Erik Meijering

Professor of Biomedical Image Computing
Professor

Erik Meijering is a Professor of Biomedical Image Computing in the School of Computer Science and Engineering. His research focuses on the development of innovative computer vision and machine learning (in particular deep learning) methods for automated quantitative analysis of biomedical imaging data.

He received the MSc degree in Electrical Engineering from Delft University of Technology (Delft, the Netherlands) in 1996 and the PhD degree in Medical Image Analysis from Utrecht University (Utrecht, the Netherlands) in 2000. Before coming to the University of New South Wales (UNSW, Sydney, Australia) in 2019, he was a Postdoctoral Fellow at the Swiss Federal Institute of Technology (Lausanne, Switzerland) from 2000-2002, an Assistant Professor at Erasmus University Medical Center (Rotterdam, the Netherlands) from 2002-2008, and an Associate Professor at the same institute from 2008-2019.

Since 2019 he is a Fellow of the Institute of Electrical and Electronics Engineers (IEEE). Within IEEE he is a member of the Signal Processing Society (SPS) and the Engineering in Medicine and Biology Society (EMBS), and served/serves on the SPS Technical Committee on Bio Imaging and Signal Processing (BISP) (2005-2010 and 2017-2020), the SPS Technical Directions Board (2018-2019), the EMBS Technical Committee on Biomedical Imaging and Image Processing (BIIP) (since 2007), and the cross-Society IEEE Life Sciences Technical Community (LSTC) (since 2018).

Over the years he was/is an Associate Editor for the IEEE Transactions on Medical Imaging (since 2004), the International Journal on Biomedical Imaging (2006-2009), the IEEE Transactions on Image Processing (2008-2011), has co-edited various journal special issues on topics related to biomedical imaging, and has co-organized various conferences in the field, notably the IEEE International Symposium on Biomedical Imaging (ISBI 2002, 2004, 2006, 2010, 2015, 2018). He also served/serves on a great variety of other international conference, advisory, and review boards.

publications

Journal articles
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Lin Z; Wu B; Paul MW; Li KW; Yao Y; Smal I; Onori MP; Hasanbegovic H; Bezstarosti K; Demmers J; Houtsmuller AB; Meijering E; Hoebeek FE; Schonewille M; Smit AB; Gao Z; De Zeeuw CI, 2021, 'Protein phosphatase 2B dual function facilitates synaptic integrity and motor learning.', J Neurosci, http://dx.doi.org/10.1523/JNEUROSCI.1741-20.2021
2021
Chen W; Liu M; Zhan Q; Tan Y; Meijering E; Radojevic M; Wang Y, 2021, 'Spherical-Patches Extraction for Deep-Learning-Based Critical Points Detection in 3D Neuron Microscopy Images', IEEE Transactions on Medical Imaging, vol. 40, pp. 527 - 538, http://dx.doi.org/10.1109/TMI.2020.3031289
2021
Shen L; Liu M; Wang C; Guo C; Meijering E; Wang Y, 2021, 'Efficient 3D Junction Detection in Biomedical Images Based on a Circular Sampling Model and Reverse Mapping', IEEE Journal of Biomedical and Health Informatics, vol. 25, pp. 1612 - 1623, http://dx.doi.org/10.1109/JBHI.2020.3036743
2021
Rana P; Sowmya A; Meijering E; Song Y, 2021, 'Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation', Scientific Reports, vol. 11, http://dx.doi.org/10.1038/s41598-021-82985-9
2021
Jiang Y; Chen W; Liu M; Wang Y; Meijering E, 2021, '3D Neuron Microscopy Image Segmentation via the Ray-Shooting Model and a DC-BLSTM Network', IEEE Transactions on Medical Imaging, vol. 40, pp. 26 - 37, http://dx.doi.org/10.1109/TMI.2020.3021493
2021
Serra-Marques A; Martin M; Katrukha EA; Grigoriev I; Peeters CAE; Liu Q; Hooikaas PJ; Yao Y; Solianova V; Smal I; Pedersen LB; Meijering E; Kapitein LC; Akhmanova A, 2020, 'Concerted action of kinesins kif5b and kif13b promotes efficient secretory vesicle transport to microtubule plus ends', eLife, vol. 9, pp. 1 - 37, http://dx.doi.org/10.7554/eLife.61302
2020
Meijering E, 2020, 'A bird's-eye view of deep learning in bioimage analysis', Computational and Structural Biotechnology Journal, vol. 18, pp. 2312 - 2325, http://dx.doi.org/10.1016/j.csbj.2020.08.003
2020
Yao Y; Smal I; Grigoriev I; Akhmanova A; Meijering E, 2020, 'Deep-learning method for data association in particle tracking', Bioinformatics, vol. 36, pp. 4935 - 4941, http://dx.doi.org/10.1093/bioinformatics/btaa597
2020
Radojević M; Meijering E, 2019, 'Automated Neuron Reconstruction from 3D Fluorescence Microscopy Images Using Sequential Monte Carlo Estimation', Neuroinformatics, vol. 17, pp. 423 - 442, http://dx.doi.org/10.1007/s12021-018-9407-8
2019
Castilla C; Maska M; Sorokin DV; Meijering E; Ortiz-De-Solorzano C, 2019, '3-D quantification of filopodia in motile cancer cells', IEEE Transactions on Medical Imaging, vol. 38, pp. 862 - 872, http://dx.doi.org/10.1109/TMI.2018.2873842
2019
