marco Reisert,Maxim Zaitsev, Jürgen Hennig
  "Three-dimensional MR-encephalography: Fast volumetric brain imaging using rosette trajectories"
  Magnetic Resonance in Medicine, Volume 65, Issue 5, pages 1260–1268, May 2011

• Pierre Fillard, Maxime Descoteaux, Alvina Goh, Sylvain Gouttard, Ben Jeurissen, James Malcolm, Alonso Ramirez-Manzanares, Marco Reisert, Ken Sakaie, Fatima Tensaouti, Ting Yo; Jean-François Mangin, Cyril Poupon
  "Quantitative Analysis of 10 Tractography Algorithms on a Realistic Diffusion MR Phantom"
  Neuroimage, 56(1):220-34, 2011

2010

• M.Reisert, I. Mader, C. Anastosoulus; M. Weigel, S. Schnell; V.Kiselev,
  "Global Fiber Reconstruction Becomes Practical"
  Neuroimage, 2010, in press

• Matthias Schlachter, Marco Reisert, Corinna Herz, Fabienne Schlürmann, Silke Lassmann, Martin Werner, Hans Burkhardt, Olaf Ronneberger.
  "Harmonic Filters for 3D Multi-Channel Data: Rotation Invariant Detection of Mitoses in Colorectal Cancer"
  IEEE Transactions on Medical Imaging, Issue:99, ISSN: 0278-0062, DOI: 10.1109/TMI.2010.2049856

2009

• Marco Reisert, Nikos Canterakis and Hans Burkhardt.
  "Invariants and Covariants in Pattern Recognition and Image Analysis"
  Pattern Recognition and Machine Vision - in Honor of Late Professor King-Sun Fu, pages 71-85. Patrick S.P. Wang (Ed.): Series in Information Science and Technology. River Publishers, 2010

• Marco Reisert and Hans Burkhardt.
  "Spherical Tensor Calculus for Local Adaptive Filtering"
  in 'Tensors in Image Processing and Computer Vision',Tensors in Image Processing and Computer Vision, ser. Advances in Pattern Recognition, S. Aja-Fernandez, R. de Luis Garcıa, D. Tao, and X. Li, Eds. Springer, 2009, (preprint)

2008

• Marco Reisert
  " Group Integration Techniques in Pattern Analysis, A Kernel View "
  In Dorothea Wagner, editor, Ausgezeichnete Informatikdissertationen 2008. Lecture Notes in Informatics (LNI) - Dissertations, Series of the Gesellschaft für Informatik e.V. (GI)

• Marco Reisert.
  "Group Integration Techniques in Pattern Analysis - A Kernel View"
  phd-thesis, Albert-Ludwigs-University, August 2008 (URL)

• Marco Reisert and Hans Burkhardt.
  "Complex Derivative Filters "
  in IEEE Transactions on Image Processing, volume 17, number 12, pages 2265-2274, December 2008

• Marco Reisert and Hans Burkhardt.
  "Equivariant Holomorphic Filters for Contour Denoising and Rapid Object Detection"
  in IEEE Transactions on Image Processing, volume 17, number 2, February 2008

2007

• Maja Temerinac and Marco Reisert and Hans Burkhardt.
  "Invariant Features for Searching in Protein Fold Databases"
  in the International Journal on Computer Mathematics (IJCM), 'Special Issue on Bioinformatics', Volume 84, Issue 5, May 2007 , pages 635 - 651 (pdf)

• Marco Reisert and Hans Burkhardt.
  "Learning Equivariant Functions with Matrix Valued Kernels"
  in Journal on Machine Learning Research (JMLR), 8(Mar):385--408, 2007

2006

• Marco Reisert and Hans Burkhardt.
  "Second Order 3D Shape Features: An Exhaustive Study"
  In Computers&Graphics "Special Issue on Shape Reasoning and Understanding" vol. 30, no. 2 , April 2006, (pdf)

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Conference Contributions (peer reviewed) / Abstracts

2013

• Esmeralda Ruiz Pujadas, Marco Reisert
  "Image segmentation using normalized cuts with multiple priors"
  accepted for presentation at the SPIE Medical Imaging 2013

2012

• Henrik Skibbe and Marco Reisert
  "Detection of Unique Point Landmarks in HARDI Images of the Human Brain"
  accepted for presentation at the CDMRI, MICCAI 2012 workshop on computational diffusion MRI

• P.F. Neher, B. Stieltjes, M. Reisert, I. Reicht, H.P. Meinzer, K.H. Fritzsche
  "Integration eines globalen Traktographieverfahrens in das Medical Imaging Interaction Toolkit"
  Bildverarbeitung für die Medizin 2012, 177-1822012

• F.Peter, B.Stieltjes and M.Reisert and I.Reich and H-P.Meinzer and K. Fritzsche
  "MITK global tractography"
  Medical Imaging 2012: Image Processing. Edited by Haynor, David R.; Ourselin, Sébastien. Proceedings of the SPIE, Volume 8314, pp. 83144D-83144D-6 (2012).

