H. Martin Kjer

Email

Tel.

+45 2447 7594

Position

Postdoc

Research Interests

Broadly spanning engineering of image processing/analysis tasks, wherever they are needed to solve interesting problems (primarily of the biomedical kind). This includes image-segmentation,
-registration, -reconstruction, statistical modelling, optimization, machine learning and data visualization.
Currently involved in a project with the aim of using large-scale facilities such as the MAXIV Synchrotron and link it to preclinical MRI research. The data obtained from these sources are typically huge, and it is often a struggle to extract the desired quantitative information.

Curriculum Vitae

Employments

2017 - Present

Postdoc at DRCMR & DTU

2016 - 2017

Postdoc at DTU

2015 - 2016

Research Assistant at DTU

2012 - 2015

Ph.D. student at DTU

Publications

Kjer, Hans Martin; Dong, Yiqiu; Hansen, Per Christian. User-friendly simultaneous tomographic reconstruction and segmentation with class priors. Proceedings of 6th International Conference on Scale Space and Variational Methods in Computer Vision. Vol. 10302 Springer, 2017. p. 260-270 (Lecture Notes in Computer Science, Vol. 10302). Publication: Research - peer-review › Article in proceedings – Annual report year: 2017.

Ruiz Pujadas, Esmeralda; Kjer, Hans Martin; Vera, Sergio; Ceresa, Mario; González Ballester, Miguel Angel. Cochlea Segmentation using Iterated Random Walks with Shape Prior. Proceedings of SPIE. Vol. 9784 SPIE - International Society for Optical Engineering, 2016. (Proceedings of SPIE, the International Society for Optical Engineering, Vol. 9784). Publication: Research - peer-review › Article in proceedings – Annual report year: 2017.

Braithwaite, Benjamin Michael; Kjer, Hans Martin; Fagertun, Jens; González Ballester, Miguel Angel; Dhanasingh, Anandhan ; Mistrik, Pavel; Gerber, Nicolas ; Paulsen, Rasmus Reinhold. Cochlear implant electrode localization in post-operative CT using a spherical measure. Proceedings of the 13th IEEE International Symposium on Biomedical Imaging (ISBI 2016) . IEEE, 2016. p. 1329-1333. Publication: Research - peer-review › Article in proceedings – Annual report year: 2016. 

Pujadas, Esmeralda Ruiz; Kjer, Hans Martin; Piella, Gemma; González Ballester, Miguel Angel. Iterated random walks with shape prior. In: Image and Vision Computing, Vol. 54, 2016, p. 12-21. Publication: Research - peer-review › Journal article – Annual report year: 2016.

Kjer, Hans Martin; Paulsen, Rasmus Reinhold (Supervisor). Modelling of the Human Inner Ear Anatomy and Variability for Cochlear Implant Applications. Kgs. Lyngby: Technical University of Denmark (DTU), 2016. 219 p. (DTU Compute PHD-2015; No. 381). Publication: Research › Ph.D. thesis – Annual report year: 2016.

Mangado Lopez, Nerea; Ceresa, Mario; Dejea Velardo, Hector; Kjer, Hans Martin; Vera, Sergio; Paulsen, Rasmus Reinhold; Fagertun, Jens; Mistrik, Pavel; Piella, Gemma; González Ballester, Miguel Angel. Monopolar Stimulation of the Implanted Cochlea: A Synthetic Population-Based Study. Revised Selected Papers of the 4th International Workshop Clinical Image-Based Procedures: Translational Research in Medical Imaging (CLIP 2015). Springer, 2016. p. 96-103 (Lecture Notes in Computer Science, Vol. 9401). Publication: Research - peer-review › Article in proceedings – Annual report year: 2016.

Romera, Jordi; Kjer, H. Martin; Piella, Gemma; Ceresa, Mario; González Ballester, Miguel A. Multi-region Statistical Shape Model for Cochlear Implantation. SPIE Medical Imaging 2016: Image Processing. SPIE - International Society for Optical Engineering, 2016. 97840T (Proceedings of SPIE, the International Society for Optical Engineering, Vol. 9784). Publication: Research - peer-review › Article in proceedings – Annual report year: 2016.