Kuil LE; Oosterhof N; Geurts SN; Van Der Linde HC; Meijering E; Van Ham TJ, 2019, 'Reverse genetic screen reveals that Il34 facilitates yolk sac macrophage distribution and seeding of the brain', DMM Disease Models and Mechanisms, vol. 12, http://dx.doi.org/10.1242/dmm.037762
2019
Fehri H; Gooya A; Lu Y; Meijering E; Johnston SA; Frangi AF, 2019, 'Bayesian Polytrees with Learned Deep Features for Multi-Class Cell Segmentation', IEEE Transactions on Image Processing, vol. 28, pp. 3246 - 3260, http://dx.doi.org/10.1109/TIP.2019.2895455
2019
Mata G; Radojević M; Fernandez-Lozano C; Smal I; Werij N; Morales M; Meijering E; Rubio J, 2019, 'Automated Neuron Detection in High-Content Fluorescence Microscopy Images Using Machine Learning', Neuroinformatics, vol. 17, pp. 253 - 269, http://dx.doi.org/10.1007/s12021-018-9399-4
2019
Arts M; Smal I; Paul MW; Wyman C; Meijering E, 2019, 'Particle Mobility Analysis Using Deep Learning and the Moment Scaling Spectrum', Scientific Reports, vol. 9, http://dx.doi.org/10.1038/s41598-019-53663-8
2019
Meijering E; Munoz-Barrutia A, 2018, 'Spotlight on Bioimaging and Signal Processing [In the Spotlight]', IEEE Signal Processing Magazine, vol. 35, http://dx.doi.org/10.1109/MSP.2018.2864772
2018
Yang C; Wu J; de Heus C; Grigoriev I; Liv N; Yao Y; Smal I; Meijering E; Klumperman J; Qi RZ; Akhmanova A, 2017, 'EB1 and EB3 regulate microtubule minus end organization and Golgi morphology', Journal of Cell Biology, vol. 216, pp. 3179 - 3198, http://dx.doi.org/10.1083/jcb.201701024
2017
Radojević M; Meijering E, 2017, 'Automated neuron tracing using probability hypothesis density filtering', Bioinformatics, vol. 33, pp. 1073 - 1080, http://dx.doi.org/10.1093/bioinformatics/btw751
2017
Peng H; Zhou Z; Meijering E; Zhao T; Ascoli GA; Hawrylycz M, 2017, 'Automatic tracing of ultra-volumes of neuronal images', Nature Methods, vol. 14, pp. 332 - 333, http://dx.doi.org/10.1038/nmeth.4233
2017
Ulman V; Maška M; Magnusson KEG; Ronneberger O; Haubold C; Harder N; Matula P; Matula P; Svoboda D; Radojevic M; Smal I; Rohr K; Jaldén J; Blau HM; Dzyubachyk O; Lelieveldt B; Xiao P; Li Y; Cho SY; Dufour AC; Olivo-Marin JC; Reyes-Aldasoro CC; Solis-Lemus JA; Bensch R; Brox T; Stegmaier J; Mikut R; Wolf S; Hamprecht FA; Esteves T; Quelhas P; Demirel Ö; Malmström L; Jug F; Tomancak P; Meijering E; Muñoz-Barrutia A; Kozubek M; Ortiz-De-Solorzano C, 2017, 'An objective comparison of cell-tracking algorithms', Nature Methods, vol. 14, pp. 1141 - 1152, http://dx.doi.org/10.1038/nmeth.4473
2017
Meijering E; Carpenter AE; Peng H; Hamprecht FA; Olivo-Marin JC, 2016, 'Imagining the future of bioimage analysis', Nature Biotechnology, vol. 34, pp. 1250 - 1255, http://dx.doi.org/10.1038/nbt.3722
2016
Radojević M; Smal I; Meijering E, 2016, 'Fuzzy-Logic Based Detection and Characterization of Junctions and Terminations in Fluorescence Microscopy Images of Neurons', Neuroinformatics, vol. 14, pp. 201 - 219, http://dx.doi.org/10.1007/s12021-015-9287-0
2016
Ortiz-De-Solórzano C; Muñoz-Barrutia A; Meijering E; Kozubek M, 2015, 'Toward a morphodynamic model of the cell: Signal processing for cell modeling', IEEE Signal Processing Magazine, vol. 32, pp. 20 - 29, http://dx.doi.org/10.1109/MSP.2014.2358263
2015
Muñoz-Barrutia A; Kovačević J; Kozubek M; Meijering E; Parvin B, 2015, 'Quantitative bioimaging: Signal processing in light microscopy', IEEE Signal Processing Magazine, vol. 32, pp. 18 - 19, http://dx.doi.org/10.1109/MSP.2014.2359691
2015
Spanjaard E; Smal I; Angelopoulos N; Verlaan I; Matov A; Meijering E; Wessels L; Bos H; de Rooij J, 2015, 'Quantitative imaging of focal adhesion dynamics and their regulation by HGF and Rap1 signaling', Experimental Cell Research, vol. 330, pp. 382 - 397, http://dx.doi.org/10.1016/j.yexcr.2014.10.012
2015
Plenge E; Klein SS; Niessen WJ; Meijering E, 2015, 'Multiple sparse representations classification', PLoS ONE, vol. 10, http://dx.doi.org/10.1371/journal.pone.0131968
2015
Peng H; Meijering E; Ascoli GA, 2015, 'From DIADEM to BigNeuron', Neuroinformatics, vol. 13, pp. 259 - 260, http://dx.doi.org/10.1007/s12021-015-9270-9
2015
Peng H; Hawrylycz M; Roskams J; Hill S; Spruston N; Meijering E; Ascoli GA, 2015, 'BigNeuron: Large-Scale 3D Neuron Reconstruction from Optical Microscopy Images', Neuron, vol. 87, pp. 252 - 256, http://dx.doi.org/10.1016/j.neuron.2015.06.036
2015
Reuter M; Zelensky A; Smal I; Meijering E; van Cappellen WA; de Gruiter HM; van Belle GJ; van Royen ME; Houtsmuller AB; Essers J; Kanaar R; Wyman C, 2015, 'BRCA2 diffuses as oligomeric clusters with RAD51 and changes mobility after DNA damage in live cells (vol 207, pg 599, 2014)', JOURNAL OF CELL BIOLOGY, vol. 208, pp. 857 - 857, http://dx.doi.org/10.1083/jcb.20140501402182015c
2015
Reuter M; Zelensky A; Smal I; Meijering E; van Cappellen WA; Martijn de Gruiter H; van Belle GJ; van Royen ME; Houtsmuller AB; Essers J; Kanaar R; Wyman C, 2015, 'Correction to: "BRCA2 diffuses as oligomeric clusters with RAD51 and changes mobility after DNA damage in live cells" [J. Cell Biol. Vol. 207 No. 5, December 8, 2014. Pages 599-613]', Journal of Cell Biology, vol. 208, pp. 857 - 857, http://dx.doi.org/10.1083/jcb.20140501402182015c
