Publications

  • Bian A, Jiang X, Berh D, Risse B () Resolving colliding larvae by fitting ASM to random walker-based pre-segmentations. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2020. doi: 10.1109/TCBB.2019.2935718. [Accepted]
  • Huesmann K, Klemm S, Linsen L, Risse B () Exploiting the Full Capacity of Deep Neural Networks while Avoiding Overfitting by Targeted Sparsity Regularization. arXiv e-print:2002.09237: CoRR.

  • Berh D, Scherzinger A, Otto N, Jiang X, Klämbt C, Risse B () Automatic non-invasive heartbeat quantification of Drosophila pupae. Computers in Biology and Medicine, 93, p. 189-199.
  • Kiel M, Berh D, Daniel J, Otto N, Steege A, Jiang X, Liebau E, Risse B () A Multi-Purpose Worm Tracker Based on FIM. bioRxiv, 2018, p. 1-26. [Submitted]
  • Klemm S, Jiang X, Risse B () Deep distance transform to segment visually indistinguishable merged objects. In: Proc. of 40th German Conference on Pattern Recognition (GCPR), Stuttgart, p. 422-433.
  • Otto N, Marelja Z, Schoofs A, Kranenburg H, Bittern J, Yildirim K, Berh D, Bethke M, Thomas S, Rode S, Risse B, Jiang X, Pankratz M, Leimkuehler S, Klämbt C () The Sulfite Oxidase Shopper controls neuronal activity by regulating glutamate homeostasis in Drosophila ensheathing glia. Nature Communications, 9 (1), p. 3514.
  • Risse B, Mangan M, Stürzl W, Webb B () Software to convert terrestrial LiDAR scans of natural environments into photorealistic meshes. Environmental Modelling and Software, 99, p. 88-100. doi: 10.1016/j.envsoft.2017.09.018.
  • Risse B, Mangan M, Webb B () Possibilities, Constraints and Limitations of Image-based Animal Tracking in Natural Environments. In: Measuring Behavior, Manchester, UK. [In Press]

  • Almeida-Carvalho MJ, Berh D, ......, Jiang X, ......, Risse B, ......, Zlatic M () The Ol1mpiad: Concordance of behavioural faculties of stage 1 and stage 3 Drosophila larvae. Journal of Experimental Biology, 220, p. 2452-2475. doi: 10.1242/jeb.156646.
  • Berh D, Risse B, Michels T, Otto N, Jiang X, Klämbt C () A FIM-based long-term in-vial monitoring system for Drosophila larvae. IEEE Transactions on Biomedical Engineering, 64 (8), p. 1862-1874.
  • Risse B, Berh D, Otto N, Klämbt C, Jiang X () FIMTrack: An open source tracking and locomotion analysis software for small animals. PLOS Computational Biology, 13 (5), p. e1005530. doi: 10.1371/journal.pcbi.1005530.
  • Risse B, Mangan M, Del Pero L, Webb B () Visual Tracking of Small Animals in Cluttered Natural Environments Using a Freely Moving Camera. ICCV , Workshop on Visual Wildlife Monitoring, 2017, p. 2840-2849.
  • Risse B, Mangan M, Del Pero L, Webb B () Visual Tracking of Small Animals in Cluttered Natural Environments Using a Freely Moving Camera. In: International Conference on Computer Vision, Venice, Italy.

  • Otto N, Risse B, Berh D, Bittern J, Jiang X, Klämbt C () Interactions among Drosophila larvae before and during collision. Scientific Reports, 11 (6), p. 31564. doi: 10.1038/srep31564.
  • Risse B, Mangan M, Del Pero L, Webb B () HabiTracks: Visual Tracking of Insects in Their Natural Habitat. In: International Congress of Neuroethology, Montevideo, Uruguay.
  • Risse B, Mangan M, Webb B () Habitat3D: Recreating the History of Visual Experience of Individual Insects. In: International Congress of Neuroethology, Montevideo, Uruguay.
  • Risse B, Mangan M, Webb B () Tracking, Mapping and Reconstruction. Modelling the Visual Perception of Desert Ants. In: Animal Movement International Symposium, Lund, Sweden.
  • Risse B, Otto N, Berh D, Jiang X, Kiel M, Klämbt C () FIM2c : A Multi-Colour, Multi-Purpose Imaging System to Manipulate and Analyse Animal Behaviour. IEEE Transactions on Biomedical Engineering, 64, p. 1-1.

  • Risse B., Berh D., Otto N., Jiang X., Klämbt C. () Quantifying subtle locomotion phenotypes of Drosophila larvae using internal structures based on FIM images. Computers in Biology and Medicine, 63 (null), p. 269-276. doi: 10.1016/j.compbiomed.2014.08.026.

  • B. Risse, N. Otto, D. Berh, X. Jiang, C. Klämbt () FIM imaging and FIMTrack: Two new tools allowing high-throughput and cost effective locomotion analysis. Journal of Visualized Experiments, 94.
  • Risse B, Berh D, Otto N, Jiang X, Klämbt C () Imaging Modalities for Semi-Translucent Animals and Their Impact on Quantitative Analysis. In: VAIB Workshop, ICPR, p. 1--4.
  • Risse B, Berh D, Otto N, Jiang X, Klämbt C () FIM2C and the Analysis of Collision Behavior. In: Flies, Worms and Robots: Combining Perspectives on Minibrains and Behavior Conference, Sant Feliu de Guixols, Spain.
  • Tao J, Risse B, Jiang X () Stereo and Motion Based 3D High Density Object Tracking. Image and Video Technology, 2014, p. 136-148. doi: 10.1007/978-3-642-53842-1_12.
  • U. Lammel, M. Bechtold, B. Risse B, D. Berh, A. Fleige, I. Bunse, X. Jiang, C. Klämbt, S. Bogdan () The Drosophila FHOD1-like formin Knittrig acts through Rok to promote stress fiber formation and directed macrophage migration during the cellular immune response. Development, 141 (6), p. 1366-1380. doi: 10.1242/dev.101352.

