Publications

 P. Gupta, S. Kayal, S. P. Pothapragada, H. K. Senapati, P. Devendran, D. Bi, T. Das "Mechanical imbalance between normal and cancer cells drives epithelial defence against cancer" (2024) https://doi.org/10.1101/2023.09.27.559723 

Margherita De Marzio, Amit Das, Jeffrey J. Fredberg, Dapeng Bi, "Epithelial layer fluidization by curvature-induced unjamming" (2024) https://arxiv.org/abs/2305.12667 

Yiwen Tang, Siyuan Chen, Mark J. Bowick, Dapeng Bi "Cell Division and Motility Enable Hexatic Order in Biological Tissues" (2024) https://arxiv.org/abs/2303.00129 

G. Cai, X. Li, S.-S. Lin, S. Chen, K. Koning,  D. Bi,  A. P. Liu, "Matrix stiffness modulates 3D spheroid sorting and burst-like collective migration" (2024) https://doi.org/10.1101/2023.07.23.549940 

1. Michael J. Hertaeg, Suzanne M. Fielding, D. Bi "Discontinuous shear thickening in biological tissue rheology" Phys. Rev. X (in press 2024) https://arxiv.org/abs/2211.15015  

2. Mohammad Nabizadeh, Farzaneh Nasirian, Xinzhi Li, Yug Saraswat, Rony Waheibi, Lilian C. Hsiao, Dapeng Bi, Babak Ravandi, Safa Jamali "Network physics of attractive colloidal gels: Resilience, Rigidity, and Phase Diagram"   Proceedings of the National Academy of Sciences 121.3 (2024): e2316394121. https://doi.org/10.1073/pnas.2316394121 (2023) https://arxiv.org/abs/2301.13027 

3. J. Huang, H. Levine, D. Bi "Bridging the gap between collective motility and epithelial–mesenchymal transitions through the active finite voronoi model" Soft Matter (2023) https://doi.org/10.1039/D3SM00327B 

4. K. Malakar, R. Rubenstein, D. Bi, B. Chakraborty "A Mechanistic Model of the Organization of Cell Shapes in Epithelial Tissues" Frontiers in Soft Matter (2023) https://doi.org/10.3389/frsfm.2023.1214159 

5. X. Li and D. Bi, "Nature-inspired designs for disordered acoustic bandgap materials" Soft Matter (2023) https://doi.org/10.1039/D3SM00419H 

6. V. Babu, H. A Vinutha, D. Bi, S Sastry "Discontinuous rigidity transition associated with shear jamming in granular simulations" (2023) https://doi.org/10.1039/D3SM00725A 

7. S. Fielding, J. Cochran, J. Huang,  D. Bi, M. C. Marchetti, “Constitutive model for the rheology of biological tissue” (2023). https://doi.org/10.1103/PhysRevE.108.L042602

8. Grace Cai, Anh Nguyen , Yashar Bashirzadeh, Shan-Shan Lin, D. Bi and Allen P. Liu, "Compressive stress drives adhesion-dependent unjamming transitions in breast cancer cell migration" Front. Cell Dev. Biol. (2022) 10:933042. doi: 10.3389/fcell.2022.933042  https://doi.org/10.3389/fcell.2022.933042 

9. W. Tang, A. Das, A. F. Pegoraro, Y-L Han, J Huang, D. A. Roberts, H. Yang, J. J. Fredberg, D. N. Kotton, D. Bi, M. Guo, “Collective curvature sensing and fluidity in three-dimensional multicellular systems”. Nat. Phys. (2022)  https://doi.org/10.1038/s41567-022-01747-0 

10. Thomas Fuhs*, Franziska Wetzel*, Anatol W. Fritsch*, Xinzhi Li*, Roland Stange, Steve Pawlizak, Tobias R. Kießling, Erik Morawetz, Steffen Grosser, Frank Sauer, Jürgen Lippoldt, Frederic Renner, Sabrina Friebe, Mareike Zink, Klaus Bendrat,  Maja Oktay, John Condeelis, Susanne Briest, Benjamin Wolf, Lars-Christian Horn, Michael Höckel, Bahriye Aktas, M. Cristina Marchetti, M. Lisa Manning, Axel Niendorf, D. Bi, Josef A. Käs, (*=equal contribution) "Rigid Tumors contain soft cancer cells?" Nat. Phys.  https://doi.org/10.1038/s41567-022-01755-0  (Sept 29, 2022)  