2015
Smal I; Meijering E, 2015, 'Quantitative comparison of multiframe data association techniques for particle tracking in time-lapse fluorescence microscopy', Medical Image Analysis, vol. 24, pp. 163 - 189, http://dx.doi.org/10.1016/j.media.2015.06.006
2015
Krüger AV; Jelier R; Dzyubachyk O; Zimmerman T; Meijering E; Lehner B, 2015, 'Comprehensive single cell-resolution analysis of the role of chromatin regulators in early C. elegans embryogenesis', Developmental Biology, vol. 398, pp. 153 - 162, http://dx.doi.org/10.1016/j.ydbio.2014.10.014
2015
Plenge E; Klein S; Niessen WJ; Meijering E, 2015, 'Erratum: Multiple sparse representations classification (PLoS ONE (2015) 10:7 (e0131968) (Doi:10.1371/journal.pone.0131968))', PLoS ONE, vol. 10, http://dx.doi.org/10.1371/journal.pone.0136827
2015
Poole DS; Plenge E; Poot DHJ; Lakke EAJF; Niessen WJ; Meijering E; van der Weerd L, 2014, 'Three-dimensional inversion recovery manganese-enhanced MRI of mouse brain using super-resolution reconstruction to visualize nuclei involved in higher brain function', NMR in Biomedicine, vol. 27, pp. 749 - 759, http://dx.doi.org/10.1002/nbm.3108
2014
Reuter M; Zelensky A; Smal I; Meijering E; van Cappellen WA; de Gruiter HM; van Belle GJ; van Royen ME; Houtsmuller AB; Essers J; Kanaar R; Wyman C, 2014, 'BRCA2 diffuses as oligomeric clusters with RAD51 and changes mobility after DNA damage in live cells', Journal of Cell Biology, vol. 207, pp. 599 - 613, http://dx.doi.org/10.1083/jcb.201405014
2014
Ramnath NWM; Van De Luijtgaarden KM; Van Der Pluijm I; Van Nimwegen M; Van Heijningen PM; Swagemakers SMA; Van Thiel BS; Ridwan RY; Van Vliet N; Vermeij M; Hawinkels LJAC; De Munck A; Dzyubachyk O; Meijering E; Van Der Spek P; Rottier R; Yanagisawa H; Hendriks RW; Kanaar R; Rouwet EV; Kleinjan A; Essers J, 2014, 'Extracellular matrix defects in aneurysmal Fibulin-4 mice predispose to lung emphysema', PLoS ONE, vol. 9, http://dx.doi.org/10.1371/journal.pone.0106054
2014
Chenouard N; Smal I; De Chaumont F; Maška M; Sbalzarini IF; Gong Y; Cardinale J; Carthel C; Coraluppi S; Winter M; Cohen AR; Godinez WJ; Rohr K; Kalaidzidis Y; Liang L; Duncan J; Shen H; Xu Y; Magnusson KEG; Jaldén J; Blau HM; Paul-Gilloteaux P; Roudot P; Kervrann C; Waharte F; Tinevez JY; Shorte SL; Willemse J; Celler K; Van Wezel GP; Dan HW; Tsai YS; De Solórzano CO; Olivo-Marin JC; Meijering E, 2014, 'Objective comparison of particle tracking methods', Nature Methods, vol. 11, pp. 281 - 289, http://dx.doi.org/10.1038/nmeth.2808
2014
Maška M; Ulman V; Svoboda D; Matula P; Matula P; Ederra C; Urbiola A; España T; Venkatesan S; Balak DMW; Karas P; Bolcková T; Štreitová M; Carthel C; Coraluppi S; Harder N; Rohr K; Magnusson KEG; Jaldén J; Blau HM; Dzyubachyk O; Křížek P; Hagen GM; Pastor-Escuredo D; Jimenez-Carretero D; Ledesma-Carbayo MJ; Muñoz-Barrutia A; Meijering E; Kozubek M; Ortiz-De-Solorzano C, 2014, 'A benchmark for comparison of cell tracking algorithms', Bioinformatics, vol. 30, pp. 1609 - 1617, http://dx.doi.org/10.1093/bioinformatics/btu080
2014
Dzyubachyk O; Khmelinskii A; Plenge E; Kok P; Snoeks TJA; Poot DHJ; Lowik CWGM; Botha CP; Niessen WJ; Van Der Weerd L; Meijering E; Lelieveldt BPF, 2014, 'Interactive local super-resolution reconstruction of whole-body MRI mouse data: A pilot study with applications to bone and kidney metastases', PLoS ONE, vol. 9, http://dx.doi.org/10.1371/journal.pone.0108730
2014
Plenge E; Poot DHJ; Niessen WJ; Meijering E, 2013, 'Super-resolution reconstruction using cross-scale self-similarity in multi-slice MRI', Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 8151 LNCS, pp. 123 - 130, http://dx.doi.org/10.1007/978-3-642-40760-4_16
2013
Mohan R; Katrukha EA; Doodhi H; Smal I; Meijering E; Kapitein LC; Steinmetz MO; Akhmanova A, 2013, 'End-binding proteins sensitize microtubules to the action of microtubule-targeting agents', Proceedings of the National Academy of Sciences of the United States of America, vol. 110, pp. 8900 - 8905, http://dx.doi.org/10.1073/pnas.1300395110
2013
Smal I; Carranza-Herrezuelo N; Klein S; Wielopolski P; Moelker A; Springeling T; Bernsen M; Niessen W; Meijering E, 2012, 'Reversible jump MCMC methods for fully automatic motion analysis in tagged MRI', Medical Image Analysis, vol. 16, pp. 301 - 324, http://dx.doi.org/10.1016/j.media.2011.08.006
2012
Plenge E; Poot DHJ; Bernsen M; Kotek G; Houston G; Wielopolski P; Van Der Weerd L; Niessen WJ; Meijering E, 2012, 'Super-resolution methods in MRI: Can they improve the trade-off between resolution, signal-to-noise ratio, and acquisition time?', Magnetic Resonance in Medicine, vol. 68, pp. 1983 - 1993, http://dx.doi.org/10.1002/mrm.24187
2012
Meijering E, 2012, 'Cell segmentation: 50 Years down the road [life Sciences]', IEEE Signal Processing Magazine, vol. 29, pp. 140 - 145, http://dx.doi.org/10.1109/MSP.2012.2204190
