Abstract:
:Electrostatic interaction is the driving force for the encapsulation by virus coat proteins of nanoparticles such as quantum dots, gold particles and magnetic beads for, e.g., imaging and therapeutic purposes. In recent experimental work, Daniel et al (2010 ACS Nano 4 3853-60) found the encapsulation efficiency to sensitively depend on the interplay between the surface charge density of negatively charged gold nanoparticles and the number of positive charges on the RNA binding domains of the proteins. Surprisingly, these experiments reveal that despite the highly cooperative nature of the co-assembly at low pH, the efficiency of encapsulation is a gradual function of their surface charge density. We present a simple all-or-nothing mass action law combined with an electrostatic interaction model to explain the experiments. We find quantitative agreement with experimental observations, supporting the existence of a natural statistical charge distribution between nanoparticles.
journal_name
Phys Bioljournal_title
Physical biologyauthors
Lin HK,van der Schoot P,Zandi Rdoi
10.1088/1478-3975/9/6/066004subject
Has Abstractpub_date
2012-12-01 00:00:00pages
066004issue
6eissn
1478-3967issn
1478-3975journal_volume
9pub_type
杂志文章相关文献
PHYSICAL BIOLOGY文献大全abstract::This paper explores the potential for simplicity to reveal new biological understanding. Borrowing selectively from physics thinking, and contrasting with Crick's reductionist philosophy, the author argues that greater emphasis on simplicity is necessary to advance biology and its applications. ...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/12/6/063002
更新日期:2015-12-30 00:00:00
abstract::The proper functioning of multicellular organisms requires the robust establishment of precise proportions between distinct cell types. This developmental differentiation process typically involves intracellular regulatory and stochastic mechanisms to generate cell-fate diversity as well as intercellular signaling mec...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/13/2/026007
更新日期:2016-05-11 00:00:00
abstract::Cellular networks have been the focus of studies in modern systems biology. They are crucial in understanding cell functions and related diseases. We review some past progress in both the theory and experiments, and we also provide several future perspectives for the field. ...
journal_title:Physical biology
pub_type: 杂志文章,评审
doi:10.1088/1478-3975/aa5b6a
更新日期:2017-02-16 00:00:00
abstract::Neurofilaments are transported along axons stochastically in a stop-and-go manner, cycling between brief bouts of rapid movement and pauses that can vary from seconds to hours in length. Presently the only way to analyze neurofilament pausing experimentally on both long and short time scales is the pulse-escape method...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/11/2/026001
更新日期:2014-04-01 00:00:00
abstract::The glycolytic enzyme pyruvate kinase M2 (PKM2) exists in both catalytically inactive dimeric and active tetrameric forms. In cancer cells, PKM2 dimer predominance contributes to tumor growth by triggering glycolytic reprogramming. However, the mechanism that promotes PKM2 dimer predominance over tetramer in cancer ce...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/ab3f5a
更新日期:2019-09-18 00:00:00
abstract::Oscillations play an important physiological role in a variety of biological systems. For example, respiration and carbohydrate synthesis are coupled to the circadian clock in cyanobacteria (Ishiura et al 1998 Science 281 1519) and ultradian oscillations with time periods of a few hours have been observed in immune re...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/6/3/036009
更新日期:2009-05-21 00:00:00
abstract::Traditionally animal groups have been characterized by the macroscopic patterns that they form. It is now recognised that such patterns convey limited information about the nature of the aggregation as a whole. Aggregate properties cannot be determined by passive observations alone; instead one must interact with them...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/ab12b9
更新日期:2019-04-23 00:00:00
abstract::We propose a reaction model for the palytoxin-sodium-potassium (PTX-Na(+)/K(+)) pump complex. The model, which is similar to the Albers-Post model for Na(+)/K(+)-ATPase, is used to elucidate the effect of PTX on Na(+)/K(+)-ATPase during the enzyme interactions with Na(+) and/or K(+) ions. Conformational substates and ...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/5/3/036005
更新日期:2008-07-29 00:00:00
abstract::Host-to-host variability with respect to interactions between microorganisms and multicellular hosts are commonly observed in infection and in homeostasis. However, the majority of mechanistic models used to analyze host-microorganism relationships, as well as most of the ecological theories proposed to explain coevol...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/12/1/016003
更新日期:2014-12-04 00:00:00
abstract::Tumor metastasis involves a progressive loss of tissue architecture and dissolution of structural boundaries between the epithelium and connective tissue. The basement membrane (BM), a specialized network of extracellular matrix proteins forms a barrier that physically restricts pre-invasive lesions such that they rem...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/9/6/065003