11. J. Huang, Cochran, Fielding, Marchetti and D. Bi, “Stress-driven rigidity and non-linear elasticity in epithelial tissues.” Phys. Rev. Lett. 128, 178001. https://doi.org/10.1103/PhysRevLett.128.178001 (PRL Editor Suggestion)

12. A. Das, S. Sastry & D. Bi. “Controlled neighbor exchanges drive glassy behavior, intermittency and cell streaming in epithelial tissues” Phys. Rev. X 11, 041037 (2021). https://doi.org/10.1103/PhysRevX.11.041037 

13. H. Yang, A.F. Pegoraro , Y-L Han , W. Tang , R. Abeyaratne , D. Bi & M. Guo. “Configurational Fingerprints of Multicellular Living Systems” PNAS (2021), 118 (44) e2109168118; DOI: 10.1073/pnas.2109168118  https://doi.org/10.1073/pnas.2109168118

14. SZ Lin, WY Zhang, D. Bi, B Li, XQ Feng “Energetics of mesoscale cell turbulence in two-dimensional monolayers” Communications Physics 4 (1) (2021), 1-9 https://doi.org/10.1038/s42005-021-00530-6

15. J.A. Mitchel*, A. Das*, M. O’Sullivan, I. Stancil, S. DeCamp, S. Koehler, J.J. Fredberg, J. Drazen, J. P Butler, A. Nieto, D. Bi and J.-A. Park, “The unjamming transition is distinct from the epithelial-to-mesenchymal transition”, Nature Communications 11 5053 (2020). https://doi.org/10.1038/s41467-020-18841-7

16. J.-H. Kim et al “Unjamming and collective migration in MCF10A breast cancer cell lines."  Biochemical and Biophysical Research Communications 521 3 (2020)  https://doi.org/10.1016/j.bbrc.2019.10.188

17. M. J. O'Sullivan, J. A. Mitchel, A. Das, S. Koehler, H.  Levine, D. Bi., Z. D. Nagel, & J.-A Park. “Collective migration of non-cancerous, well-differentiated human airway epithelial cells by ionizing radiation", Frontiers in Cell and Developmental Biology 8 (2020) https://doi.org/10.3389/fcell.2020.00021

18. X. Li, A. Das, & D. Bi “Mechanical Heterogeneity in Tissues Promotes Rigidity and Controls Cellular Invasion", Physical Review Letters 123, 058101 (2019) https://doi.org/10.1103/PhysRevLett.123.058101

19. L. Yan & D. Bi “Multicellular rosettes drive fluid-solid transition in epithelial tissues”  Physical Review X 9 (011029) (2019). https://doi.org/10.1103/PhysRevX.9.011029

20. V. Ajeti , A. Tabatabai , A. Fleszar , M. Staddon , D. Seara , C. Suarez , S. Yousafzai , D. Bi , D. Kovar , S. Banerjee &  M. Murrell , “Epithelial Wound Healing Coordinates Distinct F-actin Architectures to Conserve Work and Balance Power". Nature Physics 15,  696–705 (2019). https://www.nature.com/articles/s41567-019-0485-9

21. S.Z. Lin, D. Bi. B. Li and X.Q. Feng, “Dynamic instability and migration modes of collective cells in channels”, Journal of the Royal Society Interface 16 (156), 20190258 (2019). https://doi.org/10.1098/rsif.2019.0258

22. X. Li, A. Das & D. Bi , “Biological tissue-inspired tunable photonic fluid". Proceedings of the National Academy of Sciences of the United States of America 115 (26) 6650-6655  (2018). https://doi.org/10.1073/pnas.1715810115

23. F. Giavazzi, M. Paoluzzi, M. Macchi, D. Bi, G. Scita, M.-L. Manning, R Cerbino & M.-C. Marchetti, “Flocking Transition in Confluent Tissues”,  Soft Matter  14, 3471-3477 (2018). https://doi.org/10.1039/C8SM00126J