  • B. Risse, S. Thomas, N. Otto, T. Löpmeier, D. Valkov, X. Jiang, C. Klämbt () FIM, a novel FTIR-based imaging method for high throughput locomotion analysis. PLoS ONE, 8 (1), p. e53963. doi: 10.1371/journal.pone.0053963.
  • Jiang X, Dawood M, Gigengack F, Risse B, Schmid S, Tenbrinck D, Schäfers K () Biomedical Imaging: a Computer Vision Perspective. In: R. Wilson et al.: CAIP 2013 (Ed.): Computer Analysis of Images and Patterns. Berlin, Heidelberg: Springer Berlin Heidelberg, p. 1-19.
  • M. Sander, A.J. Squarr, B. Risse, X. Jiang, S. Bogdan () Drosophila pupal macrophages - A versatile tool for combined ex vivo and in vivo imaging of actin dynamics at high resolution. European Journal of Cell Biology, 2013. doi: 10.1016/j.ejcb.2013.09.003.
  • Risse B, Berh D, Tao J, Jiang X, Klette R, Klämbt C () Comparison of two 3D tracking paradigms for freely flying insects. EURASIP J Image Video Process, 2013 (1), p. 57. doi: 10.1186/1687-5281-2013-57.
  • Risse B, Jiang X, Klämbt C () FIM: Frustrated Total Internal Reflection Based Imaging for Biomedical Applications. ERCIM News, 95 (Image Understanding), p. 11-12.
  • Risse B, Otto N, Berh D, Jiang X, Klämbt C () Tracking of Colliding Larvae. In: Conference on Neurobiology of Drosophila, New York, USA.

  • Risse B, Thomas S, Jiang X, Klämbt C () FIM: FTIR Based Image Acquisition and Tracking. In: Conference on Behavioral Neurogenetics of Drosophila Larva (Maggot Meeting), Ashburn, USA.
  • Schmidt I, Thomas S, Kain P, Risse B, Naffin E, Klämbt C () Kinesin heavy chain function in Drosophila glial cells controls neuronal activity. Journal of Neuroscience, 32 (22), p. 7466-7476. doi: 10.1523/JNEUROSCI.0349-12.2012.
  • Tao J, Risse B, Jiang X, Klette R () 3D Trajectory Estimation of Simulated Fruit Flies. In Proc 27th IVCNZ, Dunedin, 2012.
 

Talks

  • Risse, Benjamin (): ‘Possibilities, Constraints and Limitations of Image-based Animal Tracking in Natural Environments’. Measuring Behavior Conference, Manchester, UK, .
  • Risse, Benjamin (): ‘From Hand-held Cameras to Drones: Tracking Tiny Objects while Recon- (est.) structing the Environment’. Geoinformatik Münster, Münster, Germany, .
  • Risse, Benjamin (): ‘Computer Vision in the Wild’. Laboratory of Geo-Information Science and Remote Sensing, Wageningen, Netherlands, .

  • Risse, Benjamin (): ‘Interdisciplinary Research at the Interface of Biology and Computer Vision / Pattern Recognition’. Institute for Evolution and Biodiversity, Münster, Germany, .
  • Risse, Benjamin (): ‘Visual Tracking of Small Animals in Cluttered Natural Environments Using a Freely Moving Camera’. International Conference on Computer Visioin (ICCV), Venice, Italy, .
  • Risse, Benjamin (): ‘Imaging and Tracking in Neurobiology: Acquiring Locomotion Trajectories of Small and Translucent Animals’. Cells in Motion: New Horizons in Experimental Medicine, Münster, Germany, .

  • Risse, Benjamin (): ‘Multimodal and adaptive behaviour in insects and robots’. School of Computer Science, Lincoln, UK, .
  • Risse, Benjamin (): ‘Imaging and Tracking of Semi-Translucent Animals like Worms or Larvae Using the FIM Multi-Purpose Setup ’. Centre of Integrative Physiology, Edinburgh, UK, .
  • Risse, Benjamin (): ‘Is Science Mostly Driven by Tools or by Ideas?’ Center for Integrative Biology, Toulouse, France, .
  • Risse, Benjamin (): ‘Insect Robotics’. Living Machines Workshop Satellite Presentation, Edinburgh, UK, .

  • Risse, Benjamin (): ‘Imaging and Tracking in Neurobiology’. IPAB Workshop, Edinburgh, UK, .
  • Risse, Benjamin (): ‘Acquiring Locomotion Trajectories of Drosophila melanogaster’. European Neuroscience Institute (ENI), Göttingen, Germany, .
  • Risse, Benjamin (): ‘Tracking and Imaging in Neurobiology using FIM’. Leibniz Institute for Neurobiology (LIN), Magdeburg, Germany, .
  • Risse, Benjamin (): ‘Imaging Modalities for Semi-Translucent Animals and Their Impact on Quantitative Analysis’. Visual Obervation and Analysis of Vertebrate and Insect Behavior Workshop, ICPR 2014, Stockholm, Sweden, .
  • Risse, Benjamin (): ‘FIM: Acquiring Locomoton Trajectories of Drosophila melanogaster’. Drosophila larval development and locomotion meeting, Münster, Germany, .
  • Risse, Benjamin (): ‘Imaging and Tracking in Neurobiology’. Imaging and Mathematics (Münster Cambridge Meeting), Münster, Germany, .

  • Risse, Benjamin (): ‘Acquiring Locomotion Trajectories of Drosophila melanogaster’. Southwestern University of Finance and Economics, Sichuan, China, .