2012
Agarwal S; Van Cappellen WA; Guénolé A; Eppink B; Linsen SEV; Meijering E; Houtsmuller A; Kanaar R; Essers J, 2011, 'ATP-dependent and independent functions of Rad54 in genome maintenance', Journal of Cell Biology, vol. 192, pp. 735 - 750, http://dx.doi.org/10.1083/jcb.201011025
2011
Buey RM; Mohan R; Leslie K; Walzthoeni T; Missimer JH; Menzel A; Bjelić S; Bargsten K; Grigoriev I; Smal I; Meijering E; Aebersold R; Akhmanova A; Steinmetz MO, 2011, 'Insights into EB1 structure and the role of its c-terminal domain for discriminating microtubule tips from the lattice', Molecular Biology of the Cell, vol. 22, pp. 2912 - 2923, http://dx.doi.org/10.1091/mbc.E11-01-0017
2011
Grigoriev I; Yu KL; Martinez-Sanchez E; Serra-Marques A; Smal I; Meijering E; Demmers J; Peränen J; Pasterkamp RJ; Van Der Sluijs P; Hoogenraad CC; Akhmanova A, 2011, 'Rab6, Rab8, and MICAL3 cooperate in controlling docking and fusion of exocytotic carriers', Current Biology, vol. 21, pp. 967 - 974, http://dx.doi.org/10.1016/j.cub.2011.04.030
2011
Stepanova T; Smal I; Van Haren J; Akinci U; Liu Z; Miedema M; Limpens R; Van Ham M; Van Der Reijden M; Poot R; Grosveld F; Mommaas M; Meijering E; Galjart N, 2010, 'History-dependent catastrophes regulate axonal microtubule behavior', Current Biology, vol. 20, pp. 1023 - 1028, http://dx.doi.org/10.1016/j.cub.2010.04.024
2010
Aguilo MA; Aquino W; Brigham JC; Fatemi M, 2010, 'Correction to “An Inverse Problem Approach for Elasticity Imaging through Vibroacoustics” [Apr 10 1012-1021', IEEE Transactions on Medical Imaging, vol. 29, pp. 1331 - 1331, http://dx.doi.org/10.1109/tmi.2010.2051071
2010
Dzyubachyk O; Van Cappellen WA; Essers J; Niessen WJ; Meijering E, 2010, 'Erratum: Advanced level-set-based cell tracking in time-lapse fluorescence microscopy (IEEE Transactions on Medical Imaging (2010) 29:3 (852-867))', IEEE Transactions on Medical Imaging, vol. 29, pp. 1331, http://dx.doi.org/10.1109/TMI.2010.2049183
2010
Dzyubachyk O; Van Cappellen WA; Essers J; Niessen WJ; Meijering E, 2010, 'Advanced level-set-based cell tracking in time-lapse fluorescence microscopy', IEEE Transactions on Medical Imaging, vol. 29, pp. 852 - 867, http://dx.doi.org/10.1109/TMI.2009.2038693
2010
Smal I; Grigoriev I; Akhmanova A; Niessen WJ; Meijering E, 2010, 'Microtubule dynamics analysis using kymographs and variable-rate particle filters', IEEE Transactions on Image Processing, vol. 19, pp. 1861 - 1876, http://dx.doi.org/10.1109/TIP.2010.2045031
2010
Montenegro Gouveia S; Leslie K; Kapitein LC; Buey RM; Grigoriev I; Wagenbach M; Smal I; Meijering E; Hoogenraad CC; Wordeman L; Steinmetz MO; Akhmanova A, 2010, 'In vitro reconstitution of the functional interplay between MCAK and EB3 at microtubule plus ends', Current Biology, vol. 20, pp. 1717 - 1722, http://dx.doi.org/10.1016/j.cub.2010.08.020
2010
Smal I; Loog M; Niessen W; Meijering E, 2010, 'Quantitative comparison of spot detection methods in fluorescence microscopy', IEEE Transactions on Medical Imaging, vol. 29, pp. 282 - 301, http://dx.doi.org/10.1109/TMI.2009.2025127
2010
Meijering E, 2010, 'Neuron tracing in perspective', Cytometry Part A, vol. 77, pp. 693 - 704, http://dx.doi.org/10.1002/cyto.a.20895
2010
Dzyubachyk O; Essers J; van Cappellen WA; Baldeyron C; Inagaki A; Niessen WJ; Meijering E, 2010, 'Automated analysis of time-lapse fluorescence microscopy images: From live cell images to intracellular foci', Bioinformatics, vol. 26, pp. 2424 - 2430, http://dx.doi.org/10.1093/bioinformatics/btq434
2010
Meijering E; Dzyubachyk O; Smal I; van Cappellen WA, 2009, 'Tracking in cell and developmental biology', Seminars in Cell and Developmental Biology, vol. 20, pp. 894 - 902, http://dx.doi.org/10.1016/j.semcdb.2009.07.004
2009
De Weert TT; Cakir H; Rozie S; Cretier S; Meijering E; Dippel DWJ; Van Der Lugt A, 2009, 'Intracranial internal carotid artery calcifications: Association with vascular risk factors and ischemic cerebrovascular disease', American Journal of Neuroradiology, vol. 30, pp. 177 - 184, http://dx.doi.org/10.3174/ajnr.A1301
2009
Weert TT; Monyé C; Meijering E; Booij R; Niessen WJ; Dippel DWJ; Lugt A, 2008, 'Assessment of atherosclerotic carotid plaque volume with multidetector computed tomography angiography', International Journal of Cardiovascular Imaging, vol. 24, pp. 751 - 759, http://dx.doi.org/10.1007/s10554-008-9309-1
2008
Smal I; Meijering E; Draegestein K; Galjart N; Grigoriev I; Akhmanova A; van Royen ME; Houtsmuller AB; Niessen W, 2008, 'Multiple object tracking in molecular bioimaging by Rao-Blackwellized marginal particle filtering', Medical Image Analysis, vol. 12, pp. 764 - 777, http://dx.doi.org/10.1016/j.media.2008.03.004
2008
Smal I; Draegestein K; Galjart N; Niessen W; Meijering E, 2008, 'Particle filtering for multiple object tracking in dynamic fluorescence microscopy images: Application to microtubule growth analysis', IEEE Transactions on Medical Imaging, vol. 27, pp. 789 - 804, http://dx.doi.org/10.1109/TMI.2008.916964