24. M. Czajkowski, D. Bi , L. Manning & M. Marchetti, “Hydrodynamics of shape-driven rigidity transitions in motile tissues". Soft Matter, 14, 5628-5642 (2018). https://doi.org/10.1039/C8SM00446C

25. M. F. Staddon, D. Bi, M. P. Murrell, & S. Banerjee. “Cooperation of dual modes of cell motility promotes epithelial stress relaxation to accelerate wound healing” PLOS Computation Biology 14 (10) e1006502 (2018) https://doi.org/10.1371/journal.pcbi.1006502

26. L. Atia*, D. Bi* et al  “Geometrical constraints during epithelial jamming."  Nature Physics 14, 613–620 (2018)  (*=equal contribution) https://www.nature.com/articles/s41567-018-0089-9

27. X. Yang, D. Bi, M. Czajkowski, M. Merkel M. L. Manning & M. C. Marchetti, “Correlating Cell Shape and Cellular Stress in Motile Confluent Tissues" Proceedings of the National Academy of Sciences of the United States of America 28, 114 (48) 12663-12668 (2017). https://doi.org/10.1073/pnas.1705921114

28. D. Bi, X. Yang, M Cristina Marchetti & M. Lisa Manning. “Motility-driven glass and jamming transitions in biological tissues”, Physical Review X 6, 021011 (2016) https://doi.org/10.1103/PhysRevX.6.021011

29. S. Sarkar, D. Bi, J. Zhang, J. Ren, R. P. Behringer and B. Chakraborty. “Shear-induced rigidity of frictional particles: Analysis of emergent order in stress space", Physical Review E 93, 042901 (2016) https://doi.org/10.1103/PhysRevE.93.042901

30. D. Bi, J.H. Lopez, J. M. Schwarz and M. Lisa Manning. “A density-independent rigidity transition in biological tissues", Nature Physics, 11, 1074-1079 (2015) https://doi.org/10.1038/nphys3471

31. J-A. Park, J. H. Kim, D. Bi et al “Unjamming and cell shape in the asthmatic airway epithelium", Nature Materials 14 1040--1048 (2015) https://doi.org/10.1038/nmat4357

32. D. Bi, S. Henkes, K. Daniels, B. Chakraborty. “The Statistical Physics of Athermal Materials", Annual Review of Condensed Matter Physics 6, 63-83 (2015) https://doi.org/10.1146/annurev-conmatphys-031214-014336

33. D. Bi, J.H. Lopez, J. M. Schwarz and M. Lisa Manning. “Energy barriers and cell migration in densely packed tissues", Soft Matter 10, 1885-1890 (2014) https://doi.org/10.1039/C3SM52893F

34. R.P. Behringer, D. Bi, B. Chakraborty, A. Clark, J. Dijksman, J. Ren, and J Zhang “Statistical Properties of Granular Materials near Jamming".  Journal of Statistical Mechanics: Theory and Experiment P06004 (2014). https://doi.org/10.1088/1742-5468/2014/06/P06004

35. S. Sarkar, D. Bi, J. Zhang, R.P. Behringer and B. Chakraborty “Origin of Rigidity in Dry Granular Solids".  Physical Review Letters 111 068301 (2013). https://doi.org/10.1103/PhysRevLett.111.068301

36. D. Bi, J. Zhang, R. P. Behringer and B. Chakraborty “Fluctuations in Shear-Jammed States: A Statistical Ensemble Approach", Europhysics Letters 102, 34002 (2013) https://doi.org/10.1209/0295-5075/102/34002      

37. D. Bi, J. Zhang, B. Chakraborty and R.P. Behringer  “Jamming by shear".  Nature 480, 355 -- 358 (2011). https://doi.org/10.1038/nature10667

38. D. Bi and B. Chakraborty  “Rheology of granular materials: dynamics in a stress landscape." Philosophical Transactions of the Royal Society A 367 1909, 5073--5090 (2009). https://doi.org/10.1098/rsta.2009.0193

39. R. P. Behringer, D. Bi, S. Henkes and B Chakraborty  “Why Do Granular Materials Stiffen with Shear Rate? Test of Novel Stress-Based Statistics", Physical Review Letters 103 268301 (2008). https://doi.org/10.1103/PhysRevLett.101.268301