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*  Exploring the Boundaries of Gene Regulatory Network Inference
Gene regulatory network inference (that is, determination of the regulatory interactions between a set of genes) provides ... Motivation: Gene regulatory network (GRN) inference reveals the influences genes have on one another in cellular regulatory ... Open this publication in new window or tab ,,Functional association networks as priors for gene regulatory network inference. ... GRN, gene regulatory network, network inference, signal to noise ratio, model selection, variable selection, data properties, ...
http://www.diva-portal.org/smash/record.jsf?pid=diva2:865190
*  Experimental design trade-offs for gene regulatory network inference: an in silico study of the yeast Saccharomyces cerevisiae...
en] Time-series of high throughput gene sequencing data intended for gene regulatory network (GRN) inference are often short ... en] gene regulatory network ; network inference ; sampled systems ; time-series ; yeast ; Saccharomyces cerevisiae. ... Experimental design trade-offs for gene regulatory network inference: an in silico study of the yeast Saccharomyces cerevisiae ... Reference : Experimental design trade-offs for gene regulatory network inference: an in silico st.... ...
http://publications.uni.lu/handle/10993/33833
*  Co-expression of host and viral microRNAs in porcine dendritic cells infected by the pseudorabies virus | Archivio...
animals; base sequence; dendritic cells; gene expression profiling; gene regulatory networks; genome; herpesvirus 1, suid; host ... The differentially expressed swine miRNAs identified a unique network of target genes with highly significant functions in the ... The gene target prediction of the viral miRNAs and the Ingenuity Pathway Analysis of differentially expressed pig miRNAs were ... MicroRNAs are small non-coding RNAs approximately 22 nt long that modulate gene expression in animals and plants. It has been ...
https://air.unimi.it/handle/2434/263982
*  "Predictive Minimum Description Length Principle Approach to Inferring " by Vijender Chaitankar, Chaoyang Zhang et al.
... principle to infer gene regulatory networks from DNA microarray data. In this algorithm, the information theoretic quantities ... MI and CMI determine the regulatory relationships between genes and the PMDL principle method attempts to determine the best MI ... problems with information theory models is to determine the threshold that defines the regulatory relationships between genes. ... and capability of inferring large networks. One of the major ... principle to infer gene regulatory networks from DNA microarray ...
https://aquila.usm.edu/fac_pubs/349/
*  Gene Regulatory Networks | SpringerLink
Gene regulatory networks play a vital role in organismal development and function by controlling gene expression. With the ... Gene regulatory networks play a vital role in organismal development and function by controlling gene expression. With the ... Divided into five convenient sections, Gene Regulatory Networks: Methods and Protocols details how each of these approaches ... Authoritative and accessible, Gene Regulatory Networks: Methods and Protocols aims to provide novices and experienced ...
https://link.springer.com/book/10.1007/978-1-61779-292-2
*  Gene regulatory networks | PNAS
Gene regulatory networks and the role of robustness and stochasticity in the control of gene expression ... The Special Feature on gene regulatory networks in this issue of PNAS highlights an emerging field in the biosciences: gene ... Network substructure: Gene regulatory networks are inhomogeneous compositions of different kinds of subcircuits, each ... a gene regulatory network consists of assemblages of these information-processing units; thus, it is essentially a network of ...
http://www.pnas.org/content/102/14/4935.full
*  Switching Gene Regulatory Networks | SpringerLink
Gene regulatory networks (GRNs) Boolean networks Biological Modeling Satisfiability Modulo Theories (SMT) Synthesis Self- ... Non-homogeneous dynamic Bayesian networks with Bayesian regularization for inferring gene regulatory networks with gradually ... Shavit Y., Yordanov B., Dunn SJ., Wintersteiger C.M., Hamadi Y., Kugler H. (2015) Switching Gene Regulatory Networks. In: Lones ... biological programs.We introduce Switching Gene Regulatory Networks to enable the modeling and analysis of network ...
https://link.springer.com/chapter/10.1007%2F978-3-319-23108-2_11
*  Computational analysis of gene regulatory networks
... interwoven structures of regulatory interactions summarized in gene regulatory networks. In this thesis, I address two ... which I have developed as a framework for automatic generation of gene regulatory network models. I have developed a novel ... a method for reverse engineering of gene regulatory networks from temporal data. This computational approach uses a neural ... This new kinetic is particularly useful for the computational set-up of complex gene regulatory models. GeNGe supports also the ...
https://edoc.hu-berlin.de/handle/18452/16695
*  Evolutionary plasticity of developmental gene regulatory network architecture | PNAS
2006) The Regulatory Genome: Gene Regulatory Networks in Development and Evolution (Academic, New York).. ... Conserved regulatory state expression controlled by divergent developmental gene regulatory networks in echinoids ... Gene regulatory network for neurogenesis in a sea star embryo connects broad neural specification and localized patterning ... Evolutionary plasticity of developmental gene regulatory network architecture Message Subject (Your Name) has sent you a ...
https://www.pnas.org/content/104/49/19404?ijkey=3e86f9c209fb87aba1371d7c6c983ee4b95f6700&keytype2=tf_ipsecsha
*  Experimental Design for Parameter Estimation of Gene Regulatory Networks
In order to describe the behavior of biological cells adequately, gene regulatory networks (GRNs) are intensively investigated ... Gene regulatory networks Is the Subject Area "Gene regulatory networks" applicable to this article? Yes. No. ...
