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Frontiers in Bioscience, 2008
The discovery of regulatory networks is an important aspect in the post genomic research. The process requires integrated efforts of experimental and computational strategies by employing the systems biology approach. This review summarizes some of the major themes in computational inference of regulatory networks based on gene expression and other ...
Huai, Li +3 more
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The discovery of regulatory networks is an important aspect in the post genomic research. The process requires integrated efforts of experimental and computational strategies by employing the systems biology approach. This review summarizes some of the major themes in computational inference of regulatory networks based on gene expression and other ...
Huai, Li +3 more
openaire +2 more sources
Inferring Contagion in Regulatory Networks
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2011Several gene regulatory network models containing concepts of directionality at the edges have been proposed. However, only a few reports have an interpretable definition of directionality. Here, differently from the standard causality concept defined by Pearl, we introduce the concept of contagion in order to infer directionality at the edges, i.e ...
André, Fujita +8 more
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Nature Reviews Cancer, 2018
Assi et al. have generated multi-omics data on leukaemic blasts from acute myeloid leukaemia (AML) patients with defined genetic alterations. These data provide a comprehensive overview of the specific transcriptional and signalling networks in certain AML subtypes.
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Assi et al. have generated multi-omics data on leukaemic blasts from acute myeloid leukaemia (AML) patients with defined genetic alterations. These data provide a comprehensive overview of the specific transcriptional and signalling networks in certain AML subtypes.
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Genetic Regulatory Networks and Neural Networks
2009The discussion on the neural networks paradigm casted a bright light on the notion of network and on what we may define as the “dynamical systems approach”. The rebounds of this emphasis involved, during the years, the most disparate scientific areas, such as biology, social sciences and artificial life, contributing to reinforce ...
Roberto Serra +2 more
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European regulatory networks: foundations and foresights
2022Within recent decades, European Regulatory Networks (ERNs) have continued to develop within the European administrative space. In bringing together task-specific regulators from various jurisdictions, they have facilitated cross-border collaboration and information exchange between national regulators. However, the existing literature on this empirical
van der Heijden, Machiel +1 more
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The Regulatory Network Computational Device
Genetic Programming and Evolvable Machines, 2012Evolutionary Algorithms (EA) approach the genotype---phenotype relationship differently than does nature, and this discrepancy is a recurrent issue among researchers. Moreover, in spite of some performance improvements, it is a fact that biological knowledge has advanced faster than our ability to incorporate novel biological ideas into EAs.
Rui L. Lopes, Ernesto Costa
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Transcriptional regulatory networks in macrophages.
Novartis Foundation symposium, 2007The functions of macrophages in the innate immune system require the constitutive expression of a wide range of myeloid-specific genes, including various pattern recognition receptors, as well as the inducible expression of a suite of genes required to initiate inflammation and eliminate pathogens.
A. Hume, David +2 more
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Transcriptional regulatory networks in haematopoiesis
Current Opinion in Genetics & Development, 2008The coordinated expression of genes lies at the heart of developmental programmes, with complex regulatory networks controlling the spatial and temporal aspects of gene expression. Haematopoiesis (blood formation) has long served as a model process for studying the specification and subsequent differentiation of stem cells and represents the best ...
Diego, Miranda-Saavedra +1 more
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Abnormalities of the Hematopoietic Regulatory Network
1988It is now widely recognized that mononuclear phagocytes play a major role in regulating the production of hematopoietic growth factors by a variety of cell types1–17. As shown in Fig. 1, two monokines, interleukin 1 (IL-1) and tumor necrosis factor alpha (TNF) are known to induce the expression of G- and GM-CSF genes in fibroblasts and in endothelial ...
G C, Bagby +3 more
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The Engineering of Gene Regulatory Networks
Annual Review of Biomedical Engineering, 2003▪ Abstract The rapid accumulation of genetic information and advancement of experimental techniques have opened a new frontier in biomedical engineering. With the availability of well-characterized components from natural gene networks, the stage has been set for the engineering of artificial gene regulatory networks with sophisticated computational ...
Mads, Kaern +2 more
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