• Marco Reisert, Henrik Skibbe and Valerij G. Kiselev
  "Tensor Divergence for Fiber Density Estimation"
  accepted for Publication on MICCAI 2012 (Matlab Code)

• Henrik Skibbe and Marco Reisert
  "Circular Fourier-HOG Features for Rotation Invariant Object Detection in Biomedical Images"
  in Proceedings of the IEEE International Symposium on Biomedical Imaging 2012 (ISBI 2012), Barcelona

2011

• Laura-Adela Harsan, Csaba David, Marco Reisert, Susanne Schnell, Jürgen Hennig, Dominik von Elverfeldt and Jochen Staiger
  [Abstract] " Imaging with diffusion tractography the living mouse brain connectome in wild type and reeler mutant animals"
  BC11 : Computational Neuroscience and Neurotechnology Bernstein Conference and Neurex Annual Meeting 2011

• Peter F. Neher, Bram Stieltjes, Marco Reisert, Ignaz Reicht, Hans-Peter Meinzer and Klaus H. Fritzsche
  " MITK Global Tractography - Application to the Corticospinal Tract. "
  In Proceedings of the MICCAI 2011, Workshop: DTI Tractography for Neurosurgical Planning: A Grand Challenge, Toronto, Canada

• Henrik Skibbe and Marco Reisert
  " Dense Rotation Invariant Brain Pyramids for Automated Human Brain Parcellation. "
  In Proceedings of the Informatik 2011, Workshop on Emerging technologies for medical diagnosis and therapy, Berlin

• Marco Reisert and Valerij G. Kiselev
  " Diffusion Propagator Imaging by Model-driven Regularization. "
  In Proceedings of the Informatik 2011, Workshop on Emerging technologies for medical diagnosis and therapy, Berlin

• Henrik Skibbe, Marco Reisert and Hans Burkhardt
  " SHOG - Spherical HOG Descriptors for Rotation Invariant 3D Object Detection. "
  In Proceedings of the 33rd international conference on Pattern recognition (DAGM'11), Rudolf Mester and Michael Felsberg (Eds.). Springer-Verlag, Berlin, Heidelberg, 326-335.

• Marco Reisert and Henrik Skibbe.
  " Steerable deconvolution feature detection as an inverse problem. "
  In Proceedings of the 33rd international conference on Pattern recognition (DAGM'11), Rudolf Mester and Michael Felsberg (Eds.). Springer-Verlag, Berlin, Heidelberg, 326-335.

• Henrik Skibbe, Marco Reisert, Hans Burkhardt
  " Gaussian Neighborhood Descriptors for Brain Segmentation"
  accepted, The 12th IAPR Conference on Machine Vision Applications

• Lingyu Ma, Marco Reisert, Christophe Wirth, Carola Hunte, Olaf Ronneberger, Hans Burkhardt
  " Alpha Helix Prediction based on Metropolis Hastings Sampling"
  accepted, 2011 IEEE International Symposium on Biomedical Imaging, Chicago

• Henrik Skibbe, Marco Reisert, Olaf Ronneberger, Hans Burkhardt
  " Spherical Bessel Filter for 3D Object Detection"
  accepted, 2011 IEEE International Symposium on Biomedical Imaging, Chicago

• Marco Reisert, Valerij Kiselev
  [Abstract] " Fiber Continuity: An Anisotropic Prior for ODF Estimation"
  Nr 3589, Proceedings of the 18th Annual Meeting ISMRM 2011, Montreal/Canada

• M. Reisert, M. Weigel, E. Eyal, D. Grobgeld, H. Degani, and J. Hennig
  [Abstract] " Diffusion Tensor based Reconstruction of the Ductal Tree"
  Nr 3649, Proceedings of the 18th Annual Meeting ISMRM 2011, Montreal/Canada

2010

• L. Mavridis, V.Venkatraman, D.W. Ritchie, N.Morikawa, R.Andonov, A.Cornu, N.Malod-Dognin, J.Nicolas, M.Temerinac-Ott, M.Reisert, H.Burkhardt, A.Axenopoulos, and P.Daras,
  " SHREC'10 Track: Protein Model Classification"
  Eurographics Workshop on 3D Object Retrieval, May 2, 2010, Norrkoeping, Sweden

• Henrik Skibbe, Marco Reisert, Thorsten Schmidt, K. Palme, Olaf Ronneberger, Hans Burkhardt
  " 3D Object Detection using a Fast Voxel-Wise Local Spherical Fourier Tensor Transformation"
  in Proceedings of the DAGM 2010 LNCS Darmstadt, Germany