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0040052
*  Gene Regulatory Networks for Development
Gene Regulatory Networks for Development. 2014 MBL course. October 12-24, 2014. Gene Regulatory Networks for Development is an ... The course covers structure and function of genomically encoded gene networks controlling many developmental processes, in ... Human Gene Mutation Database (HGMD). Leiden Open Variation Database (LOVD) 3.0. Online Mendelian Inheritance of Man (OMIM). ... Gene Naming Guidelines. Transgene Naming Guidelines. Submitting Data to Xenbase. Xenbase Data Statistics. Xenbase Version ...
http://www.xenbase.org/entry/doNewsRead.do?id=159
*  Caltech researchers help unlock the secrets of gene regulatory networks
... the study of gene regulatory networks," says Davidson. Gene regulatory networks are the complex networks of gene interactions ... DNA sequence »Genetics »Genomics »T cells »embryonic cells »fruit flies »gene regulator »gene regulatory networks »immune ... gene regulatory networks , immune system cells , lampreys , nervous system , postembryonic gene , sea urchins , soil-dwelling ... "These networks lie at the heart of the regulatory apparatus, and they consist of genes that encode proteins that regulate other ...
http://www.innovations-report.com/html/reports/life-sciences/caltech-researchers-unlock-secrets-gene-regulatory-126718.html
*  Construction of Gene Regulatory Networks Using Recurrent Neural Networks and Swarm Intelligence
... Abhinandan Khan,1 Sudip Mandal ... "Construction of Gene Regulatory Networks Using Recurrent Neural Networks and Swarm Intelligence," Scientifica, vol. 2016, ...
https://www.hindawi.com/journals/scientifica/2016/1060843/cta/
*  Gene Regulatory Networks | Harvard Catalyst Profiles | Harvard Catalyst
"Gene Regulatory Networks" by people in Harvard Catalyst Profiles by year, and whether "Gene Regulatory Networks" was a major or ... "Gene Regulatory Networks" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus, MeSH (Medical ... Gene Regulatory Networks*Gene Regulatory Networks. *Gene Regulatory Network. *Network, Gene Regulatory ... Below are the most recent publications written about "Gene Regulatory Networks" by people in Profiles. ...
https://connects.catalyst.harvard.edu/Profiles/display/Concept/Gene%20Regulatory%20Networks
*  Frontiers | Robustness and Accuracy in Sea Urchin Developmental Gene Regulatory Networks | Genetics
I propose that this direct activation of a set of regulatory genes enables a uniform regulatory response and a clear cut cell ... I propose that this direct activation of a set of regulatory genes enables a uniform regulatory response and a clear cut cell ... Here I illustrate how the use of specific architectures by the sea urchin developmental regulatory networks enables the robust ... Here I illustrate how the use of specific architectures by the sea urchin developmental regulatory networks enables the robust ...
https://www.frontiersin.org/articles/10.3389/fgene.2016.00016/full
*  Gene Regulatory Networks: Methods and Protocols, Book by Bart Deplancke (Hardcover) | chapters.indigo.ca
Buy the Hardcover Book Gene Regulatory Networks by Bart Deplancke at Indigo.ca, Canada's largest bookstore. + Get Free Shipping ... Gene regulatory networks play a vital role in organismal development and function by controlling gene expression. With the ... Gene Regulatory Networks: Methods and Protocols. EditorBart Deplancke, Nele Gheldof. Hardcover , September 22, 2011. ... Title:Gene Regulatory Networks: Methods and ProtocolsFormat:HardcoverDimensions:457 pagesPublished:September 22, 2011Publisher: ...
https://www.chapters.indigo.ca/en-ca/books/gene-regulatory-networks-methods-and/9781617792915-item.html
*  Charting gene regulatory networks: strategies, challenges and perspectives | Biochemical Journal
Charting gene regulatory networks: strategies, challenges and perspectives. Gong-Hong WEI, De-Pei LIU, Chih-Chuan LIANG ... Charting gene regulatory networks: strategies, challenges and perspectives Message Subject (Your Name) has forwarded a page to ... One of the foremost challenges in the post-genomic era will be to chart the gene regulatory networks of cells, including ... Abbreviations: ChIP-chip, chromatin immunoprecipitation-DNA microarray; FFL, feed-forward loop; GRN, gene regulatory network; ...
