Publications

Manning CV
via Google Scholar:

Preprints and submitted manuscripts:

  1. Ojan Khatib Damavandi*, Sadjad Arzash*, Elizabeth Lawson-Keister, M. Lisa Manning. (2024). Universality in the Mechanical Behavior of Vertex Models for Biological Tissues. on BioRXiv: https://doi.org/10.1101/2022.06.01.494406.
     We acknowledge support from the Simons Foundation grants No 454947 to MLM (OKD and MLM) and No 446222 (MLM and ELK), and MLM acknowledges support from NSF-DMR-1951921.
  2. Sadjad Arzash, Indrajit Tah, Andrea J. Liu, M. Lisa Manning. (2024). Rigidity of Epithelial Tissues as a Double Optimization Problem . https://arxiv.org/abs/2312.11683 submitted
    We thank Varda F. Hagh, R. Cameron Dennis, and Elizabeth Lawson-Keister for helpful discussions. MLM and SA were supported by SimonsFoundation #454947, NSF-DMR-1951921 and SU’s Orange Grid research computing cluster.
  3. Ludovic Berthier, Giulio Biroli, M. Lisa Manning, Francesco Zamponi. (2024). Yielding and plasticity in amorphous solids. https://arxiv.org/abs/2401.09385 . Submitted.
    This work was supported by a grant from the Simons Foundation (#454933, Ludovic Berthier, #454935 Giulio Biroli, #454947 Lisa Manning, #454955 Francesco Zamponi ).
  4. Raj Kumar Manna*, Emma M. Retzlaff*, Anna Maria Hinman, Yiling Lan, Osama Abdel-Razek, Mike Bates, Heidi Hehnly, Jeffrey D. Amack†, M. Lisa Manning†. (2024). Dynamical forces drive organ morphology changes during embryonic development.
    doi: https://doi.org/10.1101/2024.07.13.603371.
    We thank Elizabeth Lawson-Keister and Sadjad Arzash for helpful discussions, and Tao Zhang and Jen Schwarz for 3D vertex model code. This work was primarily supported by NIH R01HD099031. We also acknowledge R01GM-127621 (H.H.) and no. R01GM-130874 (H.H.), and NSF-CMMI-1334611 (M.L.M).
  5. Tyler Hain, Chris Santangelo†, and M. Lisa Manning†. (2024).Optimizing properties on the critical rigidity manifold of underconstrained central-force networks. https://arxiv.org/abs/2407.13939. Submitted.
    MLM and TH were supported by Simons Foundation #454947, NSF-DMR-1951921 and SU’s Orange Grid research computing cluster. CDS was supported by DMR-2217543.

Peer-reviewed publications:

  1. M. Lisa Manning. (2024). “Rigidity in mechanical biological networks” (Review). accepted to Current Biology.
    We thank Alessandro Mongera for suggesting the glassblowing analogy. We acknowledge funding support from Simons Grant #04391, NIH R01HD099031, NSF-CMMI-1334611, and the Chan Zuckerberg Theory in Biology Initiative.
  2. Carien M. Niessen, M. Lisa Manning, and Sara A. Wickström. (2024). “Mechanochemical Principles of Epidermal Tissue Dynamics.” (Review) Cold Spring Harb Perspect Biol a041518. June 10, 2024 doi:10.1101/cshperspect.a041518
    No Manning funding sources.
  3. Charles R. Packard, Shobitha Unnikrishnan, Shiva Phuyal, Soon Hon Cheong, M. Lisa Manning, Chih-Kuan Tung, Daniel M. Sussman. (2024). “Self-organized vortex phases and hydrodynamic interactions in Bos taurus sperm cells, https://arxiv.org/abs/2303.02697 accepted to Physical Review E.
     American Physical Society Bridge Program Minority Serving Institution Travel Grant to MLM and CKT. 
  4. Erin McCarthy*, Raj Kumar Manna*, Ojan Damavandi,  M. Lisa Manning. (2024). Demixing in binary mixtures with differential diffusivity at high density.
    Phys. Rev. Lett. 132, 098301, https://doi.org/10.1103/PhysRevLett.132.098301, https://arxiv.org/abs/2307.03303 .
    The authors acknowledge support from NSF-DMR-1951921 (E. M. and M. L. M.) NIH R01HD099031 (R. K. M. and M. L. M.), and Simons Foundation 454947 (O. K. D. and M. L. M.). R. K. M. thanks Sadjad Arjash for helpful discussions.
  5. Julia A. Giannini, Edan Lerner, Francesco Zamponi, M. Lisa Manning. (2024). Scaling regimes and fluctuations of observables in computer glasses approaching the unjamming transition. J. Chem. Phys. 160, 034502 https://doi.org/10.1063/5.0176713, https://arxiv.org/abs/2309.08784. accepted to the Journal of Chemical Physics.
