Abstract：
:Cell biological processes are controlled by an interacting set of biochemical and electrophysiological events that are distributed within complex cellular structures. Computational models, comprising quantitative data on the interacting molecular participants in these events, provide a means for applying the scientific method to these complex systems. The Virtual Cell is a computational environment designed for cell biologists, to facilitate the construction of models and the generation of predictive simulations from them. This review summarizes how a Virtual Cell model is assembled and describes the physical principles underlying the calculations that are performed. Applications to problems in nucleocytoplasmic transport and intracellular calcium dynamics will illustrate the power of this paradigm for elucidating cell biology.
journal_name
Trends Cell Bioljournal_title
Trends in cell biologyauthors
Slepchenko BM,Schaff JC,Macara I,Loew LMdoi
10.1016/j.tcb.2003.09.002subject
Has Abstractpub_date
2003-11-01 00:00:00pages
570-6issue
11eissn
0962-8924issn
1879-3088pii
S0962892403002150journal_volume
13pub_type
杂志文章,评审abstract：:Diabetes is a metabolic disease affecting nearly 300 million individuals worldwide. Both types of diabetes (1 and 2) are characterized by loss of functional pancreatic β-cell mass causing different degrees of insulin deficiency. The Bcl-2 family has a double-edged effect in diabetes. These proteins are crucial control...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2011.03.001
更新日期：2011-07-01 00:00:00
abstract：:The number of invited women speakers at scientific meetings is much less than their proportion in a field. This means that women have fewer venues to present their research, less opportunity to increase their professional network, and smaller chances of promotion and financial support. The paucity of women speakers al...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/j.tcb.2015.06.001
更新日期：2015-08-01 00:00:00
abstract：:Cell biologists have used photobleaching to investigate the lateral mobility of fluorophores on the cell surface since the 1970s. Fusions of green fluorescent protein (GFP) to specific proteins extend photobleaching techniques to the investigation of protein dynamics within the cell, leading to renewed interest in pho...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/s0962-8924(98)01433-0
更新日期：1999-02-01 00:00:00
abstract：:Xenophagy, the process of eliminating intracellular pathogens through the autophagy machinery, is an important defense mechanism against infectious disease, yet the underlying molecular mechanisms remain incompletely understood. Recent work (Xu et al., Cell, 2019) used the discovery of an inhibitor of xenophagy, SopF,...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2019.08.001
更新日期：2019-10-01 00:00:00
abstract：:The nuclear envelope (NE) breaks down reversibly and reassembles at mitosis. Two models of mitotic nuclear membrane disassembly and reformation have emerged from studies of NE dynamics in somatic cells and egg extracts. One model suggests that nuclear membranes fragment reversibly by vesiculation, producing NE-derived...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/s0962-8924(99)01697-9
更新日期：2000-01-01 00:00:00
abstract：:In animal species undergoing determinate growth, the making of a full-size adult body requires a series of coordinated growth events culminating in the cessation of growth that precedes sexual maturation. The merger between physiology and genetics now coming to pass in the Drosophila model allows us to decipher these ...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2013.03.005
更新日期：2013-07-01 00:00:00
abstract：:Research on the Golgi apparatus has resulted in major advances in understanding its structure and functions, but many important questions remain unanswered. The history of the Golgi apparatus has been marked by arguments and controversies, some of which have been resolved, whereas others are still ongoing. This articl...