Ruiz Pujadas, Esmeralda; Kjer, Hans Martin; Piella, Gemma; Ceresa, Mario; González Ballester, Miguel Angel.Random walks with shape prior for cochlea segmentation in ex vivo μCT. In: International Journal of Computer Assisted Radiology and Surgery, Vol. 11, No. 9, 2016, p. 1647-1659. Publication: Research - peer-review › Journal article – Annual report year: 2016.

Pujadas, Esmeralda Ruiz; Kjer, Hans Martin; Piella, Gemma; Ballester, Miguel Angel González. Statistical shape model with random walks for inner ear segmentation. Revised Selected Papers of the 1st International Workshop on Spectral and Shape Analysis in Medical Imaging (SeSAMI 2016). Springer, 2016. p. 92-102 (Lecture Notes in Computer Science, Vol. 10126). Publication: Research - peer-review › Article in proceedings – Annual report year: 2016.

Mangado Lopez, Nerea; Ceresa, Mario; Duchateau, Nicolas; Kjer, Hans Martin; Vera, Sergio; Dejea Velardo, Hector; Mistrik, Pavel; Paulsen, Rasmus Reinhold; Fagertun, Jens; Noailly, Jérome ; Piella, Gemma; González Ballester, Miguel Angel. Automatic Model Generation Framework for Computational Simulation of Cochlear Implantation. In: Annals of Biomedical Engineering, Vol. 44, No. 8, 2016, p. 2453-2463. Publication: Research - peer-review › Journal article – Annual report year: 2015.

Kjer, Hans Martin; Fagertun, Jens; Vera, Sergio; Gil, Debora; González Ballester, Miguel Angel; Paulsen, Rasmus Reinhold. Free-form image registration of human cochlear μCT data using skeleton similarity as anatomical prior. In: Pattern Recognition Letters, Vol. 76, No. June, 2016, p. 76-82. Publication: Research - peer-review › Journal article – Annual report year: 2015.

Mangado, N. ; Ceresa, M.; Duchateau, N. ; Dejea Velardo, H.; Kjer, Hans Martin; Paulsen, Rasmus Reinhold; Vera, S.; Mistrik, Pavel; Herrero, J. ; Ballester, M.Á. González. Automatic Generation of a Computational Model for Monopolar Stimulation of Cochlear Implants. In: International Journal of Computer Assisted Radiology and Surgery, Vol. 10, No. Supplement 1, 2015, p. S67-S68. Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2015.

Vera, S.; Caro, R.; Perez, F.; Bordone, M.; Herrero, J.; Kjer, Hans Martin; Fagertun, Jens; Paulsen, Rasmus Reinhold; Dhanasingh, A.; Ballester, M.Á. González. Cochlear Implant Planning, Selection and Simulation with Patient Specific Data. /  In: International Journal of Computer Assisted Radiology and Surgery, Vol. 10, No. Supplement 1, 2015, p. S43-S44. Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2015.

Kjer, Hans Martin; Vera, Sergio; Fagertun, Jens; Gil, Debora; González Ballester, Miguel Angel; Paulsen, Rasmus Reinhold. Image Registration of Cochlear µCT Data Using Heat Distribution Similarity. / Image Analysis: 19th Scandinavian Conference, SCIA 2015 Copenhagen, Denmark, June 15–17, 2015 Proceedings. ed. / Rasmus R. Paulsen; Kim S. Pedersen. Springer Science+Business Media B.V., 2015. p. 234-245 (Lecture Notes in Computer Science, Vol. 9127). Publication: Research - peer-review › Article in proceedings – Annual report year: 2015.

Mangado, N. ; Duchateau, N. ; Ceresa, M.; Kjer, Hans Martin; Vera, S.; Mistrik, Pavel; Herrero, J. ; Ballester, M.Á. González.Patient-Specific Virtual Insertion of Electrode Array for Electrical Simulations of Cochlear Implants. In: International Journal of Computer Assisted Radiology and Surgery, Vol. 10, No. Supplement 1, 2015, p. S102-S103. Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2015.

Kjer, Hans Martin; Vera, S.; Fagertun, Jens; Peréz, F.; Herrero, J. ; Ballester, M.Á. González ; Paulsen, Rasmus Reinhold. Predicting Detailed Inner Ear Anatomy from Pre-Oppreoperational CT for cochlear implant surgery. In: International Journal of Computer Assisted Radiology and Surgery, Vol. 10, No. Supplement 1, 2015, p. S98-S99. Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2015.