    J.A.G. thanks Sadjad Arzash, R. Cameron Dennis, and Tyler A. Hain for helpful conversations, and David Richard for significant contributions to the analysis code used in this work. J.A.G. acknowledges the use of Syracuse University’s computational resources (OrangeGrid) and related support from Syracuse’s research computing team. E.L. acknowledges support from the NWO (Vidi Grant No. 680-47-554/3259). M.L.M. and J.A.G. were supported by NSF Grant No. DMR 1951921 and Simons Foundation No. 454947.
  6. Clémentine Villeneuve, Ali Hashmi#, Irene Ylivinkka#, Elizabeth Lawson-Keister#, Yekaterina A. Miroshnikova, Carlos Pérez-González, Bhagwan Yadav, Tao Zhang, Danijela Matic Vignjevic, Marja L. Mikkola, M. Lisa Manning* and Sara A. Wickström*.(2024). Mechanical forces across compartments coordinate cell shape and fate transitions to generate tissue architecture,  Nature Cell Biology 26, pages 207–218,  https://doi.org/10.1038/s41556-023-01332-4, BioRXiv https://www.biorxiv.org/content/10.1101/2022.12.12.519937v1.
    MLM and ELK acknowledge support from NIH R01HD099031 and Simons Foundation (454947 and 446222) 
  7. Elizabeth Lawson-Keister, Tao Zhang, Fatemeh Nazari, François Fagotto, M. Lisa Manning. (2024). “Differences in boundary behavior in the 3D vertex and Voronoi models”,  PLOS Comp Bio 20(1): e1011724. https://doi.org/10.1371/journal.pcbi.1011724 , https://arxiv.org/abs/2306.03987.
    The authors acknowledge financial support from the Simons Foundation grant #446222 and NIH R01HD099031 (ELK and MLM) and Simons Foundation #454947 (MLM), as well as a graduate dissertation fellowship from the Graduate School at Syracuse University (ELK).
  8. David Richard, Ahmed Elgailani, Damien Vandembroucq, M. Lisa Manning, Craig E Maloney. (2023). “Mechanical excitation and marginal triggering during avalanches in sheared amorphous solids”, Phys. Rev. E 107, 034902, https://doi.org/10.1103/PhysRevE.107.034902, arXiv: https://arxiv.org/abs/2202.05721.
    We acknowlege Simons Foundation No. 454947(A.E. and M.L.M). M.L.M. acknowledges support from NSF-DMR-1951921.
  9. Elizabeth Lawson-Keister and M. Lisa Manning. (2022). “Collective chemotaxis in a Voronoi model for confluent clusters”, Biophysical Journal, 121, no. 23: 4624-4634 http://dx.doi.org/10.1016/j.bpj.2022.10.029, BioRxiv https://www.biorxiv.org/content/10.1101/2021.11.15.468718v1.
    The authors acknowledge financial support from the Simons Foundation (#446222).
  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, Jürgen Braun, Maja H. Oktay, John Condeelis, Susanne Briest, Benjamin Wolf, Lars-Christian Horn, Michael Höckel, Bahriye Aktas, M. Cristina Marchetti, M. Lisa Manning, Axel Niendorf, Dapeng Bi & Josef A. Käs (2022). Rigid tumors contain soft cancer cells, Nature Physics,  https://doi.org/10.21203/rs.3.rs-1114106/v1 and https://doi.org/10.1038/s41567-022-01755-0.

  11. Ojan Damavandi, Lisa Manning, and J. M. Schwarz. (2022) “Effective medium theory of random regular networks”,  EPL 138 27001 https://doi.org/10.1209/0295-5075/ac6064, https://arxiv.org/abs/2110.04343.
    JMS and MLM acknowledge financial support from NSF-PoLS-2014192. We would also like to acknowledge support from the Simons Foundation No 454947 (MLM and OKD), and NSF-DMR-1951921 (MLM).

  12. Varda F. Hagh, Sidney R. Nagel, Andrea J. Liu, M. Lisa Manning, Eric I. Corwin. (2022). “Transient degrees of freedom and stability”, accepted for publication in PNAS,119, e2117622119 https://doi.org/10.1073/pnas.2117622119 ,  https://arxiv.org/abs/2105.10846 .
      This work is supported by the Simons Foundation for the collaboration Cracking the Glass Problem via awards 454939 (EIC), 454945 (AJL), 348126 (VFH and SRN), 454947 (MLM) and Investigator Awards 327939 (AJL) and 446222(MLM), as well as by the US Department of Energy, Office of Science, Basic Energy Sciences, under Grant DE-SC0020972 (for studying implications of training in biological systems, SRN). This work was also partially supported by the University of Chicago Materials Research Science and Engineering Center funded by the National Science Foundation under award number DMR-2011854.

  13. Ethan Stanifer and M. Lisa Manning. (2022) “Avalanche dynamics in sheared athermal particle packings occurs via localized bursts predicted by unstable linear response”, Soft Matter, 18, 2394-2406, https://doi.org/10.1039/D1SM01451J , https://arxiv.org/abs/2110.02803. See the associated “tweetorial”.
