University of Heidelberg
BIOQUANT

Publications of W. J. Godinez

Book Chapters

  • K. Rohr, W. J. Godinez, N. Harder, S. Wörz, J. Mattes, W. Tvaruskó, and R. Eils. Tracking and Quantitative Analysis of Dynamic Movements of Cells and Particles, in R. D. Goldman, J. R. Swedlow, and D. L. Spector (Eds.), Live cell imaging - a laboratory manual, 2nd edition, Cold Spring Harbor Laboratory Press, Woodbury, New York, USA, pages 239-256, 2010.


  • N. Harder, F. Mora-Bermúdez, W. J. Godinez, J. Ellenberg, R. Eils, and K. Rohr. Automated analysis of the mitotic phases of human cells in 3-D fluorescence microscopy image sequences, in J. Rittscher, R. Machiraju, and S. T. C. Wong (Eds.), Microscopic image analysis for life science applications, Artech House, Norwood, Massachusetts, USA, pages 283-294, 2008.


Journal Articles

  • N. Chenouard, I. Smal, F. de Chaumont, M. Maska, I. F. Sbalzarini, Y. Gong, J. Cardinale, C. Carthel, S. Coraluppi, M. Winter, A. R. Cohen, W. J. Godinez, K. Rohr, Y. Kalaidzidis, L. Liang, J. Duncan, H. Shen, Y. Xu, K. E. G. Magnusson, J. Jalden, H. M. Blau, P. Paul-Gilloteaux, P. Roudot, C. Kervrann, F. Waharte, J.-Y. Tinevez, S. L. Shorte, J. Willemse, K. Celler, G. P. van Wezel, H.-W. Dan, Y.-S. Tsai, C. Ortiz de Solorzano, J.-C. Olivo-Marin, and E. Meijering. Objective comparison of particle tracking methods. Nature Methods, 11(3):281-289, 2014. [WWW] [doi:10.1038/nmeth.2808]


  • B. Di Ventura, B. Knecht, H. Andreas, W. J. Godinez, M. Fritsche, K. Rohr, W. Nickel, D. W. Heermann, and V. Sourjik. Chromosome segregation by the Escherichia coli Min system. Molecular Systems Biology, 9(1):686, 2013. [WWW] [doi:10.1038/msb.2013.44]


  • A. Marx, W. J. Godinez, V. Tsimashchuk, P. Bankhead, K. Rohr, and U. Engel. Xenopus cytoplasmic linker associated protein 1 (XCLASP1) promotes axon elongation and advance of pioneer microtubules. Molecular Biology of the Cell, 2013. [WWW] [doi:10.1091/mbc.E12-08-0573]


  • W. J. Godinez, M. Lampe, P. Koch, R. Eils, B. Müller, and K. Rohr. Identifying Virus-Cell Fusion in Two-Channel Fluorescence Microscopy Image Sequences Based on a Layered Probabilistic Approach. IEEE Transactions on Medical Imaging, 31(9):1786-1808, 2012. [doi:10.1109/TMI.2012.2203142]


  • L. Chang, W. J. Godinez, I.-H. Kim, M. Tektonidis, P. de Lanerolle, R. Eils, K. Rohr, and D. M. Knipe. Herpesviral replication compartments move and coalesce at nuclear speckles to enhance export of viral late mRNA. Proceedings of the National Academy of Sciences, 108(21):E136 - E144, 2011. [WWW] [doi:10.1073/pnas.1103411108]


  • F. Rengier, S. Wörz, W. J. Godinez, H. Schumacher, D. Böckler, K. Rohr, H.-U. Kauczor, and H. von Tengg-Kobligk. Development of in-vivo quantitative geometric mapping of the aortic arch for advanced endovascular aortic repair: feasibility and preliminary results. Journal of Vascular and Interventional Radiology, 22(7):980 - 986, 2011. [WWW] [doi:DOI: 10.1016/j.jvir.2011.01.434]


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Deterministic and probabilistic approaches for tracking virus particles in time-lapse fluorescence microscopy image sequences. Medical Image Analysis, 13(2):325-342, April 2009. [WWW] [doi:10.1016/j.media.2008.12.004]


  • N. Harder, F. Mora-Bermúdez, W. J. Godinez, A. Wünsche, R. Eils, J. Ellenberg, and K. Rohr. Automatic analysis of dividing cells in live cell movies to detect mitotic delays and correlate phenotypes in time. Genome Research, pp -, 2009. [WWW] [doi:10.1101/gr.092494.109]


  • S. Ivanchenko, W. J. Godinez, M. Lampe, H.-G. Kräusslich, R. Eils, K. Rohr, C. Bräuchle, B. Müller, and D.C. Lamb. Dynamics of HIV-1 assembly and release. PLoS Pathogens, 5(11):e1000652, 2009. [WWW] [doi:10.1371/journal.ppat.1000652]


  • P. Koch, M. Lampe, W. J. Godinez, B. Müller, K. Rohr, H.-G. Kräusslich, and M.J. Lehmann. Visualizing fusion of pseudotyped HIV-1 particles in real time by live cell microscopy. Retrovirology, 6(1):84, 2009. [WWW] [doi:10.1186/1742-4690-6-84]


Conference Articles

  • A. Jaiswal, W. J. Godinez, R. Eils, M. J. Lehmann, and K. Rohr. Tracking Virus Particles in Microscopy Images Using Multi-Frame Association. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'12), Berlin, Germany, pages 231-236, March 2012.


