Matthias Merkel

The asterisk * indicates shared first authorship.

Preprints

• Marangoni-like tissue flows enhance symmetry breaking of embryonic organoids
  Simon Gsell, Sham Tlili, Matthias Merkel, Pierre-François Lenne.
  bioRxiv: 10.1101/2023.09.22.559003 (2023).
• Generic elasticity of thermal, under-constrained systems
  Cheng-Tai Lee, Matthias Merkel.
  arXiv: 2304.07266 (2023).
• Partition sum of thermal, under-constrained systems
  Cheng-Tai Lee, Matthias Merkel.
  arXiv: 2304.07264 (2023).

Peer-reviewed articles

• Soft Matter Roadmap
  Jean-Louis Barrat, ..., Matthias Merkel, Pierre Ronceray , Jean-François Rupprecht, et al.
  Journal of Physics: Materials (2023).
• Structure and Rheology in Vertex Models under Cell-Shape-Dependent Active Stresses
  Shao-Zhen Lin, Matthias Merkel, Jean-François Rupprecht.
  Physical Review Letters 130(5), p. 058202 (2023),arXiv: 2204.05407 (2022).
• Curvature gradient drives polarized tissue flow in the Drosophila embryo
  Emily Gehrels*, Bandan Chakrabortty*, Marc-Eric Perrin, Matthias Merkel, Thomas Lecuit.
  Proceedings of the National Academy of Sciences 120(6), p. e2214205120 (2023), bioRxiv.
• Deforming polar active matter in a scalar field gradient
  Muhamet Ibrahimi, Matthias Merkel.
  New Journal of Physics 25(1), p. 013022 (2023), arXiv: 2206.12850 (2022).
• Stiffening of under-constrained spring networks under isotropic strain.
  Cheng-Tai Lee, Matthias Merkel.
  Soft Matter 18(29), p. 5410-5425 (2022), arXiv: 2201.05385 (2022).
• Phase separation dynamics in deformable droplets.
  Simon Gsell, Matthias Merkel.
  Soft Matter 18(13), p. 2672-2683 (2022), arXiv: 2111.04655 (2021).
• Implementation of cellular bulk stresses in vertex models of biological tissues.
  Shao-Zhen Lin, Matthias Merkel, Jean-Francois Rupprecht.
  The European Physical Journal E 45(1), p. 4 (2022).
• Cell and Nucleus Shape as an Indicator of Tissue Fluidity in Carcinoma.
  Steffen Grosser, Jürgen Lippoldt, Linda Oswald, Matthias Merkel, Daniel M Sussman, Frédéric Renner, Pablo Gottheil, Erik W Morawetz, Thomas Fuhs, Xiaofan Xie, Steve Pawlizak, Anatol W Fritsch, Benjamin Wolf, Lars-Christian Horn, Susanne Briest, Bahriye Aktas, M Lisa Manning, Josef A Käs.
  Physical Review X 11(1), p. 011033 (2021).
• Anisotropy links cell shapes to tissue flow during convergent extension.
  Xun Wang*, Matthias Merkel*, Leo B. Sutter*, Gonca Erdemci-Tandogan, M. Lisa Manning, Karen E. Kasza.
  Proceedings of the National Academy of Sciences 117(24), p. 13541 (2020), arXiv: 2005.07283.
• A minimal-length approach unifies rigidity in underconstrained materials.
  Matthias Merkel, Karsten Baumgarten, Brian P. Tighe, M. Lisa Manning.
  Proceedings of the National Academy of Sciences 116(14), p. 6560 (2019), arXiv: 1809.01586.
• Inferring statistical properties of 3D cell geometry from 2D slices.
  Tristan A. Sharp, Matthias Merkel, M. Lisa Manning, Andrea J. Liu.
  PLoS ONE 14(2), p. e0209892 (2019).
• No unjamming transition in a Voronoi model of biological tissue.
  Daniel M. Sussman*, Matthias Merkel*.
  Soft Matter 14(17), p. 3397 (2018), arXiv: 1708.03396.
• A geometrically controlled rigidity transition in a model for confluent 3D tissues.