    M.L.M and E.M.S. acknowledge support from NSF-DMR-1951921 and Simons Foundation Grant No. 454947. M.L.M acknowledges additional support from Simons Foundation 446222, and E.M.S. from MURI N00014-20-1-2479.

  14. Takaki Yamamoto, Daniel M. Sussman, Tatsuo Shibata, M. Lisa Manning. (2022). “Non-monotonic fluidization generated by fluctuating edge tensions in confluent tissues,” Soft Matter 18, 2168-2175, https://doi.org/10.1039/d0sm01559h , https://arxiv.org/abs/2008.13007.
    M.L.M. and D.M.S. acknowledge support from Simons Foundation Grants #46222 and #454947 and NSFPHY-1607416.

  15. Julia A. Giannini, Ethan Stanifer, M. Lisa Manning. (2022). “Searching for structural predictors of plasticity in dense active packings”, Soft Matter 18, 1540-1553.

    DOI: 10.1039/D1SM01675J, https://arxiv.org/abs/2111.12848
    J.A.G. and M.L.M. acknowledge support from the Simons Foundation grant #454947 and National Science Foundation NSF-DMR-1951921. E.M.S. acknowledges support from MURI N00014-20-1-2479.

  16. Ojan Damavandi, Varda Hagh, Chris Santangelo*, M. Lisa Manning*. (2022). “Energetic rigidity I: a Unifying Theory of Mechanical Stability”. Phys. Rev. E 105, 025003. https://doi.org/10.1103/PhysRevE.105.025003,  https://arxiv.org/abs/2102.11310 .  See the associated tweetorial.
    This work is partially supported by grants from the Simons Foundation No 348126 to Sid Nagel (VH), No 454947 to MLM (OKD and MLM) and No 446222 (MLM). CDS acknowledges funding from the NSF through grant DMR-1822638, and MLM acknowledges support from NSF-DMR-1951921
  17. Ojan Damavandi, Varda Hagh, Chris Santangelo*, M. Lisa Manning*. (2022). “Energetic rigidity II: Applications in examples of biological and underconstrained materials”. Phys. Rev. E 105, 025004, https://doi.org/10.1103/PhysRevE.105.025004, https://arxiv.org/abs/2107.06868 . See the associated tweetorial.
    This work is partially supported by grants from the Simons Foundation No 348126 to Sid Nagel (VH), No 454947 to MLM (OKD and MLM) and No 446222 (MLM). CDS acknowledges funding from the NSF through grant DMR-1822638, and MLM acknowledges support from NSF-DMR-1951921
  18. Julia A. Giannini, David Richard, M. Lisa Manning, and Edan Lerner, “Bond-space operator disentangles quasi-localized and phononic modes in structural glasses”, Phys. Rev. E 104, 044905, https://doi.org/10.1103/PhysRevE.104.044905, https://arxiv.org/abs/2106.16231 (2021).
    E.L. acknowledges support from the NWO (Vidi grant no. 680-47-554/3259). J.A.G. and M.L.M. acknowledge support from the Simons Foundation grant #454947 and National Science Foundation NSF-DMR-1951921. D. R. acknowledges support of the Simons Foundation for the “Cracking the Glass Problem Collaboration” Award No. 348126.
  19. Preeti Sahu, J. M. Schwarz, M. Lisa Manning. “Geometric signatures of tissue surface tension in a three-dimensional model of confluent tissue”, New J. Phys. 23 093043 https://doi.org/10.1088/1367-2630/ac23f1, https://arxiv.org/abs/2102.05397 (2021).  See Preeti’s great tweet-torial: https://twitter.com/PreetiSahu7/status/1443911584657645581?s=20
    This work was primarily funded by NSF-PoLS-1607416 and NSF-PoLS-2014192. PS and MLM acknowledge additional support from Simons Grant No. 454947.
  20. Elizabeth Lawson-Keister and M. Lisa Manning, “Review: Jamming and arrest of cell motion in biological tissues”,  Current Opinion in Cell Biology Volume 72, October 2021, Pages 146-155, https://doi.org/10.1016/j.ceb.2021.07.011, https://arxiv.org/abs/2102.11255 (2021).
    This work was supported by the Simons Foundation grants #454947 and #446222 and the National Science Foundation NSF-DMR-1951921.
  21. Paula C. Sanematsu, Gonca Erdemci-Tandogan, Himani Patel, Emma M. Retzlaff, Jeffrey D. Amack, M. Lisa Manning. “3D viscoelastic drag forces drive changes to cell shapes during organogenesis in the zebrafish embryo,” accepted to special inaugural issue of Cells and Development, https://doi.org/10.1016/j.cdev.2021.203718 BioRXiv https://doi.org/10.1101/2021.02.23.432503 (2021)
    This work was supported by NIH grants R01GM117598 and R01HD099031, and a Simons
    Foundation Investigator Award (#446222).