更新日期:2012-12-01 00:00:00
abstract::Branching morphogenesis is a widely spread phenomenon in nature. In organogenesis, it results from the inhomogeneous growth of the epithelial sheet, leading to its repeated branching into surrounding mesoderm. Lung morphogenesis is an emblematic example of tree-like organogenesis common to most mammals. The core signa...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/9/6/066006
更新日期:2012-12-01 00:00:00
abstract::Particle tracking offers significant insight into the molecular mechanics that govern the behavior of living cells. The analysis of molecular trajectories that transition between different motive states, such as diffusive, driven and tethered modes, is of considerable importance, with even single trajectories containi...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/aacd5a
更新日期:2018-07-06 00:00:00
abstract::Intermolecular interactions became an inherent part of the structure-function paradigm. Therefore, the generalized concept of protein stability and interactions should consider the balance of stabilizing forces working in different types of intermolecular interactions. We consider here two 'extremes' of protein intera...
journal_title:Physical biology
pub_type: 杂志文章,评审
doi:10.1088/1478-3975/8/3/035002
更新日期:2011-06-01 00:00:00
abstract::The Golgi apparatus has intrigued researchers since its discovery and despite the advances, there are still many open questions in regards to its shape and function. We propose a mechanical model of Golgi apparatus stack and explain its most elementary geometrical properties: the equilibrium number of cisternae, the s...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/ab3766
更新日期:2019-09-05 00:00:00
abstract::Neuronal cells change their growth properties in response to external physical stimuli such as variations in external temperature, stiffness of the growth substrate, or topographical guidance cues. Detailed knowledge of the mechanisms that control these biomechanical responses is necessary for understanding the basic ...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/10/5/056002
更新日期:2013-10-01 00:00:00
abstract::This paper gives an overview of the coarse-grained models of phospholipids recently developed by the authors in the frame of a hybrid particle-field molecular dynamics technique. This technique employs a special class of coarse-grained models that are gaining popularity because they allow simulations of large scale sy...
journal_title:Physical biology
pub_type: 杂志文章,评审
doi:10.1088/1478-3975/10/4/045007
更新日期:2013-08-01 00:00:00
abstract::Protein-protein interactions are central to biology and, in this 'post-genomic era', prediction of these interactions has become the goal of many computational efforts. Close inspection of even relatively simple biological regulatory circuitry reveals multiple levels of control of the contributing protein interactions...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/2/2/S07
更新日期:2005-06-01 00:00:00
abstract::Cancer cells are known to modify their micro-environment such that it can sustain a larger population, or, in ecological terms, they construct a niche which increases the carrying capacity of the population. It has however been argued that niche construction, which benefits all cells in the tumour, would be selected a...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/12/5/056001
更新日期:2015-08-12 00:00:00
abstract::Efficient nucleotide import is critical to fuel the reverse DNA synthesis that takes place within the HIV-1 capsid. However, the mechanism by which the HIV-1 capsid imports nucleotides is presently unclear. In this work, we carry out a series of Brownian diffusion simulations to elucidate the nucleotide import process...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/abbf32
更新日期:2020-10-07 00:00:00
abstract::Engineering artificial cells to mimic one or multiple fundamental cell biological functions is an emerging area of synthetic biology. Reconstituting functional modules from biological components in vitro is a challenging yet an important essence of bottom-up synthetic biology. Here we describe the concept of building ...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/aa9768
更新日期:2017-12-06 00:00:00
abstract::Bidirectional cargo transport by molecular motors in cells is a complex phenomenon in which the cargo (usually a vesicle) alternately moves in retrograde and anterograde directions. In this case, teams of oppositely pulling motors (e.g., kinesin and dynein) bind to the cargo, simultaneously, and 'coordinate' their act...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/9/4/046003
更新日期:2012-08-01 00:00:00
abstract::How do the cells in our body reconfigure their shape to achieve complex tasks like migration and mitosis, yet maintain their shape in response to forces exerted by, for instance, blood flow and muscle action? Cell shape control is defined by a delicate mechanical balance between active force generation and passive mat...