  • A. Jaiswal, W. J. Godinez, R. Eils, M. J. Lehmann, and K. Rohr. Tracking virus particles in fluorescence microscopy images using two-step multi-frame association. In Proc. 9th IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'12), Barcelona, Spain, pages 664-667, May 2012.


  • V. Tsimashchuk, W. J. Godinez, M. J. Lehmann, and K. Rohr. Analysis of viral surfing based on fluorescence microscopy imaging and automatic tracking. In Proc. 9th IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'12), Barcelona, Spain, pages 378-381, May 2012.


  • W. J. Godinez, M. Lampe, R. Eils, B. Müller, and K. Rohr. Tracking multiple particles in fluorescence microscopy images via probabilistic data association. In Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'11), Chicago, Illinois, USA, pages 1925-1928, March--April 2011.


  • N. Harder, F. Mora-Bermúdez, W. J. Godinez, A. Wünsche, J. Ellenberg, R. Eils, and and K. Rohr. Automatic analysis of dividing cells in live cell movies to detect mitotic delays and correlate phenotypes in time. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'10), Informatik aktuell, Aachen, Germany, pages 81-85, March 2010. Springer Berlin Heidelberg.


  • W. J. Godinez, M. Lampe, S. Wörz, R. Eils, B. Müller, and K. Rohr. Identifying fusion events in fluorescence microscopy images. In Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'09), Boston, Massachusetts, USA, pages 1170-1173, June--July 2009.


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Evaluation of approaches for tracking virus particles in fluorescence microscopy images. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'09), Informatik aktuell, Heidelberg, Germany, pages 207-211, March 2009. Springer Berlin Heidelberg.


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Performance evaluation of approaches for tracking multiple virus particles in fluorescence microscopy image sequences. In Proc. Internat. Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB'09), Bethesda, Maryland, USA, September 2009.


  • S. Wörz, W. J. Godinez, and K. Rohr. Probabilistic tracking and model-based segmentation of 3D tubular structures. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'09), Informatik aktuell, Heidelberg, Germany, pages 41-45, March 2009. Springer Berlin Heidelberg.


  • S. Wörz, W. J. Godinez, and K. Rohr. Segmentation of 3D tubular structures based on 3D intensity models and particle filter tracking. In Proc. SPIE Medical Imaging 2009: Image Processing, Proc. SPIE, Lake Buena Vista, Florida, USA, pages 72591P-72591P-8, February 2009. SPIE Bellingham, Washington, USA.


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Probabilistic tracking of virus particles in fluorescence microscopy image sequences. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'08), Informatik aktuell, Berlin, Germany, pages 448-452, April 2008. Springer Berlin Heidelberg.


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Probabilistic tracking of virus particles in fluorescence microscopy images. In Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, pages 272-275, May 2008.


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Tracking of virus particles in time-lapse fluorescence microscopy image sequences. In Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'07), Arlington, Virginia, USA, pages 256-259, April 2007.


  • W. J. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr. Tracking of virus particles in time-lapse fluorescence microscopy image sequences. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'07), Informatik aktuell, Munich, Germany, pages 6-10, March 2007. Springer Berlin Heidelberg.


  • N. Harder, F. Mora-Bermúdez, W. J. Godinez, J. Ellenberg, R. Eils, and and K. Rohr. Determination of mitotic delays in 3D fluorescence microscopy images of human cells using an error-correcting finite state machine. In Proc. Workshop Bildverarbeitung für die Medizin (BVM'07), Informatik aktuell, Munich, Germany, pages 242-246, March 2007. Springer Berlin Heidelberg.


  • N. Harder, F. Mora-Bermúdez, W. J. Godinez, J. Ellenberg, R. Eils, and and K. Rohr. Determination of mitotic delays in 3D fluorescence microscopy images of human cells using an error-correcting finite state machine. In Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'07), Arlington, Virginia, USA, pages 1044-1047, April 2007.


  • I.-H. Kim, W. J. Godinez, N. Harder, F. Mora-Bermúdez, J. Ellenberg, R. Eils, and K. Rohr. Compensation of global movement for improved tracking of cells in time-lapse confocal microscopy image sequences. In Proc. SPIE Medical Imaging 2007: Image Processing, Proc. SPIE, San Diego, California, USA, pages 65121R, February 2007. SPIE Bellingham, Washington, USA.


  • N. Harder, F. Mora-Bermúdez, W. J. Godinez, J. Ellenberg, R. Eils, and K. Rohr. Automated analysis of the mitotic phases of human cells in 3D fluorescence microscopy image sequences. In Proc. Ninth Internat. Conf. on Medical Image Computing and Computer-Assisted Intervention (MICCAI'06), volume 4190 of Lecture Notes in Computer Science, Copenhagen, Denmark, pages 840-848, October 2006. Springer Berlin Heidelberg.





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