  22. Gonca Erdemci-Tandogan and M. L. Manning. Effect of cellular rearrangement time delays on the rheology of vertex models for confluent tissues, PLOS Comp. Bio https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009049 17(6): e1009049, BioRXiv: https://doi.org/10.1101/2021.02.13.431087 (2021).
    This work was supported by NIH R01GM117598 and the Simons Foundation (grant #446222 and #454947 to MLM).
  23. Peter K. Morse, Sudeshna Roy, Elisabeth Agoritsas, Ethan Stanifer, Eric I. Corwin, M. Lisa Manning. “A direct link between active matter and sheared granular systems,” 118 (18) e2019909118; https://doi.org/10.1073/pnas.2019909118 , https://arxiv.org/abs/2009.07706 (2021). 
       M.L.M., P.M, and S.R. acknowledge support from from Simons Foundation Grants #46222 and #454947, and M.L.M. acknowledges support from NSFDMR-1951921.
  24. John Devany, Daniel M. Sussman, Takaki Yamamoto, M. Lisa Manning, Margaret L. Gardel, “Cell division Rate Controls Cell Shape Remodeling in Epithelia,”  PNAS 118 (10) e1917853118 https://www.pnas.org/content/118/10/e1917853118, on BioRXiv: https://doi.org/10.1101/804294 (2021).
    MLM acknowledges funding from a Simons Foundation collaborative grant on Cracking the glass problem (#454947) and in the Mathematical Modeling of Living Systems(#446222) as well as NSF-PHY-1607416. This project was initiated by Scialog Funding awarded to MLG and MLM
  25. 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, and Josef A. Käs. “Cell and Nucleus Shape as an Indicator of Tissue Fluidity in Carcinoma,”  Physical Review X 11, 011033
    https://doi.org/10.1103/PhysRevX.11.011033 (2021).
    This project has received funding from the European Research Council (ERC-741350/HoldCancerBack), the
    Deutsche Forschungsgemeinschaft (DFG KA 1116/17-1 and INST 268/296-1 FUGG), the National Science Foundation (NSF-PHY-1607416), and the Simons
    Foundation (Grants No. 446222 and No. 454947)
  26. David Richard* Geert Kapteijns* Julia A. Giannini, M. Lisa Manning, and Edan Lerner, “A simple and broadly-applicable definition of shear transformation zones,” accepted to Phys. Rev. Lett. 126(1) 015501,https://doi.org/10.1103/PhysRevLett.126.015501,  https://arxiv.org/abs/2007.08181 (2021).
    We are grateful for the support of the Simons Foundation for the Cracking the Glass Problem Collaboration Awards No. 348126 to Sid Nagel (D. R.), No. 454947(M. L. M.), and Simons investigator grant No.446222(J. A. G). 
  27. Diogo E. P. Pinto, Gonca Erdemci-Tandogan, M. Lisa Manning, and Nuno A. M. Araujo. “The cell adaptation time sets a minimum length scale for patterned substrates,” Biophysical Journal 119,11 https://doi.org/10.1016/j.bpj.2020.10.026, https://arxiv.org/abs/2005.01518 (2020).
    MLM and GET acknowledge support from the Simons Foundation (#446222) and from NSF-DMR-1352184 (MLM).
  28. D. Richard, M. Ozawa, S. Patinet, E. Stanifer, B. Shang, S. Ridout, B. Xu, G. Zhang, P. Morse, J.-L. Barrat, L. Berthier, M.L. Falk, P. Guan, A. Liu, K. Martens, S. Sastry, D. Vandembroucq, E. Lerner, and M.L. Manning. “Predicting plasticity in disordered solids from structural indicators,” Physical Review Materials 4, 113609 https://doi.org/10.1103/PhysRevMaterials.4.113609  arXiv:2003.11629 (2020).
    Simons Cracking the Glass No.454947 (P. Morse and M. L. Manning), NSF-DMR-1352184 (E. Stanifer)
  29. Peter Morse, Merlijn van Deen, Sven Wijtmans, Martin Van Hecke, M. L. Manning, “Two classes of events in sheared particulate matter,”  Physical Review Research 2 023179, https://link.aps.org/doi/10.1103/PhysRevResearch.2.023179 arXiv:1907.10198 (2020).
    M.L.M., S.W., and P.M. acknowledge funding from NSF-DMR-1352184, and M.L.M and P.M. from Simons Foundation Grant No. 45494, and research computing support from NSF CC-NIE 1541396.
  30. Xun Wang*, Matthias Merkel*, Leo B. Sutter*, Gonca Erdemci-Tandogan, M. Lisa Manning, Karen E. Kasza. “A solid-to-fluid transition is predicted by cell shape and alignment in an anisotropic tissue of the developing fly embryo,” Proceedings of the National Academy of Sciences May 2020, 201916418 , https://doi.org/10.1073/pnas.1916418117 , arXiv: https://arxiv.org/abs/2005.07283 (2020).