2008
van Velsen EFS; Niessen WJ; de Weert TT; de Monyé C; van der Lugt A; Meijering E; Stokking R, 2007, 'Evaluation of an improved technique for lumen path definition and lumen segmentation of atherosclerotic vessels in CT angiography', European Radiology, vol. 17, pp. 1738 - 1745, http://dx.doi.org/10.1007/s00330-006-0469-x
2007
De Weert TT; Ouhlous M; Meijering E; Zondervan PE; Hendriks JM; Van Sambeek MRHM; Dippel DWJ; Van Der Lugt A, 2006, 'In vivo characterization and quantification of atherosclerotic carotid plaque components with multidetector computed tomography and histopathological correlation', Arteriosclerosis, Thrombosis, and Vascular Biology, vol. 26, pp. 2366 - 2372, http://dx.doi.org/10.1161/01.ATV.0000240518.90124.57
2006
Meijering E; Smal I; Danuser G, 2006, 'Tracking in molecular bioimaging', IEEE Signal Processing Magazine, vol. 23, pp. 46 - 53, http://dx.doi.org/10.1109/MSP.2006.1628877
2006
Gratama van Andel HAF; Meijering E; van der Lugt A; Vrooman HA; de Monyé C; Stokking R, 2006, 'Evaluation of an improved technique for automated center lumen line definition in cardiovascular image data', European Radiology, vol. 16, pp. 391 - 398, http://dx.doi.org/10.1007/s00330-005-2854-2
2006
Murphy RF; Meijering E; Danuser G, 2005, 'Guest editorial', IEEE Transactions on Image Processing, vol. 14, pp. 1233 - 1236, http://dx.doi.org/10.1109/TIP.2005.855701
2005
Meijering E; Jacob M; Sarria JCF; Steiner P; Hirling H; Unser M, 2004, 'Design and Validation of a Tool for Neurite Tracing and Analysis in Fluorescence Microscopy Images', Cytometry Part A, vol. 58, pp. 167 - 176, http://dx.doi.org/10.1002/cyto.a.20022
2004
Meijering E; Unser M, 2003, 'A note on cubic convolution interpolation', IEEE Transactions on Image Processing, vol. 12, pp. 477 - 479, http://dx.doi.org/10.1109/TIP.2003.811493
2003
Meijering E, 2002, 'A chronology of interpolation: From ancient astronomy to modern signal and image processing', Proceedings of the IEEE, vol. 90, pp. 317 - 318, http://dx.doi.org/10.1109/JPROC.2002.993399
2002
Meijering E, 2002, 'A chronology of interpolation: From ancient astronomy to modern signal and image processing', Proceedings of the IEEE, vol. 90, pp. 319 - 342, http://dx.doi.org/10.1109/5.993400
2002
Meijering EHW; Niessen WJ; Viergever MA, 2001, 'Quantitative evaluation of convolution-based methods for medical image interpolation', Medical Image Analysis, vol. 5, pp. 111 - 126, http://dx.doi.org/10.1016/S1361-8415(00)00040-2
2001
Meijering EHW; Niessen WJ; Bakker J; Van der Molen AJ; De Kort GAP; Lo RTH; Mali WPTM; Viergever MA, 2001, 'Reduction of patient motion artifacts in digital subtraction angiography: Evaluation of a fast and fully automatic technique', Radiology, vol. 219, pp. 288 - 293, http://dx.doi.org/10.1148/radiology.219.1.r01ap19288
2001
Meijering EHW; Niessen WJ; Viergever MA, 1999, 'Retrospective motion correction in digital subtraction angiography: A review', IEEE Transactions on Medical Imaging, vol. 18, pp. 2 - 21, http://dx.doi.org/10.1109/42.750248
1999
Meijering EHW; Zuiderveld KJ; Viergever MA, 1999, 'Image registration for digital subtraction angiography', International Journal of Computer Vision, vol. 31, pp. 227 - 246, http://dx.doi.org/10.1023/a:1008074100927
1999
Meijering EHW; Zuiderveld KJ; Viergever MA, 1999, 'Image reconstruction by convolution with symmetrical piecewise nth-order polynomial kernels', IEEE Transactions on Image Processing, vol. 8, pp. 192 - 201, http://dx.doi.org/10.1109/83.743854
1999
Rana P; Sowmya A; Meijering E; Song Y, 'Estimation of Three-Dimensional Chromatin Morphology for Nuclear Classification and Characterisation', , http://dx.doi.org/10.1101/2020.07.29.226498
Conference Papers
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Geurts SN; Oosterhof N; Kuil LE; Van Der Linde HC; Van Ham TJ; Meijering E, 2020, 'Automated Quantitative Analysis of Microglia in Bright-Field Images of Zebrafish', in Proceedings - International Symposium on Biomedical Imaging, pp. 522 - 525, http://dx.doi.org/10.1109/ISBI45749.2020.9098339
2020
Zhu Y; Meijering E, 2020, 'Neural Architecture Search for Microscopy Cell Segmentation', Lima, Peru, presented at Neural Architecture Search for Microscopy Cell Segmentation, Lima, Peru, 04 October 2020
2020
Smal I; Yao Y; Galjart N; Meijering E, 2019, 'Facilitating data association in particle tracking using autoencoding and score matching', in Proceedings - International Symposium on Biomedical Imaging, pp. 1523 - 1526, http://dx.doi.org/10.1109/ISBI.2019.8759418
2019
Bergwerf H; Bechakra M; Smal I; Jongen JLM; Meijering E, 2019, 'Nerve fiber segmentation in bright-field microscopy images of skin biopsies using deep learning', in Proceedings - International Symposium on Biomedical Imaging, pp. 232 - 235, http://dx.doi.org/10.1109/ISBI.2019.8759504