  Matthias Merkel, M. Lisa Manning.
  New Journal of Physics 20(2), p. 022002 (2018), Fast Track Communication.
• Asymmetric cell volume changes regulate epithelial morphogenesis in zebrafish Kupffer’s vesicle.
  Agnik Dasgupta, Matthias Merkel, Andrew E. Jacob, Jonathan Dawson, M. Lisa Manning, Jeffrey D. Amack.
  eLife 7(5), p. e30963 (2018).
• Correlating Cell Shape and Cellular Stress in Motile Confluent Tissues.
  Xingbo Yang, Dapeng Bi, Michael Czajkowski, Matthias Merkel, M. Lisa Manning, M. Cristina Marchetti.
  Proceedings of the National Academy of Sciences 114(48), p. 12663 (2017), arXiv: 1704.05951.
• Using cell deformation and motion to predict forces and collective behavior in morphogenesis.
  Matthias Merkel, M. Lisa Manning.
  Seminars in Cell & Developmental Biology 67, p. 161 (2017).
• Active dynamics of tissue shear flow.
  Marko Popović, Amitabha Nandi, Matthias Merkel, Raphaël Etounay, Suzanne Eaton, Frank Jülicher, Guillaume Salbreux.
  New Journal of Physics 19(3), p. 033006 (2017), Selected as one of the NJP Highlights of 2017.
• Triangles bridge the scales: Quantifying cellular contributions to tissue deformation.
  Matthias Merkel, Raphaël Etounay, Marko Popović, Guillaume Salbreux, Suzanne Eaton, Frank Jülicher.
  Physical Review E 95(3), p. 032401 (2017), Editor's suggestion, arXiv: 1607.00357.
• TissueMiner: a multiscale analysis toolkit to quantify how cellular processes create tissue dynamics.
  Raphaël Etournay*, Matthias Merkel*,Marko Popović*, Holger Brandl*, Natalie Dye, Benoît Aigouy, Guillaume Salbreux, Suzanne Eaton, Frank Jülicher.
  eLife 5, p. e14334 (2016).
• 
  Interplay of cell dynamics and epithelial tension during morphogenesis of the Drosophila pupal wing.
  Raphaël Etournay*, Marko Popović*, Matthias Merkel*, Amitabha Nandi*, Corinna Blasse, Benoît Aigouy, Holger Brandl, Gene Myers, Guillaume Salbreux, Frank Jülicher, Suzanne Eaton.
  eLife 4, p. e07090 (2015).
• The Balance of Prickle/Spiny-Legs Isoforms Controls the Amount of Coupling between Core and Fat PCP Systems.
  Matthias Merkel*, Andreas Sagner*, Franz Sebastian Gruber, Raphaël Etournay, Corinna
  Blasse, Eugene Myers, Suzanne Eaton, Frank Jülicher.
  Current Biology 24(18), p. 2111 (2014).
• Establishment of Global Patterns of Planar Polarity during Growth of the Drosophila Wing Epithelium.
  
  Andreas Sagner, Matthias Merkel, Benoît Aigouy, Julia Gaebel, Marko Brankatschk, Frank Jülicher, Suzanne Eaton.
  Current Biology 22(14), p. 1296 (2012).
• Synaptic filtering of rate-coded information.
  
  Matthias Merkel, Benjamin Lindner.
  Physical Review E 81(4), p. 041921 (2010).

Book chapters

• Quantitative methods to study epithelial morphogenesis and polarity.
  Matthias Merkel*, Benoît Aigouy*, Clauido Collinet*, Andreas Sagner*.
  Cell Polarity and Morphogenesis, p. 121–152 (2017).

Theses

• From cells to tissues: Remodeling and polarity reorientation in epithelial tissues.
  Ph.D. thesis, Technische Universität Dresden (2014).
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• Synaptic Short-Term Plasticity and Information Transmission.
  Diploma thesis, Technische Universität Dresden (2009).
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