    DMR-1352184 and POLS-1607416 to M.L.M, and DMR-1460784 (REU) to L.B.S. M.L.M., M.M., and G.E.T. acknowledge support from Simons Grant No. 446222 and 454947, and NIH R01GM117598
  31. Preeti Sahu, Daniel M. Sussman, Matthias Rübsam, Aaron F. Mertz, Valerie Horsley, Eric R. Dufresne, Carien M. Niessen, M. Cristina Marchetti, M. Lisa Manning, J. M. Schwarz. Small-scale demixing in confluent biological tissues.  Soft Matter 16, 3325-3337. https://doi.org/10.1039/C9SM01084J arXiv:1905.00657 (2020).
    This work was supported by NSF-POLS-1607416 (MCM, MLM, JMS) NSF-DMR-1352184 (MLM), Simons Foundation-454947 (MLM).
  32. Rathbun L, Colicino E, Coyne S, Reilly N, Erdemci-Tandogan G, Garrastegui A, Freshour J, Santra P, Manning ML, Amack J, Hehnly H. “Cytokinetic bridge triggers de novo lumen formation in vivo,” Nature Communications 11 1269 https://www.nature.com/articles/s41467-020-15002-8 (2020).
  33. Preeti Sahu*, Janice Kang*, Gonca Erdemci-Tandogan, M. Lisa Manning. Linear and nonlinear mechanical responses can be quite different in models for biological tissues. Soft Matter 16, 1850-1856 , DOI: 10.1039/C9SM01068H. arXiv:1905.12714 (2020).
    This work was primarily supported by NSF-POLS-1607416 and NSF DMR-1460784 (REU). MLM and PS acknowledge additional support from Simons Grant No.454947 and NSF-DMR -1352184, and MLM and GET ac-knowledge support from Simons Grant No. 446222 and NIH R01GM117598
  34. Michael Czajkowski, Daniel M. Sussman, M. Cristina Marchetti, M. Lisa Manning. Glassy Dynamics in Models of Confluent Tissue with Mitosis and Apoptosis.  Soft Matter, arXiv:1905.01603, DOI: 10.1039/C9SM00916G (2019).
    NSF-DMR-1352184 (MC and MLM), NSF-PHY-1607416 (MLM and DMS) as well as Simons Foundation Grant Number 454947 (MLM and DMS).
  35. Matthias Merkel, Karsten Baumgarten, Brian P. Tighe, M. Lisa Manning. A minimal-length approach unifies rigidity in underconstrained materials. arXiv:1809.01586,  PNAS 116 (14) 6560-6568 (2019).  https://doi.org/10.1073/pnas.1815436116
    Funding: Simons Foundation #446222, the Alfred P. Sloan Foundation, the Gordon and Betty Moore Foundation, the Research Corporation for Scientific Advancement though the Cottrell Scholars program, and computational support through NSF ACI-1541396. MLM also acknowledges support from the Simons Foundation under grant number 454947, and NSF-DMR-1352184 and NSF-PHY-1607416
  36. M.E. Brasch*, G. Passucci*, A. Gulvady, C. E. Turner, M. L. Manning, J. H. Henderson, “Nuclear position relative to the Golgi body and nuclear orientation are differentially responsive indicators of cell polarized motility,”  PLOS ONE, https://doi.org/10.1371/journal.pone.0211408, (2019). *authors contributed equally
    Funding: NSF-CMMI-1334611, NSF-DMR-1352184, Simons MMLS (Award #446222).
  37. G. Passucci, M.E. Brasch, J. H. Henderson, M. L. Manning, “Identifying the mechanisms that generate super-diffusivity in mouse fibroblast trajectories on 2D substrates”, PLOS Comp Bio https://doi.org/10.1371/journal.pcbi.1006732, arxiv:1712.05049 (2019).
    Associated software download: https://github.com/Manning-Research-Group/superdiffusive_spp_modeling 
    Funding: NSF-BMMB-1334493, NSF-DMR-1352184, RSCA, Sloan.
  38. Tristan Sharp, Matthias Merkel, M. Lisa Manning, Andrea J. Liu, “Statistical properties of 3D cell geometry from 2D slices”,   arXiv:1802.09131 PLOS ONE, https://doi.org/10.1371/journal.pone.0209892 (2019).
    Funding: Sloan, Gordon and Betty Moore, RSCA, NSF DMR-1352184, NSF-PHY-1607416, Simons MMLS (Award #446222). Computational support provided through NSF ACI-1541396.
  39. Gonca Erdemci-Tandogan, Madeline Clark, Jeff Amack, M. L. Manning. “Tissue flow induces shape change during morphogenesis”, arxiv:1804.02252, Biophysical Journal https://doi.org/10.1016/j.bpj.2018.10.028  (2018).
    Funding: NIH R01GM117598, Simons MMLS (Award #446222). Computing infrastructure support provided through NSF ACI-1541396.
