Gene Regulatory Networks
Harnessing diversity towards the reconstructing of large scale gene regulatory networks.
... Elucidating gene regulatory networks is crucial to under- stand disease mechanisms at the system ...infer gene regulatory networks from gene-expression ...among ...
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Influence of the experimental design of gene expression studies on the inference of gene regulatory networks: environmental factors
... infer gene regulatory networks from expression data is very challenging and depends on (A) the time point when data are measured, (B) the kind of the external stimulation and (C) the ...
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Inference of gene regulatory networks with sparse structural equation models exploiting genetic perturbations.
... intricate networks [1]. Deciphering the structure of gene regulatory networks is crucial for understanding gene functions and cellular dynamics, as well as for system-level modeling of ...
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GRNsight: a web application and service for visualizing models of small- to medium-scale gene regulatory networks
... of gene regulatory networks (GRNs). A gene regulatory network (GRN) consists of genes, transcription factors, and the regulatory connections between them which govern the level ...
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Mutational robustness of gene regulatory networks.
... simulate gene regulatory networks, systems of ordinary differential equations (ODEs) were used, which describe TF-TF dimerization and TF-target gene regulation (via Hill ...the ...
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Evolution of gene regulatory networks by fluctuating selection and intrinsic constraints.
... Our results showed that the evolution of GRNs could occur when the effects of evolvability are absent (Fig. S2 and S3). The level of evolvability appeared to saturate at relatively small numbers of core genes ( ,10 or ...
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Genome-wide identification of regulatory elements and reconstruction of gene regulatory networks of the green alga Chlamydomonas reinhardtii under carbon deprivation.
... For the genome-wide identification of nucleosome-depleted regions and putative regulatory elements of C. reinhardtii, DNA fragments present in the FAIRE samples were sequenced by deep sequencing technology. So ...
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A relative variation-based method to unraveling gene regulatory networks.
... of gene expression level is adopted in measuring possibilities of the existence of a direct regulation between two different genes of a ...a gene is estimated using experimental data before and after ...
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Automated Identification of Core Regulatory Genes in Human Gene Regulatory Networks.
... a gene does not necessarily translate to a functional interaction between the TF and the target ...explain gene expression with up to 70% accuracy (MCC = ...
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Studying Dynamic Features in Myocardial Infarction Progression by Integrating miRNA-Transcription Factor Co-Regulatory Networks and Time-Series RNA Expression Data from Peripheral Blood Mononuclear Cells.
... complex regulatory interactions underlying diseases [12, 13]. Gene regulatory networks control gene expression and protein formation, and therefore influence the cell ...in gene ...
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ZNF675 evolutionary history and its novel role in neuronal regulatory networks
... in regulatory regions, they can change their expression levels, thus altering the network on which that gene acts on (Ayarpadikannan & Kim, ...of gene regulatory networks over ...
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A gene regulatory network for root epidermis cell differentiation in Arabidopsis.
... of gene regulatory ...our gene set to help ensure the included genes are involved in root epidermis cell ...the gene from the ATH1 gene ...
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Regulatory networks controlling nitrogen sensing and uptake in Candida albicans.
... specific gene regulatory networks from a broader selection of networks has clear ...Thus, networks which can flexibly alter their internal connections enable an adapted rather than a ...
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Quantitative dynamic modelling of the gene regulatory network controlling adipogenesis.
... Gene regulatory networks (GRNs) coherently coordinate the expressions of genes and control the behaviors of cellular ...nonlinear regulatory relationships. The algorithm utilizes gene ...
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Contribution of Panton-Valentine leukocidin in community-associated methicillin-resistant Staphylococcus aureus pathogenesis.
... global gene regulatory networks and contributes to pathogenesis of bacteremia, a hallmark feature of invasive staphylococcal ...alter gene or protein expression, thereby demonstrating that any ...
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A plasmid-based Escherichia coli gene expression system with cell-to-cell variation below the extrinsic noise limit
... prokaryotic gene regulatory networks ...reduce gene expression noise in Escheri- chia coli [6,7], which was suggested to result from dosage compensation for plasmid copy number ...the ...
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Evolution, interactions, and biological networks.
... of networks has expanded rapidly over the last 10 years; networks are now widely recognized not only as outcomes of complex interactions, but as key determinants of structure, function, and dynamics in ...
3
NIMEFI: gene regulatory network inference using multiple ensemble feature importance algorithms.
... of gene regulatory networks from high-throughput omics ...using gene expression ...each gene in the network in which the expression values of a particular target gene are ...
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Using regulatory and epistatic networks to extend the findings of a genome scan: identifying the gene drivers of pigmentation in merino sheep.
... the regulatory and epistatic ...the regulatory network into the intersecting genes (MZF1, TEF and SMAD4) while an additional two Figure ...2. Gene expression relating to ...differential gene ...
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A parallel attractor-finding algorithm based on Boolean satisfiability for genetic regulatory networks.
... genetic regulatory network are modeled as a set of functions of the Boolean network, while the state transitions in the Boolean network reflect the dynamic property of a genetic regulatory ...genetic ...
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