http://www.biochemj.org/content/381/1/1
*  Gene regulatory network - Wikipedia
These molecules and their interactions comprise a gene regulatory network. A typical gene regulatory network looks something ... Other work has focused on predicting the gene expression levels in a gene regulatory network. The approaches used to model gene ... Thus gene regulatory networks approximate a hierarchical scale free network topology. This is consistent with the view that ... Another widely cited characteristic of gene regulatory network is their abundance of certain repetitive sub-networks known as ...
https://en.wikipedia.org/wiki/Gene_regulatory_network
*  CISUC - HeRoN: a computational model of gene regulatory networks
HeRoN: a computational model of gene regulatory networks. Authors. Angela Goncalves. Ernesto Costa. ... This new model is based on an artificial genome from which several products, genes, mRNA, miRNA, non-coding RNA, and proteins ... The dynamics of the networks are studied and some considerations about the biological meaning are made.. Keywords. Genetic ... In this paper a new model for Genetic Regulation Networks, with more biochemical details than previous models, is proposed. ...
https://www.cisuc.uc.pt/publication/show/1536
*  Validation of Inference Procedures for Gene Regulatory Networks | BenthamScience
Validation of Inference Procedures for Gene Regulatory Networks. Author(s): Edward R. Dougherty. Department of Electrical and ... Keywords:Epistemology, gene network, inference, validation. Abstract: The availability of high-throughput genomic data has ... of high-throughput genomic data has motivated the development of numerous algorithms to infer gene regulatory networks. The ... motivated the development of numerous algorithms to infer gene regulatory networks. The validity of an inference procedure must ...
http://www.eurekaselect.com/66247/article
*  British Library EThOS: Stochastic modeling and inference of large-scale gene regulatory networks
Gene regulatory networks (GRNs) consist of thousands of genes and proteins which are dynamically interacting with each other. ... This large number of genes also causes difficulties such as dimensionality problem in estimating their regulatory structure. ... Once these regulatory structures are revealed, it is necessary to understand their dynamical behaviors since pathway activities ... Therefore, both the regulatory structure estimation and dynamics modeling of GRNs are essential for biological research. ...
http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.560748
*  PAGeneRN: Parallel Architecture for Gene Regulatory Network: Computer Science & IT Book Chapter | IGI Global
The gene expression data analysis aims to understand the genes interacting ... The gene expression analysis is an important research area of Bioinformatics. ... Parallel Architecture for Gene Regulatory Network: 10.4018/978-1-5225-2229-4.ch034: ... The Gene regulatory network analysis is one of the gene expression data analysis tasks. Gene regulatory network aims to study ...
https://www.igi-global.com/chapter/pagenern/180972
*  Frontiers | An Organismal Model for Gene Regulatory Networks in the Gut-Associated Immune Response | Immunology
A gene regulatory network (GRN) approach provides a means to investigate the nature of this conservation and divergence even ... This model provides a morphologically simple system in which to efficiently unravel regulatory connections in an organism that ... This model provides a morphologically simple system in which to efficiently unravel regulatory connections in an organism that ... To experimentally access this regulatory circuitry, we have developed an organism-wide model of gut-associated bacterial ...
https://www.frontiersin.org/articles/10.3389/fimmu.2017.01297/full
*  Physics Seminar: Memory functions reveal structural properties of gene regulatory networks
Gene regulatory networks (GRNs) control cellular function and decision making during tissue development and homeostasis. ... Physics Seminar: Memory functions reveal structural properties of gene regulatory networks. Partager cet événement : ... Gene regulatory networks (GRNs) control cellular function and decision making during tissue development and homeostasis. ... Memory functions reveal structural properties of gene regulatory networks ...
https://wwwfr.uni.lu/index.php/fstc/actualites/physics_seminar_memory_functions_reveal_structural_properties_of_gene_regulatory_networks
*  Molecules | Free Full-Text | Effects of Time Point Measurement on the Reconstruction of Gene Regulatory Networks
... reconstruction of gene regulatory networks has become a hot topic. Regulatory networks have been intensively studied over the ... In this paper we apply the Dynamic Bayesian network (DBN) to construct the Arabidopsis gene regulatory networks by analyzing ... Then the gene regulatory networks constructed based on complete and incomplete data series are compared in terms of statistics ... Two time points are found to play a significant role in the Arabidopsis gene regulatory networks. Pathway analysis of ...
http://www.mdpi.com/1420-3049/15/8/5354