192 citations · 554 across the 19 of their papers we have counts for
18 papers
RNA-like Polyelectrolyte in a Viral Capsid: Molecular Dynamics with Explicit Electrostatic Interactions
Xintong Jiang, Colin Denniston, Gonca Erdemci-Tandogan
The organization of RNA genomes within viral capsids is primarily controlled by electrostatic interactions between the negatively charged genome and positively charged N-terminal d…
Cell intrinsic dynamics guide neuroblast ingression independent of tissue fluidity
David Green, Ermia Etemadi, Lauren Enright +3
Morphogenesis involves the coordination of multiple cellular processes that occur simultaneously within developing tissues. During early Drosophila embryogenesis, neuroblast (NB) i…
Living Capillary Bridges
Tytti Kärki, Senna Luntama, Yasamin Modabber +5
Biological tissues exhibit complex behaviors with their dynamics often resembling inert soft matter such as liquids, polymers, colloids, and liquid crystals. These analogies enable…
Cell divisions both challenge and refine tissue boundaries in the Drosophila embryo
Veronica Castle, Merdeka Miles, Rafael Perez-Vicente +2
Tissue boundaries pattern embryos, suppress tumours, and provide directional cues. Tissue boundaries are associated with supracellular cables formed by actin and the molecular moto…
Effect of cellular rearrangement time delays on the rheology of vertex models for confluent tissues
Gonca Erdemci-Tandogan, M. Lisa Manning
Large-scale tissue deformation during biological processes such as morphogenesis requires cellular rearrangements. The simplest rearrangement in confluent cellular monolayers invol…
Anisotropy links cell shapes to tissue flow during convergent extension
Xun Wang, Matthias Merkel, Leo B. Sutter +3
Within developing embryos, tissues flow and reorganize dramatically on timescales as short as minutes. This includes epithelial tissues, which often narrow and elongate in converge…
The cell adaptation time sets a minimum length scale for patterned substrates
Diogo E. P. Pinto, Gonca Erdemci-Tandogan, M. Lisa Manning +1
The structure and dynamics of tissue cultures depend strongly on the physical and chemical properties of the underlying substrate. Inspired by previous advances in the context of i…
Nonlinear analysis of the fluid-solid transition in a model for ordered biological tissues
Preeti Sahu, Janice Kang, Gonca Erdemci-Tandogan +1
The rheology of biological tissues is important for their function, and we would like to better understand how single cells control global tissue properties such as tissue fluidity…
Tissue flow induces cell shape changes during organogenesis
Gonca Erdemci-Tandogan, Madeline J. Clark, Jeffrey D. Amack +1
In embryonic development, programmed cell shape changes are essential for building functional organs, but in many cases the mechanisms that precisely regulate these changes remain…
The effect of RNA stiffness on the self-assembly of virus particles
Siyu Li, Gonca Erdemci-Tandogan, Paul van der Schoot +1
Under many in vitro conditions, some small viruses spontaneously encapsidate a single stranded (ss) RNA into a protein shell called the capsid. While viral RNAs are found to be com…
RNA Base Pairing Determines the Conformations of RNA Inside Spherical Viruses
Gonca Erdemci-Tandogan, Henri Orland, Roya Zandi
Many simple RNA viruses enclose their genetic material by a protein shell called the capsid. While the capsid structures are well characterized for most viruses, the structure of R…
Impact of a non-uniform charge distribution on virus assembly
Siyu Li, Gonca Erdemci-Tandogan, Jef Wagner +2
Many spherical viruses encapsulate their genome in protein shells with icosahedral symmetry. This process is spontaneous and driven by electrostatic interactions between positive d…
Functional analysis of the N-terminal basic motif of a eukaryotic satellite RNA virus capsid protein in replication and packaging
Venkatesh Sivanandam, Deborah Mathews, Rees Garmann +3
Efficient replication and assembly of virus particles are integral to the establishment of infection. In addition to the primary role of the capsid protein (CP) in encapsidating th…
In vitro protease cleavage and computer simulations reveal the HIV-1 capsid maturation pathway
Jiying Ning, Gonca Erdemci-Tandogan, Ernest L Yufenyuy +6
HIV-1 virions assemble as immature particles containing Gag polyproteins that are processed by the viral protease into individual components, resulting in the formation of mature i…
Role of Genome in the Formation of Conical Retroviral Shells
Gonca Erdemci-Tandogan, Jef Wagner, Paul van der Schoot +1
Human immunodeficiency virus (HIV) capsid proteins spontaneously assemble around the genome into a protective protein shell called the capsid, which can take on a variety of shapes…
Effects of RNA branching on the electrostatic stabilization of viruses
Gonca Erdemci-Tandogan, Jef Wagner, Paul van der Schoot +2
Many single-stranded (ss) RNA viruses self assemble from capsid protein subunits and the nucleic acid to form an infectious virion. It is believed that the electrostatic interactio…
Adsorption of annealed branched polymers on curved surfaces
Jef Wagner, Gonca Erdemci-Tandogan, Roya Zandi
The behavior of annealed branched polymers near adsorbing surfaces plays a fundamental role in many biological and industrial processes. Most importantly single stranded RNA in sol…
RNA topology remolds electrostatic stabilization of viruses
Gonca Erdemci-Tandogan, Jef Wagner, Paul van der Schoot +2
Simple RNA viruses efficiently encapsulate their genome into a nano-sized protein shell: the capsid. Spontaneous co-assembly of the genome and the capsid proteins is driven predomi…