  40. E.M. Stanifer, P K Morse, A.A. Middleton, M.L. Manning. “Simple random matrix model for the vibrational spectrum of jammed packings.” arXiv:1804.04074, Phys Rev E 98, 042908 DOI: 10.1103/PhysRevE.98.042908 (2018).
    Funding: Simons Glass (Award #454947), NSF DMR-1352184. Computational resources provided by Syracuse University and NSF ACI-1541396.
  41. M. Czajkowski, Dapeng Bi, M. L. Manning, M. C. Marchetti, “Hydrodynamics of shape-driven rigidity transitions in motile tissues”, Soft Matter 27, arxiv.org/abs/1710.09405  DOI: 10.1039/C8SM00446C (2018).
    Funding: Simons MMLS (Award #446222), Simons Glass (Award #454947), the Syracuse Soft & Living Matter Program, NSF DMR-1352184, NIH R01GM117598-02.
  42. Fabio Giavazzi, Matteo Paoluzzi, Marta Macchi, Dapeng Bi, Giorgio Scita, M. Lisa Manning, Roberto Cerbino, M. Cristina Marchetti. “Flocking Transition in Confluent Tissues” Soft Matter 18, arXiv:1706.01113 doi:10.1039/C8SM00126J (2018) .
    Funding: Syracuse Soft Matter Program, Simons Glass (Award #454947), Simons MMLS (Award #446222), NSF DMR-1352184, NIH R01GM117598-02. Computing support from NSF ACI-1541396.
  43. Daniel M. Sussman, M. Paoluzzi, M. Cristina Marchetti, M. Lisa Manning, “Anomalous glassy dynamics in simple models of dense biological tissue”  Euro. Phys. Lett. 121  36001, arxiv:1712.05758  doi: 10.1209/0295-5075/121/36001 (2018).
    Funding: NSF POLS-1607416, Simons MMLS (Award #446222), NSF DMR-1352184, Cottrell. Computing support through NSF ACI-1541396.
  44. Agnik Dasgupta, Matthias Merkel, Andrew E. Jacob, Jonathan Dawson, M. Lisa Manning and Jeffrey D. Amack, “Asymmetric cell volume changes regulate epithelial remodeling of the left-right organizer”,  eLife 7 e30963  DOI: 10.7554/eLife.30963 (2018).
    Funding: NIH R01GM117598, Simons MMLS (#446222), Cottrell, Gordon and Betty Moore Foundation. Computing infrastructure support through NSF ACI-1541396.
  45. Daniel Sussman, Jennifer Schwarz, M. Cristina Marchetti, M. Lisa Manning. “Soft yet sharp interfaces in vertex-based models for confluent tissues”. Physical Review Letters 120, 058001, arXiv:1710.00708 DOI: 10.1103/PhysRevLett.120.058001 (2018)
    Funding: NSF-POLS1607416, Simons MMSL (#446222), NSF DMR-1352184, Cottrell, Syracuse University Soft Matter Program. Computing support through NSF ACI-1541396.
  46. Matthias Merkel and Lisa Manning. “A geometrically controlled rigidity transition in a model for confluent 3D tissues”, FastTrack communication, New Journal of Physics 20 022002, arXiv:1706.02656  DOI:10.1088/1367-2630/aaaa13 (2018).
    Funding: Sloan, Gordon and Betty Moore, Cottrell, Simons MMLS (446222) and Glass (454947), NSF-DMR-1352184, and NSF-PHY-1607416. Computational support through NSF ACI-1541396.
  47. X. Yang, Dapeng Bi, M. Czajkowski, M. Merkel, M. L. Manning, M. C. Marchetti, “Correlating Cell Shape and Cellular Stress in Motile Confluent Tissues”, PNAS 114 (48) 12663-12668, arXiv:1704.05951 DOI: 10.1073/pnas.1705921114 (2017) .
    Funding: Syracuse University Soft Matter Program, Simons MMLS (#446222), NSF DMR-1352184, NIH R01GM117598-02. Computational resources provided by Syracuse University and through NSF Grant ACI-1541396.
  48. Sven Wijtmans, M. L. Manning, “Disentangling sound modes and defects in disordered solids,” Cover article in Soft Matter 13 5649-5655, arXiv:1502.00685 DOI: 10.1039/C7SM00792B (2017).
    NSF-DMR-1352184, Sloan, Simons Glass (#45494). Computing resources provided by Syracuse University and NSF-ACI-1541396.
  49. M. Merkel and M. L. Manning. “Using cell deformation and motion to predict forces and collective behavior in morphogenesis.” Invited review, Seminars in Cell and Developmental Biology  67, 161-169, DOI: 10.1016/j.semcdb.2016.07.029 (2017).
    Funding: Sloan, NSF-BMMB-1334611, NSF-DMR-1352184, NIH-1R01GM117598-01, Gordon and Betty Moore Foundation, Cottrell, the Syracuse University HTC Campus Grid, NSF award ACI-1541396 and the Soft Matter Program at Syracuse University.
