Results 31 to 40 of about 1,446,606 (252)

Transition from stochastic to deterministic behavior in calcium oscillations [PDF]

, 2005
Simulation and modeling is becoming more and more important when studying complex biochemical systems. Most often, ordinary differential equations are employed for this purpose.
Green, Anne K., Kummer, U., Ursula Kummer, C. Jane Dixon, Marhl, Marko, Pahle, J., Krajnc, Borut, Pahle, Jürgen, Dixon, C. Jane, Kummer, Ursula, Marko Marhl, Jürgen Pahle, Kummer, U. (Ursula), Borut Krajnc, Green, A. K., Anne K. Green, Dixon, C. J., Marhl, M., Krainc, B.   +18 more
core   +1 more source

Universally valid reduction of multiscale stochastic biochemical systems using simple non-elementary propensities.

PLoS Computational Biology, 2021
Biochemical systems consist of numerous elementary reactions governed by the law of mass action. However, experimentally characterizing all the elementary reactions is nearly impossible.
Yun Min Song, Hyukpyo Hong, Jae Kyoung Kim   +2 more
doaj   +1 more source

Organizing the interface—Plasma membrane architecture and receptor dynamics in virus‐cell interactions

FEBS Letters, EarlyView.
Plasma membranes contain dynamic nanoscale domains that organize lipids and receptors. Because viruses operate at similar scales, this architecture shapes early infection steps, including attachment, receptor engagement, and entry. Using influenza A virus and HIV‐1 as examples, we highlight how receptor nanoclusters, multivalent glycan interactions ...
Jan Schlegel, Christian Sieben
wiley   +1 more source

Experimental Design for Stochastic Models of Nonlinear Signaling Pathways Using an Interval-Wise Linear Noise Approximation and State Estimation. [PDF]

PLoS ONE, 2016
BACKGROUND:Computational modeling is a key technique for analyzing models in systems biology. There are well established methods for the estimation of the kinetic parameters in models of ordinary differential equations (ODE).
Christoph Zimmer
doaj   +1 more source

Salmonella lipopolysaccharide‐containing supported lipid bilayers as platforms to study bacteriophage interactions

FEBS Letters, EarlyView.
We present robust protocols for the preparation of supported lipid bilayers (SLBs) incorporating either Salmonella smooth LPS or outer membrane vesicles (OMVs). We use a combination of quartz crystal microbalance with dissipation (QCM‐D) and fluorescence microscopy to both characterize the SLBs of various compositions and to probe their interactions ...
Hudson P. Pace, Alyssa Borges, Charles Arnaud, Tove Karlsson, Nina K. Bröker, Stefanie Barbirz, Marta Bally   +6 more
wiley   +1 more source

Emergence of noise-induced oscillations in the central circadian pacemaker.

PLoS Biology, 2010
Bmal1 is an essential transcriptional activator within the mammalian circadian clock. We report here that the suprachiasmatic nucleus (SCN) of Bmal1-null mutant mice, unexpectedly, generates stochastic oscillations with periods that overlap the circadian
Caroline H Ko, Yujiro R Yamada, David K Welsh, Ethan D Buhr, Andrew C Liu, Eric E Zhang, Martin R Ralph, Steve A Kay, Daniel B Forger, Joseph S Takahashi   +9 more
doaj   +1 more source

Investigating the relation between Stochastic Differentiation, Homeostasis and Clonal Expansion in Intestinal Crypts via Multiscale Modeling [PDF]

, 2014
Colorectal tumors originate and develop within intestinal crypts. Even though some of the essential phenomena that characterize crypt structure and dynamics have been effectively described in the past, the relation between the differentiation process and
De Matteis Giovanni, De Matteis G, Graudenzi Alex, Caravagna Giulio, De Matteis, Giovanni, Antoniotti, Marco, Giulio Caravagna (380492), Graudenzi, Alex, Antoniotti M, Alex Graudenzi (569252), Graudenzi A, Caravagna G, Caravagna, Giulio, Marco Antoniotti, Giovanni De Matteis, Giovanni De Matteis (5659246), Giulio Caravagna, Antoniotti Marco, Alex Graudenzi, Marco Antoniotti (66901)   +19 more
core   +1 more source

Hedgehog Signaling in Cortical Development [PDF]

, 2023
The Hedgehog (Hh) pathway plays a crucial role in embryonic development, acting both as a morphogenic signal that organizes tissue formation and a potent mitogenic signal driving cell proliferation.
Xuecai Ge, Cai, Eva, Ge, Xuecai, Maximiliano Gonzalez Barba, Barba, Maximiliano Gonzalez, Eva Cai   +5 more
core   +1 more source

From mice to humans—divergent strategies for intestinal homeostasis and regeneration

FEBS Letters, EarlyView.
Recent advances such as organoid genome editing, xenotransplantation, imaging, and whole‐genome sequencing have enabled direct studies of human intestinal stem cells (ISCs). These studies reveal species‐specific features, including slower ISC proliferation, distinct injury responses, slower somatic mutation accumulation in humans, and an inverse ...
Keiko Ishikawa, Shinya Sugimoto, Toshiro Sato   +2 more
wiley   +1 more source

Unraveling the design principle for motif organization in signaling networks. [PDF]

PLoS ONE, 2011
Cellular signaling networks display complex architecture. Defining the design principle of this architecture is crucial for our understanding of various biological processes.
Samrat Chatterjee, Dhiraj Kumar
doaj   +1 more source