Results 61 to 70 of about 6,728,627 (290)

Network Inference from Gene Expression Data with Distance Correlation and Network Topology Centrality

Algorithms, 2021
The reconstruction of gene regulatory networks based on gene expression data can effectively uncover regulatory relationships between genes and provide a deeper understanding of biological control processes.
Kuan Liu, Haiyuan Liu, Dongyan Sun, Lei Zhang   +3 more
doaj   +1 more source

On Hybrid Gene Regulatory Networks

CoRR
In this work, we study a class of hybrid dynamical systems called hybrid gene regulatory networks (HGRNs) which was proposed to model gene regulatory networks. In HGRNs, there exist well-behaved trajectories that reach a fixed point or converge to a limit cycle, as well as chaotic trajectories that behave non-periodic or indeterministic.
Adrian Wurm, Honglu Sun
openaire   +3 more sources

Cardiac gene regulatory networks in Drosophila [PDF]

Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 2009
The Drosophila system has proven a powerful tool to help unlock the regulatory processes that occur during specification and differentiation of the embryonic heart. In this review, we focus upon a temporal analysis of the molecular events that result in heart formation in Drosophila, with a particular emphasis upon how genomic and other cutting-edge ...
Anton L, Bryantsev, Richard M, Cripps
openaire   +2 more sources

ABL kinase‐dependent phosphorylation of SH proteins promotes their direct interaction with CRK family SH2 domains

FEBS Letters, EarlyView.
CT10 regulator of kinase (CRK) and CRK‐Like (CRKL) are signaling adaptors driving cell adhesion, motility, differentiation, and proliferation. SH2‐domain containing (SH) proteins are enriched in YXXP motifs which when phosphorylated create preferred binding sites for CRK family SH2 domains.
Phoebe M. Cousens, Brendan W. Chandler, Anna M. Schmoker, Jaye L. Weinert, Charlotte A. Kearns, Warren T. Yacawych, Amila Šemić, Alicia M. Ebert, Bryan A. Ballif   +8 more
wiley   +1 more source

A publish-subscribe model of genetic networks. [PDF]

PLoS ONE, 2008
We present a simple model of genetic regulatory networks in which regulatory connections among genes are mediated by a limited number of signaling molecules.
Brett Calcott, Duygu Balcan, Paul A Hohenlohe   +2 more
doaj   +1 more source

Reconstructing enzyme evolution by protein engineering

FEBS Letters, EarlyView.
Natural enzyme evolution can be retraced by protein engineering methods such as directed evolution, rational design, and ancestral sequence reconstruction. These approaches reveal how enzymes emerged from ligand‐binding scaffolds, developed varying substrate preferences, formed oligomeric complexes, adapted to environmental changes, and evolved novel ...
Lukas Drexler, Markus R. Busch, Reinhard Sterner   +2 more
wiley   +1 more source

Integration of probabilistic regulatory networks into constraint-based models of metabolism with applications to Alzheimer’s disease

BMC Bioinformatics, 2019
Background Mathematical models of biological networks can provide important predictions and insights into complex disease. Constraint-based models of cellular metabolism and probabilistic models of gene regulatory networks are two distinct areas that ...
Han Yu, Rachael Hageman Blair
doaj   +1 more source

Phenotypic switching in gene regulatory networks [PDF]

Proceedings of the National Academy of Sciences, 2014
Significance Phenotypes of an isogenic cell population are determined by states of low and high gene expression. These are often associated with multiple steady states predicted by deterministic models of gene regulatory networks.
Philipp, Thomas, Nikola, Popović, Ramon, Grima   +2 more
openaire   +2 more sources

Conserved binding mode but diverse interfaces of MreC‐PBP2 interactions

FEBS Letters, EarlyView.
The crystal structure of abMreC reveals a conserved two β‐barrel architecture and provides structural insights into its role within the bacterial elongasome. The abMreC–abPBP2 complex model identifies the molecular basis of MreC‐mediated PBP2 recognition, contributing to the regulation of peptidoglycan synthesis.
Hyunseok Jang, Hyo Been Jin, Chang Min Kim, So Yeon Lee, Hyun Ho Park   +4 more
wiley   +1 more source

Approximate kernel reconstruction for time-varying networks

BioData Mining, 2019
Background Most existing algorithms for modeling and analyzing molecular networks assume a static or time-invariant network topology. Such view, however, does not render the temporal evolution of the underlying biological process as molecular networks ...
Gregory Ditzler, Nidhal Bouaynaya, Roman Shterenberg, Hassan M. Fathallah-Shaykh   +3 more
doaj   +1 more source