  50. Dapeng Bi, X. Yang, M. C. Marchetti, M. L. Manning, “Motility-driven glass transitions in biological tissues,” Phys. Rev X 6 021011, arXiv:1509.06578 DOI: 10.1103/PhysRevX.6.021011 (2016). 
    Funding: Sloan, NSF-BMMB-1334611, NSF-DMR-1352184, NIH R01GM117598-02, Gordon and Betty Moore Foundation, Cottrell, Syracuse University HTC Campus Grid, and the Soft Matter Program at Syracuse University.
  51. Dapeng Bi, J. Lopez, J. Schwarz, M. L. Manning, “A density-independent rigidity transition in biological tissues,” Nature Physics 11 1074-1079, arXiv:1409.0593 DOI: 10.1038/nphys3471 (2015). 
    Funding:Sloan, NSF CMMI-1334611, NSF DMR-1352184.
    recommended in F1000Prime as being of special significance in its field by F1000 Faculty Member Xavier Trepat. http://f1000.com/prime/726043939?subscriptioncode=b0d58b25-d44e-4cfb-915c-7bfb1c97695f
  52. Steve Pawlizak, Anatol Fritsch, Steffen Grosser, Dave Ahrens, Tobias Thalheim, Stefanie Riedel, Tobias Kießling,  Mareike Zink, M. Lisa Manning, and Josef A. Käs, “Testing the differential adhesion hypothesis across the epithelial−mesenchymal transition”, New Journal of Physics 17, 24 August, DOI: 10.1088/1367-2630/17/8/083049 (2015).
    highlighted in a “Perspective” article in the new journal of physics by Dr. Fredberg and Tambe: http://iopscience.iop.org/article/10.1088/1367-2630/17/9/091001 
    Funding: NSF BMMB-1334611, NSF DMR-1352184,
    Sloan
  53. Jin-Ah Park, Jae Hun Kim, Dapeng Bi, Jennifer A. Mitchel, Nader Taheri Qazvini, Kelan Tantisira, ChanYoung Park, Maureen McGill, Sae-Hoon Kim, Robert Steward, Jr., Stephanie Burger, Weiliang Qiu, Scott H. Randell, Alvin Kho, Dhananjay Tambe, Corey Hardin, Stephanie A. Shore, Elliot Israel, David A. Weitz, Daniel J. Tschumperlin, Scott T. Weiss, Elizabeth P. Henske, M. Lisa Manning, James P. Butler, Jeffrey M. Drazen, Jeffrey J. Fredberg, “Unjamming and cell shape in the asthmatic airway epithelium,”  Nature Materials 14 1040–1048, DOI:10.1038/nmat4357 (2015). 
    Funding: Sloan, NSF BMMB-1334611, NSF DMR-1352184.
    highlighted in a news and views article in Nature Materials by Dr. Swartz: http://www.nature.com/nmat/journal/v14/n10/full/nmat4434.html
  54. Danielle S. Bassett, Eli T. Owens, Mason A. Porter, M. Lisa Manning, Karen E. Daniels. “Practical Methods for the Examination of Force Chain Network Architecture in Granular Materials” Soft Matter, arXiv:1408.3841 DOI: 10.1039/C4SM01821D (2015). (Cover article) 
    Funding:Sloan Foundation, NSF BMMB-1334611, NSF DMR-1352184
  55. M. L. Manning and A. J. Liu, “A random matrix definition of the boson peak,”  Europhysics Letters, 109 36002 arXiv:1307.5904 DOI: 10.1209/0295-5075/109/36002 (2015). 
    Funding: NSF DMR-1352184
  56. Craig Fox, M. L. Manning and J. D. Amack. Quantitative description of fluid flows produced by left–right cilia in zebrafish. Methods in Cell Biology. 127, 175-187 https://doi.org/10.1016/bs.mcb.2014.12.010 (2015) (Cover image).
    Funding: NSF-BMMB-1334611 and NSF-DMR-1352184.
  57. Xingbo Yang, M. Lisa Manning and M. Cristina Marchetti, “Aggregation and Segre- gation of confined active particles,” Soft Matter 10 (34), 6477 – 6484 DOI:10.1039/C4SM00927D (2014). Recommended with a commentary in the Journal Club for Condensed Matter. 
    Funding: NSF BMMB-1334611, NSF DMR-1352184
  58. R. M. Baker, M. E. Brasch, M. L. Manning, J. H. Henderson, “Automated, contour- based tracking and analysis of cell behavior over long timescales in environments of varying complexity and cell density,”  J. Roy. Soc. Interface 11(97), 20140386, DOI: 10.1098/rsif.2014.0386 (2014). 
    Funding: NSF BMMB-1334611
  59. Dapeng Bi, J. Lopez, J. Schwarz, M. L. Manning, “Energy barriers and cell migration in densely packed tissues,” Soft Matter 10 1885-1890, arXiv:1308.3891 DOI:10.1039/C3SM52893F (2014). Recommended with a commentary in the Journal Club for Condensed Matter.