2019
Hofmann J; Mulleners O; Noordermeer T; van Leeuwen J; Bartulos O; Voskamp P; Braam S; Guttenberg Z; Danser J; Majoor-Krakauer D; van der Pluijm I; Meijering E; Essers J, 2018, 'Contraction Force Analysis Using Optical Imaging in Normal and Mybpc3-Mutated iPSC-Derived Cardiomyocytes Grown on Matrices With Tunable Stiffness', in CIRCULATION, LIPPINCOTT WILLIAMS & WILKINS, http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000528619405270&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1
2018
Yao Y; Smal I; Meijering E, 2018, 'Deep neural networks for data association in particle tracking', in Proceedings - International Symposium on Biomedical Imaging, pp. 458 - 461, http://dx.doi.org/10.1109/ISBI.2018.8363615
2018
Castilla C; Maska M; Sorokin DV; Meijering E; Ortiz-De-Solorzano C, 2018, 'Segmentation of actin-stained 3D fluorescent cells with filopodial protrusions using convolutional neural networks', in Proceedings - International Symposium on Biomedical Imaging, pp. 413 - 417, http://dx.doi.org/10.1109/ISBI.2018.8363605
2018
Smal I; Galjart N; Meijering E, 2018, 'Accurate estimation of intracellular dynamics and underlying spatial structures using hierarchical trajectory smoothing', in Proceedings - International Symposium on Biomedical Imaging, pp. 973 - 976, http://dx.doi.org/10.1109/ISBI.2018.8363733
2018
Smal I; Basu S; Sayas L; Galjart N; Meijering E, 2017, 'Gaussian processes for trajectory analysis in microtubule tracking applications', in Proceedings - International Symposium on Biomedical Imaging, pp. 206 - 209, http://dx.doi.org/10.1109/ISBI.2017.7950502
2017
Radojevic M; Meijering E, 2017, 'Neuron reconstruction from fluorescence microscopy images using sequential Monte Carlo estimation', in Proceedings - International Symposium on Biomedical Imaging, pp. 36 - 39, http://dx.doi.org/10.1109/ISBI.2017.7950462
2017
Smal I; Meijering E, 2016, 'Poisson point processes for solving stochastic inverse problems in fluorescence microscopy', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 326 - 338, http://dx.doi.org/10.1007/978-3-319-46604-0_24
2016
Mata G; Radojevic M; Smal I; Morales M; Meijering E; Rubio J, 2016, 'Automatic detection of neurons in high-content microscope images using machine learning approaches', in Proceedings - International Symposium on Biomedical Imaging, pp. 330 - 333, http://dx.doi.org/10.1109/ISBI.2016.7493276
2016
Radojevie M; Smal I; Meijering E, 2015, 'Automated neuron morphology reconstruction using fuzzy-logic detection and Bayesian tracing algorithms', in Proceedings - International Symposium on Biomedical Imaging, pp. 885 - 888, http://dx.doi.org/10.1109/ISBI.2015.7164012
2015
Demirel O; Smal I; Niessen W; Meijering E; Sbalzarini IF, 2014, 'An adaptive distributed resampling algorithm with non-proportional allocation', in ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings, pp. 1635 - 1639, http://dx.doi.org/10.1109/ICASSP.2014.6853875
2014
Radojević M; Smal I; Niessen W; Meijering E, 2014, 'Fuzzy logic based detection of neuron bifurcations in microscopy images', in 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014, pp. 1307 - 1310, http://dx.doi.org/10.1109/isbi.2014.6868117
2014
Demirel O; Smal I; Niessen WJ; Meijering E; Sbalzarini IF, 2014, 'PPF - A parallel particle filtering library', in IET Conference Publications, http://dx.doi.org/10.1049/cp.2014.0529
2014
Demirel O; Smal I; Niessen WJ; Meijering E; Sbalzarini IF, 2014, 'Piecewise constant sequential importance sampling for fast particle filtering', in IET Conference Publications, http://dx.doi.org/10.1049/cp.2014.0528
2014
Plenge E; Poot DHJ; Niessen WJ; Meijering E, 2013, 'Super-resolution reconstruction using cross-scale self-similarity in multi-slice MRI', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 123 - 130, http://dx.doi.org/10.1007/978-3-642-40760-4_16
2013
Khmelinskii A; Plenge E; Kok P; Dzyubachyk O; Poot DHJ; Suidgeest E; Botha CP; Niessen WJ; Van Der Weerd L; Meijering E; Lelieveldt BPF, 2012, 'Super-resolution reconstruction of whole-body MRI mouse data: An interactive approach', in Proceedings - International Symposium on Biomedical Imaging, pp. 1723 - 1726, http://dx.doi.org/10.1109/ISBI.2012.6235912
2012
Plenge E; Poot DHJ; Bernsen M; Kotek G; Houston G; Wielopolski P; Van Der Weerd L; Niessen WJ; Meijering E, 2012, 'Super-resolution reconstruction in MRI: Better images faster?', in Progress in Biomedical Optics and Imaging - Proceedings of SPIE, http://dx.doi.org/10.1117/12.911235
2012
Meijering E, 2012, 'RECONSTRUCTION AND QUANTIFICATION OF NEURONAL MORPHOLOGY', in 2012 9TH IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING (ISBI), IEEE, Barcelona, SPAIN, pp. 1787 - 1787, presented at 9th IEEE International Symposium on Biomedical Imaging (ISBI) - From Nano to Macro, Barcelona, SPAIN, 02 May 2012 - 05 May 2012, http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000312384100460&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1