journal_title:Physical biology
pub_type: 杂志文章,评审
doi:10.1088/1478-3975/aab923
更新日期:2018-04-30 00:00:00
abstract::The tripartite synapse denotes the junction of a pre- and postsynaptic neuron modulated by a synaptic astrocyte. Enhanced transmission probability and frequency of the postsynaptic current-events are among the significant effects of the astrocyte on the synapse as experimentally characterized by several groups. In thi...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/4/1/001
更新日期:2007-01-09 00:00:00
abstract::Sequence-dependent DNA flexibility is an important structural property originating from the DNA 3D structure. In this paper, we investigate the DNA flexibility of the budding yeast (S. Cerevisiae) replication origins on a genome-wide scale using flexibility parameters from two different models, the trinucleotide and t...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/5/3/036012
更新日期:2008-09-29 00:00:00
abstract::How cell collectives move and deposit subunits within a developing embryo is a question of outstanding interest. In many cases, a chemotactic mechanism is employed, where cells move up or down a previously generated attractive or repulsive gradient of signalling molecules. Recent studies revealed the existence of syst...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/8/4/045004
更新日期:2011-08-01 00:00:00
abstract::Gene expression is an intrinsically noisy process, typically, producing mRNAs and proteins in bursts. An important description of such stochastic processes can be done in terms of the mean first passage time (MFPT), i.e., the time taken by mRNAs/proteins to reach a particular threshold. We study the role of burstiness...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/13/3/036004
更新日期:2016-05-20 00:00:00
abstract::A two-dimensional model is proposed for intercellular calcium (Ca(2 +)) waves with Ca(2 +)-induced IP(3) regeneration and the diffusion of IP(3) through gap junctions. Many experimental observations in glial cells, i.e. responding to local mechanical stimulation, glutamate application, mechanical stimulation followed ...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/8/2/026009
更新日期:2011-04-01 00:00:00
abstract::Oncolytic virotherapy-the use of viruses that specifically kill tumor cells-is an innovative and highly promising route for treating cancer. However, its therapeutic outcomes are mainly impaired by the host immune response to the viral infection. In this paper, we propose a multiscale mathematical model to study how t...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/10/2/025005
更新日期:2013-04-01 00:00:00
abstract::Recent advances in clinical medicine have elucidated two significantly different subtypes of glioblastoma which carry very different prognoses, both defined by mutations in isocitrate dehydrogenase-1 (IDH-1). The mechanistic consequences of this mutation have not yet been fully clarified, with conflicting opinions exi...
journal_title:Physical biology
pub_type: 杂志文章
doi:10.1088/1478-3975/8/1/015016
更新日期:2011-02-01 00:00:00
abstract::Recently, major progress has been made to develop computational models to predict and explain the mechanisms and behaviors of gene regulation. Here, we review progress on how these mechanisms and behaviors have been interpreted with analog models, where cell properties continuously modulate transcription, and digital ...
journal_title:Physical biology
pub_type: 杂志文章,评审
doi:10.1088/1478-3975/12/4/045004
更新日期:2015-06-18 00:00:00