Secrets of Squishy Matter
I am a theoretical biophysicist. Always curious about problems where SOFTness matters ! My tools are simulations, analytical models, numerical analysis using statistics and data visualization.
I am a theoretical biophysicist. Always curious about problems where SOFTness matters ! My tools are simulations, analytical models, numerical analysis using statistics and data visualization.
Currently, I am a Postdoc at the Department of Physics, U Toronto with Sid Goyal working on modelling single-cell genomics. Previously, I worked with Jacques Prost at the Institute Curie, Paris/Mechanobiology Institute (NUS, Singapore). From 2010-2014, I was a fellow of the International Helmholtz Research School of Biophysics and Soft Matter (IHRS-BioSoft) in Germany. I received my PhD (Summa cum laude, University of Cologne) under the guidance of Prof. Gerhard Gompper (Research Director, Juelich). Prior to my reseach stay in Germany, I completed from India; M.Sc. Physics (IIT, Bombay, 2010) and B.Sc. Hons. (University of Calcutta, 2008).
Previously, I was broadly interested in the interplay of geometry, elasticity, and self assembly at SoftBio interfaces. I investigated mechanics of living systems to understand the role of forces, flow and fluctuations within cells and tissue networks. Interesting questions being -How cells shape up in response to a mechanical stimulus; how biomolecules sense such biomechanical feedback and react in establishing a coherent cell cytoskeleton; and the role of such self organizational principles in tissue growth and morphogenetic development.
Currently, my major interests being, on undestanding single cell RNA seq-data to indentify unique cell states/types, construct cell lineages and use dynamical models to predict evolution to other possible cell fates during differentiation. My work involves, machine learning on high dimensional datasets and tools from neural networks.
SoftBio Matter are characterized by sizes of few nanometers to micrometers and interaction energies that are comparable to thermal energies. This allows the use of toolboxes comprised of continuum mechanics and statistical physics to explore diverse phenomenon ranging from capillarity, wrinkling, wetting, cell adhesion, tissue growth and cellular transport occurring across various length and time scales. Everything starting from (ice)creams, paints, and jellies to living matter such as cells, tissues and embryos fall under the realm of soft condensed matter. Apart from contributing to fundamental understanding of states of matter responsive to thermal stresses like polymers, membranes, colloidal systems; physics of SoftBio systems have deep implications in many applications such as: towards discovering novel functional materials, providing technology solutions as well as to understanding physical basis of diseases.
15. Fluidization of three-dimensional tissue morphologies by active rearrangements Highlighted as Editors Suggestion
M. Krajnc, S. Dasgupta, P. Ziherl, and J.Prost
preprint : Arxiv |
Phys. Rev. E 98, 022409
14. Single cell RNA sequencing: a new window into cell scale dynamics (Perspective)
S. Dasgupta, G. Bader, and S.Goyal
Biophysical Journal, 2018, 115 (3), P429-435
13. Nanoparticle-decorated erythrocytes reveal that particle size controls extent of adsorption, cell shape, and cell deformability
A. Barbul, K. Singh, L. Horev–Azaria, S. Dasgupta, T. Auth, R.Korenstein and G. Gompper
ACS Appl. Nano Mater., 2018,1 (8), pp 3785–3799
12. Physics of Lumen growth
S. Dasgupta, K. Gupta, Y. Zhang, V. Viasnoff, and J. Prost
preprint : Biorxiv |
Proceedings of the National Academy of Sciences, 2018, 115(21), E4751-E4757
11. Nanoparticle wrapping at small non-spherical vesicles: curvatures at play
Q. Yu, S. Othman, S. Dasgupta, T. Auth and G. Gompper
Nanoscale, 2018,10, 6445-6458
10. Dynamical three-dimensional vertex model: A comprehensive computational tool for unlocking the role of mechanics during early embryogenesis
M. Krajnc, A. Horvat, S. Dasgupta, and P. Ziherl
in preparation
9. Nanoparticles at biological vesicles: the role of osmotic pressure
Q. Yu, S. Dasgupta, T. Auth, and G. Gompper
in preparation
8. Syncytial germline architecture is actively maintained by contraction of an extracellular actomyosin truss
P. Agarwal, A. Padmanabhan, H. T. Ong, S. Dasgupta, M. Krajnc, and R. Zaidel-Bar
in review: Nature Communication
7. Interaction of particles and pathogens with biological membranes (Book chapter)
T. Auth, S. Dasgupta and G. Gompper
in press, Springer book: Physics of Biological Membranes, Bassereau & Sens (Eds)
6. Nano-and Microparticles at Fluid and Biological Interfaces (Invited review)
S. Dasgupta, T. Auth, and G. Gompper
Journal of Physics: Condensed Matter, 2017, 29(37)
5. Capillary Assembly of Microscale Ellipsoidal, Cuboidal, and Spherical Particles at Interfaces
S. Dasgupta, M. Katava, M. Faraj, T. Auth, and G. Gompper
Langmuir, 2014, 30 (40), 11873-11882
4. Interfacing Electrogenic Cells with 3D Nanoelectrodes: Position, Shape, and Size Matter
F. Santoro, S. Dasgupta, J. Schnitker, T. Auth, E. Neumann, G. Panaitov, G. Gompper, and A. Offenhaeusser
ACS Nano, 2014, 8(7), 6713-6723
3. Membrane-Wrapping Contributions to Malaria Parasite Invasion of the Human Erythrocyte
S. Dasgupta, T. Auth, N. Gov, E.S. Zuccala, E.G. Hanssen, T.J. Satchwell, D.T. Riglar, A.M. Toye, T. Betz, J. Baum, and G. Gompper
Biophysical Journal, 2014, 107 (1), 43-54
2. Shape and Orientation Matter for the Cellular Uptake of Nonspherical Particles
S. Dasgupta, T. Auth, and G. Gompper
Nano Letters, 2014, 14(2), 687-693
1. Wrapping of ellipsoidal nano-particles by fluid membranes
S. Dasgupta, T. Auth, and G. Gompper
Soft Matter, 2013, 9, 5473-5482
Highlighted in Soft Matter themed collection “Interaction of nano-objects with lipid membranes”
Send me your thoughts, queries or suggestions and I shall get back to you.