    Funding: NSF BMMB-1334611, Syracuse University Chancellor’s Fund, Dean of the College of Arts & Sciences.
  60. T. Idema, J. O. Dubuis, L. Kang, M. L. Manning, P. C. Nelson, T. C. Lubensky, and A. J. Liu, “The syncytial Drosophila embryo as a mechanically excitable medium,” PLOS ONE  8(10): e77216. arXiv:1304.4025 DOI: 10.1371/journal.pone.0077216 (2013). 
    No MLM funding
  61. E-.M. Schoetz, M. Lanio, J. Talbot, and M. L. Manning, “Glassy dynamics in three dimensional embryonic tissues,” J. R. Soc. Interface 10(89): 20130726 arXiv:1307.4454 DOI: 10.1098/rsif.2013.0726 (2013). 
    Funding: Syracuse University College of Arts and Sciences. Computational support from the Princeton Center for Theoretical Science.
  62.  J.D. Amack, ML Manning. Knowing the Boundaries: Extending the Differential Adhesion Hypothesis in Embryonic Cell Sorting. Science 338 (6104), 212-215 DOI: 10.1126/science.1223953 (2012). 
    Funding: Syracuse University College of Arts & Sciences
  63. Guangliang Wang, M. Lisa Manning, Jeffrey D Amack. Regional Cell Shape Changes Control Form and Function of Kupffer’s Vesicle in the Zebrafish Embryo. Developmental Biology. Volume 370, Issue 1, 1 October 2012, Pages 52–62.  DOI: 10.1016/j.ydbio.2012.07.019 (2012). 
    Funding: No MLM funding.
  64. M. L. Manning and A.J. Liu. Vibrational modes identify soft spots in a sheared disordered packing. Phys. Rev. Lett. 107 108302 arXiv:1012.4822 DOI: 10.1103/PhysRevLett.107.108302 (2011). 
    No MLM funding
  65. K. Chen, M. L. Manning, P. J. Yunker, W. G. Ellenbroek, Z. Zhang, A. J. Liu, and A. G. Yodh. Measurement of Correlations between Low-Frequency Vibrational Modes and Particle Rearrangements in Quasi-Two-Dimensional Colloidal Glasses. Phys. Rev. Lett.107 108301 arXiv:1103.2352 DOI: 10.1103/PhysRevLett.107.108301 (2011). 
    No MLM funding
  66. (Supp. Info)  M. L. Manning, R. A. Foty, M. S. Steinberg, and E.-M. Schoetz, “Coaction of intercellular adhesion and cortical tension specifies tissue surface tension,” Proc. Nat. Acad. Sci. 107, 28 12517-12522, DOI: 10.1073/pnas.1003743107 (2010). 
    Funding: No MLM funding.
  67. “Pulse-like, crack-like and supershear earthquake ruptures with shear strain localization,” E. G. Daub, M. L. Manning and J. M. Carlson, J. Geophys. Res. 115, B05311 DOI: 10.1029/2009JB006388 (2010) 
    NSF DMR‐0606092, NSF/USGS Southern California Earthquake Center
  68. M. L. Manning, E. G. Daub, J. S. Langer and J. M. Carlson. Rate dependent shear bands in a shear transformation zone model of amorphous solids. Phys. Rev. E 79, 016110, DOI: 10.1103/PhysRevE.79.016110 (2009) 
    Funding: NSF Graduate research fellowship
  69. E. G. Daub, M. L. Manning and J. M. Carlson. Dynamic weakening due to strain localization in a constitutive model for fault gouge. Geophys. Res. Lett. 35, L12310, DOI: 10.1029/2008GL033835 (2008). 
    Funding: McDonnell, Packard Foundation, NSF DMR-0606092, NSF/USGS Southern California Earthquake Center
  70. J. S. Langer and M. L. Manning. Steady-state, effective-temperature dynamics in a glassy material.Phys. Rev. E 76 056107, arXiv:0709.3329 DOI: 10.1103/PhysRevE.76.056107 (2007). 
    Funding: NSF, McDonnell, Packard Foundation, NSF DMR-0606092
  71. M. L. Manning, J. S. Langer, and J. M. Carlson. Strain localization in a shear transformation zone model for amorphous solids. Phys. Rev. E 76 056106, arXiv:0706.1078  DOI: 10.1103/PhysRevE.76.056106 (2007). 
    Funding: McDonnell, Packard, NSF DMR-0606092,
    NSF
  72. [M. Manning, J. M. Carlson, and J. Doyle. Highly Optimized Tolerance in dense and sparse resource regimes. Phys. Rev. E 72 056106, DOI: 10.1103/PhysRevE.72.016108 (2005).
    Funding:NSF, Packard, NSF DMR-9813752, McDonnell, Institute for Collaborative Biotechnologies through ARO DAAD19-03-D-0004.

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