Results 91 to 100 of about 31,663 (206)

Classes of fast and specific search mechanisms for proteins on DNA

, 2011
Problems of search and recognition appear over different scales in biological systems. In this review we focus on the challenges posed by interactions between proteins, in particular transcription factors, and DNA and possible mechanisms which allow for ...
Abramowitz M, Adam G, Alon U, Benichou O, Braun E, Bresloff J L, Bustamante C, de Haan L, Eliazar I, Elowitz M B, Fersht A, Gasch A P, Grosberg A, Hill A V, Hughes B D, Jeltsch A, M Sheinman, Mirny L, Montroll E W, O Bénichou, Oshanin G, Phillips R, R Voituriez, Redner S, Richey B, Sheinman M, Sheinman M Kafri Y, Terry B J, von Hippel P H, von Hippel P H, von Smoluchowski M, Y Kafri, Zhang M O   +32 more
core   +2 more sources

Coarse-grained model of entropic allostery [PDF]

, 2004
Many signaling functions in molecular biology require proteins to bind to substrates such as DNA in response to environmental signals such as the simultaneous binding to a small molecule. Examples are repressor proteins which may transmit information via
A. Cooper, A. L. Lehninger, A. M. Friedman, A. M. Spiegel, B. Alberts, G. Rhodes, K. S. Matthews, L. Swint-Kruse, M. Lewis, M. Slijper, M. D. Barkley, N. Yildirim, Rhoda J. Hawkins, Tom C. B. McLeish   +13 more
core   +3 more sources

MicroRNAs‐mediated heat stress regulations in plants: Mechanisms and targets

The Plant Genome, Volume 18, Issue 4, December 2025.
Abstract Heat stress, exacerbated by global warming, can cause significant challenges to agriculture, adversely impacting plant growth, reproduction, and yield. This review examines the crucial role of microRNAs (miRNAs) in mediating plant responses to heat stress across various key crops, including Arabidopsis (Arabidopsis thaliana), rice (Oryza ...
Muhammad Farooq, Hina Tanveer, Hafiz Mamoon Rehman, Rabia Areej Cheema, Sehar Nawaz, Aneesa Ijaz, Muhammad Arif, Hon‐Ming Lam   +7 more
wiley   +1 more source

Transcriptome analysis reveals key immune pathways and metabolites associated with resistance to Verticillium dahliae in GbMBL1.1A‐overexpressing cotton

The Plant Genome, Volume 18, Issue 4, December 2025.
Abstract Cotton (Gossypium barbadense L. and Gossypium hirsutum L.), a major economic crop, suffers severe yield losses due to Verticillium wilt caused by Verticillium dahliae Kleb. Although the lectin receptor‐like protein GbMBL1.1A has been identified as a key activator of hypersensitive cell death in cotton resistance to this pathogen, its ...
Deming Tan, Leitian Yuan, Huanyang Zhang, Jing Li, Shuling Zhang, Guixia Liu, Fuxin Wang   +6 more
wiley   +1 more source

A putative curved DNA region upstream of rcsA in Escherichia coli plays a key role in transcriptional regulation by H‐NS

FEBS Open Bio, 2018
It is well established that in Escherichia coli, the histone‐like nucleoid structuring (H‐NS) protein also functions as negative regulator of rcsA transcription.
Shanmugaraja Meenakshi, Maruthan Karthik, M. Hussain Munavar   +2 more
doaj   +1 more source

Genetic switching by the Lac repressor is based on two-state Monod-Wyman-Changeux allostery. [PDF]

Proc Natl Acad Sci U S A, 2023
Romanuka J, Folkers GE, Gnida M, Kovačič L, Wienk H, Kaptein R, Boelens R.   +6 more
europepmc   +1 more source

Tuning transcriptional regulation through signaling: A predictive theory of allosteric induction

, 2017
Allosteric regulation is found across all domains of life, yet we still lack simple, predictive theories that directly link the experimentally tunable parameters of a system to its input-output response.
Barnes, Stephanie L., Belliveau, Nathan M., Chure, Griffin, Einav, Tal, Lewis, Mitchell, Phillips, Rob, Razo-Mejia, Manuel   +6 more
core  

Modeling transcription factor binding events to DNA using a random walker/jumper representation on a 1D/2D lattice with different affinity sites

, 2007
Surviving in a diverse environment requires corresponding organism responses. At the cellular level, such adjustment relies on the transcription factors (TFs) which must rapidly find their target sequences amidst a vast amount of non-relevant sequences ...
Doi M, Ehbrecht H J, Feller W, Jack Tuszynski, Jeltsch A, Long F, Michael Hendzel, Terry B J, Vahid Rezania, van Kampen N G, von Hippel P H   +10 more
core   +1 more source

Transcription Factor Target Gene Network governs the Logical Abstraction Analysis of the Synthetic Circuit in Leishmaniasis

Scientific Reports, 2018
With the advent of synthetic biology in medicine many synthetic or engineered proteins have made their way to therapeutics and diagnostics. In this paper, the downstream gene network of CD14-TNF-EGFR pathway in leishmaniasis, a tropical disease, is ...
Milsee Mol, Dipali Kosey, Ramanamurthy Boppana, Shailza Singh   +3 more
doaj   +1 more source

Analysis of the lactose metabolism in E. coli using sum-of-squares decomposition [PDF]

, 2005
We provide a system-theoretic analysis of the mathematical model of lactose induction in E.coli which predicts the level of lactose induction into the cell for specified values of external lactose.
Ahmadzadeh, Ali, Halasz, Adam, Jadbabaie, Ali, Kumar, Vijay, Prajna, Stephen   +4 more
core