journal_title：Trends in cell biology
pub_type： 传,历史文章,杂志文章,评审
doi：10.1016/s0962-8924(97)01187-2
更新日期：1998-01-01 00:00:00
abstract：:The nuclear pore complex (NPC) connects the cytoplasm and nucleus through the nuclear envelope and serves as the pipeline for moving material between the two compartments. Macromolecules that move through the NPC range in size from the very small (for example, ions and ATP) to the very large (for example, ribonucleopr...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/s0962-8924(99)01608-6
更新日期：1999-08-01 00:00:00
abstract：:The endoplasmic reticulum contains a number of proteins involved in the processing of secretory polypeptides. These include BiP, which is an Hsp70-family member highly conserved throughout evolution. BiP is known to be intimately involved in several aspects of protein biogenesis, but our understanding of these events ...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/S0962-8924(97)01079-9
更新日期：1997-07-01 00:00:00
abstract：:Lymphocyte migration from high endothelial venules into lymphoid organs is mediated by a sequence of interactions between cell adhesion molecules on lymphocytes and those on the vascular endothelial cells that line the vessels. recent studies suggest that the so-called lymphocyte homing receptors and vascular addressi...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/0962-8924(94)90234-8
更新日期：1994-09-01 00:00:00
abstract：:The light-sensitive outer segment organelle of the vertebrate photoreceptor cell is a modified cilium filled with hundreds of flattened 'disc' membranes that provide vast light-absorbing surfaces. The outer segment is constantly renewed with new discs added at its base every day. This continuous process is essential f...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2020.08.005
更新日期：2020-11-01 00:00:00
abstract：:Integrin-linked focal adhesion complexes provide the main sites of cell adhesion to extracellular matrix and associate with the actin cytoskeleton to control cell movement. Dynamic regulation of focal adhesions and reorganization of the associated actin cytoskeleton are crucial determinants of cell migration. There ar...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2004.03.011
更新日期：2004-05-01 00:00:00
abstract：:Adhesion to the extracellular matrix (ECM) is a crucial regulator of cell function, and it is now well established that signaling by integrins mediates many of these effects. Ten years of research has seen integrin signaling advance on many fronts towards a molecular understanding of the control mechanisms. Most strik...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/s0962-8924(01)02152-3
更新日期：2001-12-01 00:00:00
abstract：:Damage to any tissue triggers a cascade of events that leads to rapid repair of the wound - if the tissue is skin, then repair involves re-epithelialization, formation of granulation tissue and contraction of underlying wound connective tissues. This concerted effort by the wounded cell layers is accompanied by, and m...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2005.09.002
更新日期：2005-11-01 00:00:00
abstract：:The Hippo signaling network integrates diverse upstream signals to control cell fate decisions and regulate organ growth. Recent studies have provided new insights into the cellular organization of Hippo signaling, its relationship to cell-cell junctions, and how the cytoskeleton modulates Hippo signaling. Cell-cell j...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2016.05.003
更新日期：2016-09-01 00:00:00
abstract：:In essence, the mitotic cell cycle in eukaryotes involves the duplication and separation of chromosomes, coupled to the process of dividing one cell into two. Cytokinesis is therefore the culmination of a series of events that were triggered during G1 phase, and brings the daughter cells back to the starting position ...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/s0962-8924(00)01765-7
更新日期：2000-06-01 00:00:00
abstract：:Mammalian genomes encode thousands of long noncoding RNAs (lncRNAs) that play important roles in diverse biological processes. As a class, lncRNAs are generally enriched in the nucleus and, specifically, within the chromatin-associated fraction. Consistent with their localization, many lncRNAs have been implicated in ...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2014.08.009
更新日期：2014-11-01 00:00:00
abstract：:Like the conductor of an orchestra, the Sec protein translocation channel is the platform needed to bring together the many different players required for the constitutive and obligatory process of protein transport. This conserved membrane channel, termed SecY in bacteria and Sec61 in eukaryotes, creates a ubiquitous...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2011.04.005
更新日期：2011-09-01 00:00:00