• Marco Reisert, Irina Mader, Constantin Anastasopoulus, Susanne Schnell, Valerij Kiselev
  [Abstract] " Global Fiber Tracking becomes Practical"
  Nr.1674, Proceedings of the 18th Annual Meeting ISMRM 2010, Stockholm/Sweden

• Marco Reisert, Jürgen Hennig, Thimo Grotz, Benjamin Zahneisen
  [Abstract] " Efficient Off-resonance Corrected Reconstruction of Rosette Trajectories by Deformed Interpolation Kernels"
  Nr.3105, Proceedings of the 18th Annual Meeting ISMRM 2010, Stockholm/Sweden

• Benjamin Zahneisen, Thimo Grotz, Kuan J. Lee, Marco Reisert, Jürgen Hennig
  [Abstract] " Optimized 3D Single Shot Trajectories by Radial Arrangement of Individual Parts (RIP)"
  Nr.79, Proceedings of the 18th Annual Meeting ISMRM 2010, Stockholm/Sweden

• Irinia Mader, Constantin Anastasopoulus, Valerij Kiselev, A. Schulze-Bonhage, Marco Reisert
  [Abstract] " FACT, Probability Maps and Gibbs tracking for preoperative fiber tracking in epilepsy surgery"
  Proceedings of the 18th Annual Meeting ISMRM 2010, Stockholm/Sweden

• T. Grotz, B. Zahneisen, M. Reisert, M. Zaitsev, and J. Hennig
  [Abstract] " Undersampled Multi Coil Image Reconstruction for fast fMRI Using Adaptive Linear Neurons"
  Proceedings of the 18th Annual Meeting ISMRM 2010, Stockholm/Sweden

• L-A. Harsan, C. David, M. Reisert, S. Schnell, J. Hennig, D. von Elverfeldt, and J. F. Staiger
  [Abstract] " Validation of In Vivo Mouse Brain Fiber Tracking with Correlative Axonal Tracing in Wild-Type and Reeler Animals"
  Proceedings of the 18th Annual Meeting ISMRM 2010, Stockholm/Sweden

2009

• Marco Reisert, Irina Mader, Valerij Kiselev
  " Tracking a Physical Phantom by Global Fibre Reconstruction"
  MICCAI 2009, Fiber Cup 2009, Award Winning Program

• Marco Reisert, Irina Mader, Valerij Kiselev
  " Global Reconstruction of Neuronal Fibers"
  MICCAI 2009, Workshop on Diffusion Modelling and the Fiber Cup, London 2009

• Henrik Skibbe, Marco Reisert, Qing Wang, Olaf Ronneberger, Hans Burkhardt
  " Fast Computation of 3D Spherical Fourier Harmonic Descriptors - A Complete Orthonormal Basis for a Rotational Invariant Representation of Three-Dimensional Objects"
  IEEE International Workshop on 3-D Digital Imaging and Modeling (3DIM'09), in conjunction with the ICCV'09, Kyoto, Japan

• Marco Reisert, Hans Burkhardt
  " Harmonic Filters for Generic Feature Detection in 3D"
  DAGM-Symposium 2009: pages 131-140

• Alexander Schneider, Juergen Sturm, Cyrill Stachniss, Marco Reisert, Hans Burkhardt, and Wolfram Burgard
  " Object Identification with Tactile Sensors Using Bag-of-Features"
  In Proc. of the IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), 2009

• Janis Fehr, Marco Reisert, Hans Burkhardt
  " Cross-Correlation and Rotation Estimation of Local 3D Vector Field Patches"
  ISVC (1) 2009: pages 287-296.

• Henrik Skibbe, Marco Reisert, Olaf Ronneberger, Hans Burkhardt
  " Increasing the Dimension of Creativity in Rotation Invariant Feature Design Using 3D Tensorial Harmonics"
  DAGM-Symposium 2009: pages 141-150.

2008

• J. Fehr, M. Reisert and H. Burkhardt
  " Fast and Accurate Rotation Estimation on the 2-Sphere without Correspondences"
  ECCV (2) 2008: pages 239-251.