2012
Smal I; Carranza-Herrezuelo N; Klein S; Niessen W; Meijering E, 2011, 'Quantitative comparison of tracking methods for motion analysis in tagged MRI', in Proceedings - International Symposium on Biomedical Imaging, pp. 345 - 348, http://dx.doi.org/10.1109/ISBI.2011.5872420
2011
Smal I; Carranza-Herrezuelo N; Klein S; Niessen W; Meijering E, 2011, 'Trans-dimensional MCMC methods for fully automatic motion analysis in tagged MRI', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 573 - 580, http://dx.doi.org/10.1007/978-3-642-23623-5_72
2011
Carranza N; Smal I; Dzyubachyk O; Niessen W; Meijering E, 2011, 'Automated lineage tree reconstruction from Caenorhabditis elegans image data using particle filtering based cell tracking', in Proceedings - International Symposium on Biomedical Imaging, pp. 1921 - 1924, http://dx.doi.org/10.1109/ISBI.2011.5872785
2011
Smal I; Carranza-Herrezuelo N; Klein S; Niessen W; Meijering E, 2011, 'Trans-dimensional MCMC methods for fully automatic motion analysis in tagged MRI', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 573 - 580, http://dx.doi.org/10.1007/978-3-642-23623-5_72
2011
Smal I; Niessen W; Meijering E, 2010, 'Particle filtering methods for motion analysis in tagged MRI', in 2010 7th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2010 - Proceedings, pp. 488 - 491, http://dx.doi.org/10.1109/ISBI.2010.5490302
2010
Niessen W; Meijering E, 2010, '2010 7th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2010 - Proceedings: Welcome', in 2010 7th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2010 - Proceedings, http://dx.doi.org/10.1109/ISBI.2010.5490277
2010
Smal I; Grigoriev I; Akhmanova A; Niessen WJ; Meijering E, 2009, 'Accurate estimation of microtubule dynamics using kymographs and variable-rate particle filters', in Proceedings of the 31st Annual International Conference of the IEEE Engineering in Medicine and Biology Society: Engineering the Future of Biomedicine, EMBC 2009, pp. 1012 - 1015, http://dx.doi.org/10.1109/IEMBS.2009.5333350
2009
Dzyubachyk O; Jelier R; Lehner B; Niessen W; Meijering E, 2009, 'Model-based approach for tracking embryogenesis in Caenorhabditis elegans fluorescence microscopy data', in Proceedings of the 31st Annual International Conference of the IEEE Engineering in Medicine and Biology Society: Engineering the Future of Biomedicine, EMBC 2009, pp. 5356 - 5359, http://dx.doi.org/10.1109/IEMBS.2009.5334046
2009
Dzyubachyk O; Van Cappellen WA; Essers J; Niessen W; Meijering E, 2009, 'Energy minimization methods for cell motion correction and intracellular analysis in live-cell fluorescence microscopy', in Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009, pp. 1127 - 1130, http://dx.doi.org/10.1109/ISBI.2009.5193255
2009
Smal I; Loog M; Niessen W; Meijering E, 2009, 'Quantitative comparison of spot detection methods in live-cell fluorescence microscopy imaging', in Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009, pp. 1178 - 1181, http://dx.doi.org/10.1109/ISBI.2009.5193268
2009
Smal I; Niessen W; Meijering E, 2008, 'A new detection scheme for multiple object tracking in fluorescence microscopy by joint probabilistic data association filtering', in 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Proceedings, ISBI, pp. 264 - 267, http://dx.doi.org/10.1109/ISBI.2008.4540983
2008
Dzyubachyk O; Niessen W; Meijering E, 2008, 'Advanced level-set based multiple-cell segmentation and tracking in time-lapse fluorescence microscopy images', in 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Proceedings, ISBI, pp. 185 - 188, http://dx.doi.org/10.1109/ISBI.2008.4540963
2008
Dzyubachyk O; Niessen W; Meijering E, 2007, 'A variational model for level-set based cell tracking in time-lapse fluorescence microscopy images', in 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings, pp. 97 - 100, http://dx.doi.org/10.1109/ISBI.2007.356797
2007
Smal I; Niessen W; Meijering E, 2007, 'Advanced particle filtering for multiple object tracking in dynamic fluorescence microscopy images', in 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings, pp. 1048 - 1051, http://dx.doi.org/10.1109/ISBI.2007.357035
2007
Smal I; Draegestein K; Galjart N; Niessen W; Meijering E, 2007, 'Rao-blackwellized marginal particle filtering for multiple object tracking in molecular bioimaging', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 110 - 121, http://dx.doi.org/10.1007/978-3-540-73273-0_10
2007
Smal I; Niessen W; Meijering E, 2006, 'Bayesian tracking for fluorescence microscopic imaging', in 2006 3rd IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings, pp. 550 - 553
2006
Smal I; Niessen W; Meijering E, 2006, 'Particle filtering for multiple object tracking in molecular cell biology', in NSSPW - Nonlinear Statistical Signal Processing Workshop 2006, http://dx.doi.org/10.1109/NSSPW.2006.4378836
2006
