Search Results - "Ferrell, E."

Bistability, Bifurcations, and Waddington's Epigenetic Landscape by Ferrell, James E.

“…Waddington's epigenetic landscape is probably the most famous and most powerful metaphor in developmental biology. Cells, represented by balls, roll downhill…”
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Apoptosis propagates through the cytoplasm as trigger waves by Cheng, Xianrui, Ferrell, Jr, James E

“…Apoptosis is an evolutionarily conserved form of programmed cell death critical for development and tissue homeostasis in animals. The apoptotic control…”
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Modeling the Cell Cycle: Why Do Certain Circuits Oscillate? by Ferrell, James E., Tsai, Tony Yu-Chen, Yang, Qiong

“…Computational modeling and the theory of nonlinear dynamical systems allow one to not simply describe the events of the cell cycle, but also to understand why…”
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Mechanisms of specificity in protein phosphorylation by Ubersax, Jeffrey A, Ferrell Jr, James E

“…A typical protein kinase must recognize between one and a few hundred bona fide phosphorylation sites in a background of approximately 700,000 potentially…”
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Mitotic trigger waves and the spatial coordination of the Xenopus cell cycle by Chang, Jeremy B., Ferrell Jr, James E.

“…In an in vitro Xenopus extract system that can undergo cell cycles, mitosis spreads through the cytoplasm in ‘trigger waves’ of Cdk1 activation, which may…”
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A Mechanism for the Evolution of Phosphorylation Sites by Pearlman, Samuel M., Serber, Zach, Ferrell, James E.

“…Protein phosphorylation provides a mechanism for the rapid, reversible control of protein function. Phosphorylation adds negative charge to amino acid side…”
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Robust, Tunable Biological Oscillations from Interlinked Positive and Negative Feedback Loops by Tsai, Tony Yu-Chen, Choi, Yoon Sup, Ma, Wenzhe, Pomerening, Joseph R, Tang, Chao, Ferrell, James E. Jr

“…A simple negative feedback loop of interacting genes or proteins has the potential to generate sustained oscillations. However, many biological oscillators…”
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The Cdk1–APC/C cell cycle oscillator circuit functions as a time-delayed, ultrasensitive switch by Yang, Qiong, Ferrell, James E.

“…Frog embryonic cell cycles are driven by oscillations in the activity of cyclin B–Cdk1. This complex activates the E3 ligase APC/C Cdc20 , which in turn causes…”
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Spatial trigger waves: positive feedback gets you a long way by Gelens, Lendert, Anderson, Graham A, Ferrell, Jr, James E

“…Trigger waves are a recurring biological phenomenon involved in transmitting information quickly and reliably over large distances. Well-characterized examples…”
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C. elegans colony formation as a condensation phenomenon by Chen, Yuping, Ferrell, James E.

“…Phase separation at the molecular scale affects many biological processes. The theoretical requirements for phase separation are fairly minimal, and there is…”
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Thresholds and ultrasensitivity from negative cooperativity by Ha, S. H., Ferrell, J. E.

“…Negative cooperativity is a phenomenon in which the binding of one or more molecules of a ligand to a multimeric receptor makes it more difficult for…”
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Spatial Positive Feedback at the Onset of Mitosis by Santos, Silvia D.M., Wollman, Roy, Meyer, Tobias, Ferrell, James E.

“…Mitosis is triggered by the activation of Cdk1-cyclin B1 and its translocation from the cytoplasm to the nucleus. Positive feedback loops regulate the…”
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The roles of cyclin A2, B1, and B2 in early and late mitotic events by Gong, Delquin, Ferrell, Jr, James E

“…Here we have used siRNAs and time-lapse epifluorescence microscopy to examine the roles of various candidate mitotic cyclins in chromatin condensation in HeLa…”
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Cytoplasmic organization promotes protein diffusion in Xenopus extracts by Huang, William Y. C., Cheng, Xianrui, Ferrell, James E.

“…The cytoplasm is highly organized. However, the extent to which this organization influences the dynamics of cytoplasmic proteins is not well understood. Here,…”
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Changes in oscillatory dynamics in the cell cycle of early Xenopus laevis embryos by Tsai, Tony Y-C, Theriot, Julie A, Ferrell, Jr, James E

“…During the early development of Xenopus laevis embryos, the first mitotic cell cycle is long (∼85 min) and the subsequent 11 cycles are short (∼30 min) and…”
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Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability by Ferrell, James E

“…Cell signaling systems that contain positive-feedback loops or double-negative feedback loops can, in principle, convert graded inputs into switch-like,…”
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Ultrafast distant wound response is essential for whole-body regeneration by Fan, Yuhang, Chai, Chew, Li, Pengyang, Zou, Xinzhi, Ferrell, Jr, James E, Wang, Bo

“…Injury induces systemic responses, but their functions remain elusive. Mechanisms that can rapidly synchronize wound responses through long distances are also…”
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Spontaneous emergence of cell-like organization in Xenopus egg extracts by Cheng, Xianrui, Ferrell, Jr, James E

“…Every daughter cell inherits two things from its mother: genetic information and a spatially organized complement of macromolecular complexes and organelles…”
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Ultrasensitivity part II: multisite phosphorylation, stoichiometric inhibitors, and positive feedback by Ferrell, James E., Jr, Ha, Sang Hoon

“…•To understand the responses of complex signaling networks, one must first understand the responses of the individual monocycles that comprise the…”
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Ultrasensitivity part I: Michaelian responses and zero-order ultrasensitivity by Ferrell, James E., Ha, Sang Hoon

“…•The simplest signal transduction systems exhibit hyperbolic, michaelian responses.•Sigmoidal, ultrasensitive responses are nevertheless commonplace in cell…”
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