Results 41 to 50 of about 474,387 (314)

Directed partial correlation : inferring large-scale gene regulatory network through induced topology disruptions [PDF]

, 2011
Inferring regulatory relationships among many genes based on their temporal variation in transcript abundance has been a popular research topic. Due to the nature of microarray experiments, classical tools for time series analysis lose power since the ...
Li Chang-Tsun, Yuan Yinyin, Yuan, Yinyin, Windram Oliver, Chang-Tsun Li, Windram, Oliver P., Oliver Windram, Yinyin Yuan, Li, Chang-Tsun   +8 more
core   +1 more source

Variable levels of drift in tunicate cardiopharyngeal gene regulatory elements

EvoDevo, 2019
Background Mutations in gene regulatory networks often lead to genetic divergence without impacting gene expression or developmental patterning. The rules governing this process of developmental systems drift, including the variable impact of selective ...
William Colgan, Alexis Leanza, Ariel Hwang, Melissa B. DeBiasse, Isabel Llosa, Daniel Rodrigues, Hriju Adhikari, Guillermo Barreto Corona, Saskia Bock, Amanda Carillo-Perez, Meagan Currie, Simone Darkoa-Larbi, Daniel Dellal, Hanna Gutow, Pascha Hokama, Emily Kibby, Noah Linhart, Sophia Moody, Allison Naganuma, Diep Nguyen, Ryan Stanton, Sierra Stark, Cameron Tumey, Anthony Velleca, Joseph F. Ryan, Brad Davidson   +25 more
doaj   +1 more source

Gene Regulatory Networks in the Genomics Era

Genomics, Proteomics & Bioinformatics, 2013
The precise regulation of gene expression is critical to the normal development and biological function of all organisms. Dysregulation of gene expression during early development can result in a spectrum of failures ranging from minor defects to the termination of development.
Matthew Loose, Roger Patient, Xiangdong Fang, Hongxing Lei   +3 more
openaire   +4 more sources

Nonparametric Bayesian inference for perturbed and orthologous gene regulatory networks [PDF]

, 2012
Motivation: The generation of time series transcriptomic datasets collected under multiple experimental conditions has proven to be a powerful approach for disentangling complex biological processes, allowing for the reverse engineering of gene ...
Penfold, Christopher A., Buchanan-Wollaston, Vicky, Wild, David L., Denby, Katherine J.   +3 more
core   +1 more source

Evolution of Evolvability in Gene Regulatory Networks

PLoS Computational Biology, 2008
Gene regulatory networks are perhaps the most important organizational level in the cell where signals from the cell state and the outside environment are integrated in terms of activation and inhibition of genes. For the last decade, the study of such networks has been fueled by large-scale experiments and renewed attention from the theoretical field.
Anton Crombach, Paulien Hogeweg
openaire   +5 more sources

De novo evolution of complex, global and hierarchical gene regulatory mechanisms [PDF]

, 2010
Gene regulatory networks exhibit complex, hierarchical features such as global regulation and network motifs. There is much debate about whether the evolutionary origins of such features are the results of adaptation, or the by-products of non-adaptive ...
Dov J. Stekel, Jenkins, Dafyd J., Dafyd J. Jenkins, Stekel, Dov   +3 more
core   +1 more source

A novel mutual information-based Boolean network inference method from time-series gene expression data.

PLoS ONE, 2017
BackgroundInferring a gene regulatory network from time-series gene expression data in systems biology is a challenging problem. Many methods have been suggested, most of which have a scalability limitation due to the combinatorial cost of searching a ...
Shohag Barman, Yung-Keun Kwon
doaj   +1 more source

Phosphatidylinositol 4‐kinase as a target of pathogens—friend or foe?

FEBS Letters, EarlyView.
This graphical summary illustrates the roles of phosphatidylinositol 4‐kinases (PI4Ks). PI4Ks regulate key cellular processes and can be hijacked by pathogens, such as viruses, bacteria and parasites, to support their intracellular replication. Their dual role as essential host enzymes and pathogen cofactors makes them promising drug targets.
Ana C. Mendes, Guilherme M. Azevedo, Amanda P. Barcellos, Diana Bahia   +3 more
wiley   +1 more source

Homeostasis in gene regulatory networks

International Journal of Biomathematics
Gene regulatory networks lie at the heart of many important intracellular signal transduction processes. A Gene Regulatory Network (GRN) is abstractly defined as a directed graph, where the nodes represent genes and the edges represent the causal regulatory interactions between genes. It can be used to construct mathematical models describing the time-
Fernando Antoneli, Martin Golubitsky, Jiaxin Jin, Ian Stewart   +3 more
openaire   +2 more sources

An extended Kalman filtering approach to modeling nonlinear dynamic gene regulatory networks via short gene expression time series

, 2009
Copyright [2009] IEEE. This material is posted here with permission of the IEEE. Such permission of the IEEE does not in any way imply IEEE endorsement of any of Brunel University's products or services.
Liu, Y, Liu, X, Wang, Z, Liang, Y, Vinciotti, V   +4 more
core   +1 more source