• M. Reisert and H. Burkhardt
  " Efficient Tensor Voting with 3D Tensorial Harmonics"
  CVPR Workshop on Tensors, 2008, Anchorage, Alaska

• J. Fehr, O. Ronneberger, J. Schulz, T. Schmidt, M. Reisert and H. Burkhardt
  " Invariance via Group-Integration: A Feature Framework for 3D Biomedical Image Analysis"
  Proceedings of Computer Graphics and Imaging (CGIM), 2008, Innsbruck, Austria

2007

• Marco Reisert, Olaf Ronneberger and Hans Burkhardt
  " A Fast and Reliable Coin Recognition System"
  Proceedings of the DAGM'07, Heidelberg, pages 415-424, (pdf)

• Marco Reisert, Olaf Ronneberger and Hans Burkhardt
  " Holomorphic Filters for Object Detection"
  Proceedings of the DAGM'07, Heidelberg, pages 304-313, (pdf)

• Maja Temerinac, Marco Reisert and Hans Burkhardt
  " SHREC'07 - Protein Retrieval Challenge
  Proceedings of Shape Modelling International 2007 Lyon, France (pdf)

• Maja Temerinac, Marco Reisert and Hans Burkhardt
  " Protein structure description by invariant features for classification and retrieval in large data bases
  Image Analysis and in Vivo Pharmachology (IAVP) Roskilde, Denmark

2006

• Marco Reisert, Olaf Ronneberger and Hans Burkhardt
  "An Efficient Gradient Based Registration Technique for Coin Recognition"
  Competetion winning program!
  Proceedings of the Muscle CIS Coin Competition Workshop, Sep.11, 2006, Berlin, Germany, pages 19-31 (pdf)

• Marco Reisert and Hans Burkhardt
  "Irreducible Group Representation for 3D Shape Description"
  Proceedings of the DAGM'06, Berlin, Germany, pages 132-142 (pdf)

• Marco Reisert and Hans Burkhardt
  "Feature Selection for Retrieval Purposes"
  Proceedings of the ICIAR'06, Pavoa do Varzim, Portugal, Vol.1, pages 661-672 (pdf)

• Marco Reisert and Hans Burkhardt.
  "Invariant Features for 3D-Data based on Group Integration using Directional Information and Spherical Harmonic Expansion"
  Proceedings of the ICPR'06, Hong Kong, pages - (pdf)

2005

• Marco Reisert and Hans Burkhardt.
  "Averaging Similarity Weighted Group Representations for Pose Estimation"
  In Proceedings of Image and Vision Computing New Zealand 2005, IVCNZ'05, pages 438-443 (pdf)

2004

• H.Burkhardt and M.Reisert and H.Li.
  "Invariants for Discrete Structures - An Extension of Haar Integrals over Transformation Groups of Dirac Delta Functions", (pdf)
  In C.E.Rasmussen and H. Bülthoff and M.A.Giese and B.Schölkopf, editors Proceedings of the 26th DAGM Symposium, Tübingen, Germany, Aug./Sep. 2004.

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Technical Reports

• M Reisert, H Skibbe
  "Left-Invariant Diffusion on the Motion Group in terms of the Irreducible Representations of SO(3)"
  Arxiv preprint 2012 arXiv:1202.5414

• Marco Reisert.
  "Harmonic Filters in 3D - Theory and Applications "
  Albert-Ludwigs-Universität Freiburg, Internal Report 1, February 2009 (pdf)

• Marco Reisert.
  "Efficient Tensor Voting with 3D Tensorial Harmonics "
  Albert-Ludwigs-Universität Freiburg, Internal Report 2, February 2008 (pdf)

• Marco Reisert.
  "Rotation Invariant Object Detection with Matrix-Valued Kernels"
  Albert-Ludwigs-Universität Freiburg, Internal Report 1, January 2008 (pdf)

• Marco Reisert.
  "Spherical Derivatives for Steerable Filtering in 3D"
  Albert-Ludwigs-Universität Freiburg, Internal Report 3, November 2007 (pdf)

• Marco Reisert.
  "Equivariant Holomorphic Filters - Theory and Applications"
  Albert-Ludwigs-Universität Freiburg, Internal Report 2, April 2007 (pdf)

• Marco Reisert.
  "Learning Equivariant Functions with Matrix Valued Kernels - Theory and Applications"
  Albert-Ludwigs-Universität Freiburg, Internal Report 1, June 2006 (pdf)

• Marco Reisert.
  "The Connection of Shape Distributions and Haar Integrals"
  Albert-Ludwigs-Universität Freiburg, Internal Report 3, April 2005 (pdf)

• Marco Reisert.
  "A New Technique For Matching in Large Databases"
  Albert-Ludwigs-Universität Freiburg, Internal Report 1, March 2005 (pdf)

• Marco Reisert, Diploma Thesis
  "Invariante Merkmalsextraktion für Drahgittermodelle", Albert-Ludwigs-Universiät Freiburg, Feb 2004, (pdf) , Slides (pdf)

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Software

• Global Tractography
• Spherical Tensor Algebra Toolkit
• Tensor Divergence Toolkit Matlab

Awards

• Fibercup 2009, MICCAI London, Award Winning Method

• Nominated for the GI-Dissertationspreis 2008 (best Dissertation in Computer Science in Germany, Austria and Switzerland, 2008) of the Gesellschaft für Informatik

• CIS Coin Recognition Competetion 2006, DAGM Berlin, Award Winning Method

Some Videos

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