Dal Corso, Alessandro; Olsen, Mikkel Damgaard; Steenstrup, Kasper Hornbak; Wilm, Jakob; Jensen, Sebastian Hoppe Nesgaard; Paulsen, Rasmus Reinhold; Eiríksson, Eyþór Rúnar; Nielsen, Jannik Boll; Frisvad, Jeppe Revall; Einarsson, Gudmundur; Kjer, Hans Martin. VirtualTable: a projection augmented reality game. Proceedings of SIGGRAPH Asia 2015 Posters. Association for Computing Machinery, 2015. 40. Publication: Research - peer-review › Conference abstract in proceedings – Annual report year: 2015.

Edmund, Jens Morgenthaler; Kjer, Hans Martin; Van Leemput, Koen; Hansen, Rasmus H.; Andersen, Jon Al; Andreasen, Daniel.A voxel-based investigation for MRI-only radiotherapy of the brain using ultra short echo times. In: Physics in Medicine and Biology, Vol. 59, No. 23, 2014, p. 7501-7519. Publication: Research - peer-review › Journal article – Annual report year: 2014.

Vera, Sergio; Perez, Frederic ; Balust, Clara ; Trueba, Ramon ; Rubió, Jordi ; Calvo, Raul ; Mazaira, Xavier ; Danasingh, Anandhan ; Barazzetti, Livia; Reyes, Mauricio; Ceresa, Mario; Fagertum, Jens; Kjer, Hans Martin; Paulsen, Rasmus Reinhold; González Ballester, Miguel Angel.Patient Specific Simulation for Planning of Cochlear Implantation Surgery. Clinical Image-based Procedures: Translational Research in Medical Imaging : Third International Workshop on Clinical Image-based Procedures. Revised Selected Papers.. ed. / Marius George Linguraru; Cristina Oyarzun Laura; Raj Shekhar; Stefan Wesarg; Miguel Ángel González Ballester; Klaus Drechsler; Yoshinobu Sato; Marius Erdt. Springer, 2014. p. 101-108 (Lecture Notes in Computer Science, Vol. 8680). Publication: Research - peer-review › Article in proceedings – Annual report year: 2014.

Ceresa, Mario; Mangado Lopez, Nerea; Dejea Velardo, Hector; Herrezuelo, Noemi Carranza ; Mistrik, Pavel; Kjer, Hans Martin; Vera, Sergio; Paulsen, Rasmus Reinhold; González Ballester, Miguel Angel. Patient-Specific Simulation of Implant Placement and Function for Cochlear Implantation Surgery Planning. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2014: Proceedings of the 17th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Part II. ed. / Polina Golland; Nobuhiko Hata; Christian Barillot; joachim Hornegger; Robert Howe. Springer, 2014. p. 49-56 (Lecture Notes in Computer Science, Vol. 8674). Publication: Research - peer-review › Article in proceedings – Annual report year: 2014.

Kjer, Hans Martin; Fagertun, Jens; Vera, Sergio; González Ballester, Miguel Angel; Paulsen, Rasmus Reinhold. Shape modelling of the inner ear from micro-CT data. Proceedings of Symposium on Statistical Shape Models & Applications, Shape 2014. 2014. p. 21 015. Publication: Research - peer-review › Conference abstract in proceedings – Annual report year: 2014.

Edmund, J. M.; Kjer, Hans Martin; Hansen, R. H. Auto-Segmentation of Bone in MRI-only Based Radiotherapy Using Ultra Short Echo Time. In: Radiotherapy & Oncology, Vol. 103, No. Supplement 1, 2012, p. S75. Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2012

Kjer, Hans Martin; Hansen, R. H.; Paulsen, Rasmus Reinhold; Edmund, J. M. Optimized Acquisition Parameters for MRI Only RT Using Ultrashort Echo Times. In: International Journal of Radiation: Oncology - Biology - Physics, Vol. 84, No. 3, Supplement, 2012, p. S866. Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2012.

Kjer, Hans Martin; Olesen, Oline Vinter; Paulsen, Rasmus Reinhold; Højgaard, Liselotte; Roed, Bjarne; Larsen, Rasmus. Geometric calibration between PET scanner and structured light scanner. Proceedings of the MICCAI workshop on Mesh Processing in Medical Image Analysis (MeshMed). 2011. Publication: Research - peer-review › Article in proceedings – Annual report year: 2011.