[HTML][HTML] Simulating realistic membrane shapes
W Pezeshkian, SJ Marrink - Current opinion in cell biology, 2021 - Elsevier
Biological membranes exhibit diversity in their shapes and complexity in chemical
compositions that are linked to many cellular functions. These two central features of …
compositions that are linked to many cellular functions. These two central features of …
Mitochondrial DNA replication stress triggers a pro-inflammatory endosomal pathway of nucleoid disposal
LE Newman, S Weiser Novak, GR Rojas… - Nature Cell …, 2024 - nature.com
Mitochondrial DNA (mtDNA) encodes essential subunits of the oxidative phosphorylation
system, but is also a major damage-associated molecular pattern (DAMP) that engages …
system, but is also a major damage-associated molecular pattern (DAMP) that engages …
The many faces of membrane tension: Challenges across systems and scales
P Rangamani - Biochimica et Biophysica Acta (BBA)-Biomembranes, 2022 - Elsevier
Our understanding of the role of membrane tension in the field of membrane biophysics is
rapidly evolving from a passive construct to an active player in a variety of cellular …
rapidly evolving from a passive construct to an active player in a variety of cellular …
Backmapping triangulated surfaces to coarse-grained membrane models
Many biological processes involve large-scale changes in membrane shape. Computer
simulations of these processes are challenging since they occur across a wide range of …
simulations of these processes are challenging since they occur across a wide range of …
Generative multiscale analysis of de novo proteome-inspired molecular structures and nanomechanical optimization using a VoxelPerceiver transformer model
We report a method to generate de novo protein designs through a generative adversarial
neural network, MolShapeGAN, that can rapidly produce a large variety of nanoarchitected …
neural network, MolShapeGAN, that can rapidly produce a large variety of nanoarchitected …
Systems modeling predicts that mitochondria ER contact sites regulate the postsynaptic energy landscape
A Leung, D Ohadi, G Pekkurnaz… - NPJ systems biology and …, 2021 - nature.com
Spatiotemporal compartmentation of calcium dynamics is critical for neuronal function,
particularly in postsynaptic spines. This exquisite level of Ca2+ compartmentalization is …
particularly in postsynaptic spines. This exquisite level of Ca2+ compartmentalization is …
Multiscale simulation approaches to modeling drug–protein binding
Highlights•Drug binding is inherently multiscale as it occurs over a broad range of length
and time scales.•Multiscale simulation methods combine molecular descriptions to access …
and time scales.•Multiscale simulation methods combine molecular descriptions to access …
Biophysical Modeling of Synaptic Plasticity
CT Lee, M Bell, M Bonilla-Quintana… - Annual Review of …, 2024 - annualreviews.org
Dendritic spines are small, bulbous compartments that function as postsynaptic sites and
undergo intense biochemical and biophysical activity. The role of the myriad signaling …
undergo intense biochemical and biophysical activity. The role of the myriad signaling …
Violation of the ultrastructural size principle in the dorsolateral prefrontal cortex underlies working memory impairment in the aged common marmoset (Callithrix …
C Glavis-Bloom, CR Vanderlip… - Frontiers in Aging …, 2023 - frontiersin.org
Morphology and function of the dorsolateral prefrontal cortex (dlPFC), and corresponding
working memory performance, are affected early in the aging process, but nearly half of …
working memory performance, are affected early in the aging process, but nearly half of …
Dendritic spine morphology regulates calcium-dependent synaptic weight change
MK Bell, MV Holst, CT Lee, P Rangamani - Journal of General …, 2022 - rupress.org
Dendritic spines act as biochemical computational units and must adapt their responses
according to their activation history. Calcium influx acts as the first signaling step during …
according to their activation history. Calcium influx acts as the first signaling step during …