abstract：:During clathrin-mediated endocytosis, dynamin promotes the formation of clathrin-coated vesicles, but its mode of action is unresolved. In a recent study, Macia and colleagues made use of dynasore, a dynamin-specific inhibitor, to show that dynamin plays a dual role in endocytosis: they confirmed that dynamin is invol...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/j.tcb.2006.10.004
更新日期：2006-12-01 00:00:00
abstract：:Motor proteins are involved in a wide range of cellular and subcellular movements. Recent studies have implicated two motor proteins in particular, myosin II and cytoplasmic dynein, in diverse aspects of cell migration. This review focuses on emerging roles for these proteins in the nervous system, with particular emp...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2009.03.009
更新日期：2009-07-01 00:00:00
abstract：:The endoplasmic reticulum (ER) is the largest organelle in cells and has fundamental functions, such as folding, processing, and trafficking of proteins, cellular metabolism, and ion storage. To maintain its function, it is turned over constitutively, and even more actively under certain stress conditions. Quality con...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2020.02.001
更新日期：2020-05-01 00:00:00
abstract：:Export signal sequences target newly synthesized proteins to the endoplasmic reticulum of eukaryotic cells and the plasma membrane of bacteria. All signal sequences contain a hydrophobic core region, but, despite this, they show great variation in both overall length and amino acid sequence. Recently, it has become cl...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/s0962-8924(98)01360-9
更新日期：1998-10-01 00:00:00
abstract：:Hematopoiesis generally refers to hematopoietic development in fetuses and adults, as well as to hematopoietic stem cell differentiation into progeny lineages. The multiple processes that generate diverse hematopoietic cells have been considered to be unidirectional. However, many reports have recently demonstrated th...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2020.07.006
更新日期：2020-10-01 00:00:00
abstract：:The transport of protein through the secretory pathway of eukaryotic cells relies on small vesicular carriers, which mediate the movement of cargo between different compartments. Here, Meir Aridor and Bill Balch summarize what is currently known about the role of the cytosolic coat complexes in directing the formation...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/0962-8924(96)10027-1
更新日期：1996-08-01 00:00:00
abstract：:The organization of cells into interconnected structures such as animal tissues requires a sophisticated system directing receptors and adhesion proteins to the cell surface. The Rab11 small G proteins (Rab11a, b, and Rab25) of the Ras superfamily are master regulators of the surface expression of receptors and adhesi...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2014.02.004
更新日期：2014-07-01 00:00:00
abstract：:The role o f iron in cell division, cell death and human disease has recently gained increased attention. The best studied process for iron uptake into mammalian cells involves traps ferrin and its receptor. This review discusses evidence supporting the existence of other routes by which iron can enter mammalian cells...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/0962-8924(96)10019-2
更新日期：1996-06-01 00:00:00
abstract：:Caveolae are ampullate (flask-shaped) invaginations that are abundant in the plasma membrane of many mammalian cell types. Although caveolae are implicated in a wide range of processes including endothelial transcytosis, lipid homeostasis and cellular signalling, a detailed molecular picture of many aspects of their f...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2010.01.005
更新日期：2010-04-01 00:00:00
abstract：:Ferroptosis is a regulated form of cell death driven by loss of activity of the lipid repair enzyme glutathione peroxidase 4 (GPX4) and subsequent accumulation of lipid-based reactive oxygen species (ROS), particularly lipid hydroperoxides. This form of iron-dependent cell death is genetically, biochemically, and morp...
journal_title：Trends in cell biology
pub_type： 杂志文章,评审
doi：10.1016/j.tcb.2015.10.014
更新日期：2016-03-01 00:00:00
abstract：:The ability of cells to utilize cholesterol derived from lipoprotein is important in plasma membrane biosynthesis, steroidogenesis and the regulation of sterol synthesis. While the endocytosis of lipoprotein-derived cholesterol has been well characterized, the subsequent events that mediate its post-lysosomal intracel...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/0962-8924(94)90189-9
更新日期：1994-05-01 00:00:00
abstract：:Transfer of proteins and lipids between the various membrane-bound subcellular compartments of the eukaryotic cell is mediated by transport vesicles. The development of cell-free assays has allowed rapid progress towards a molecular description of the formation, or budding, of these vesicles. This article reviews and ...
journal_title：Trends in cell biology
pub_type： 杂志文章
doi：10.1016/0962-8924(91)90018-5
更新日期：1991-12-01 00:00:00