Kovačević J; Meijering E, 2006, '2006 3rd IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings: Welcome', in 2006 3rd IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings
2006
Meijering E; Jacob M; Sarria JCF; Steiner P; Hirling H; Unser M, 2004, 'Neurite tracing in fluorescence microscopy images using ridge filtering and graph searching: Principles and validation', in 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano, pp. 1219 - 1222
2004
Gratama Van Andel HAF; Meijering E; Van Der Lugt A; Vrooman HA; Stokking R, 2004, 'VAMPIRE: Improved method for automated center lumen line definition in atherosclerotic carotid arteries in CTA data', in Lecture Notes in Computer Science, pp. 525 - 532
2004
Meijering E; Jacob M; Sarria JCF; Unser M, 2003, 'A novel approach to neurite tracing in fluorescence microscopy images', in Proceedings of the IASTED International Conference on Signal and Image Processing, pp. 491 - 495
2003
Meijering E; Niessen W; Weickert J; Viergever M, 2002, 'Diffusion-enhanced visualization and quantification of vascular anomalies in three-dimensional rotational angiography: Results of an in-vitro evaluation', in Medical Image Analysis, pp. 215 - 233, http://dx.doi.org/10.1016/S1361-8415(02)00081-6
2002
Meijering E; Niessen W; Weickert J; Viergever M, 2001, 'Evaluation of diffusion techniques for improved vessel visualization and quantification in three-dimensional rotational angiography', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 177 - 185, http://dx.doi.org/10.1007/3-540-45468-3_22
2001
Baert SAM; Niessen WJ; Meijering EHW; Frangi AF; Viergever MA, 2000, 'Guide wire tracking in interventional radiology', in Lemke HU; Vannier MW; Inamura K; Farman AG; Doi K (eds.), CARS 2000: COMPUTER ASSISTED RADIOLOGY AND SURGERY, ELSEVIER SCIENCE BV, SAN FRANCISCO, CA, pp. 537 - 542, presented at 14th International Congress and Exhibition on Computer Assisted Radiology and Surgery (CARS 2000), SAN FRANCISCO, CA, 28 June 2000 - 01 July 2000, http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000165685600090&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1
2000
Baert SAM; Niessen WJ; Meijering EHW; Frangi AF; Viergever MA, 2000, 'Guide wire tracking during endovascular interventions', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 727 - 734, http://dx.doi.org/10.1007/978-3-540-40899-4_75
2000
Meijering EHW, 2000, 'Spline interpolation in medical imaging: Comparison with other convolution-based approaches', in European Signal Processing Conference
2000
Meijering EHW; Niessen WJ; Viergever MA, 1999, 'Piecewise polynomial kernels for image interpolation: A generalization of cubic convolution', in IEEE International Conference on Image Processing, pp. 647 - 651
1999
Meijering EHW; Niessen WJ; Viergever MA, 1999, 'Sinc-approximating kernels of classical polynomial interpolation', in IEEE International Conference on Image Processing, pp. 652 - 656
1999
Meijering EHW; Zuiderveld KJ; Niessen WJ; Viergever MA, 1999, 'Fast image registration technique for motion artifact reduction in DSA', in IEEE International Conference on Image Processing, pp. 435 - 439
1999
Meijering EHW; Niessen WJ; Pluim JPW; Viergever MA, 1999, 'Quantitative comparison of sinc-approximating kernels for medical image interpolation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 210 - 218, http://dx.doi.org/10.1007/10704282_23
1999
Maintz JBA; Meijering EH; Viergever MA, 1998, 'General multimodal elastic registration based on mutual information', in Proceedings of SPIE - The International Society for Optical Engineering, pp. 144 - 154, http://dx.doi.org/10.1117/12.310845
1998
Meijering EHW; Zuiderveld KJ; Viergever MA, 1998, 'A fast technique for motion correction in DAS using a feature-based, irregular grid', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 590 - 597, http://dx.doi.org/10.1007/bfb0056244
1998
Kovacevic J; Meijering E, 'Welcome', in 3rd IEEE International Symposium on Biomedical Imaging: Macro to Nano, 2006., IEEE, presented at 3rd IEEE International Symposium on Biomedical Imaging: Macro to Nano, 2006., http://dx.doi.org/10.1109/isbi.2006.1624830
Book Chapters
add
Yao Y; Smal I; Grigoriev I; Martin M; Akhmanova A; Meijering E, 2017, 'Automated analysis of intracellular dynamic processes', in Methods in Molecular Biology, pp. 209 - 228, http://dx.doi.org/10.1007/978-1-4939-6810-7_14
2017
Meijering E; Dzyubachyk O; Smal I, 2012, 'Methods for cell and particle tracking', in Methods in Enzymology, pp. 183 - 200, http://dx.doi.org/10.1016/B978-0-12-391857-4.00009-4
2012
Meijering E; Smal I; Dzyubachyk O; Olivo-Marin JC, 2008, 'Time-Lapse Imaging', in Microscope Image Processing, pp. 401 - 440, http://dx.doi.org/10.1016/B978-0-12-372578-3.00015-5
2008
Meijering E; Smal I; Dzyubachyk O; Olivo‐Marin J, 2008, 'Chapter 15 Time‐Lapse Imaging', in Microscope Image Processing, pp. 401 - 440, http://dx.doi.org/10.1016/b978-0-12-372578-3.00015-5
2008