Gene network
Floral morphogenesis: stochastic explorations of a gene network epigenetic landscape.
... and gene network underlying primordial floral organ cell-fate determination in Arabidopsis thaliana ...observed gene activation configurations of each one of these regions are mimicked by the I1, I2, ...
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Gene-network analysis identifies susceptibility genes related to glycobiology in autism.
... functional gene-networks from the genes residing in these ...reconstructed gene-network, Prioritizer, to rank candidate genes in the segmental gains and losses in our autism ...LARGE gene was ...
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Ensemble-based network aggregation improves the accuracy of gene network reconstruction.
... a network with an AUC of 0.655, larger than the AUC of any network produced by any of the datasets ...231-gene network with a noise value of ...reconstructed network, measured by the ...
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Inferring the gene network underlying the branching of tomato inflorescence.
... The branching behavior of a tomato (Solanum lycopersicum) inflorescence is an important trait for tomato growers and breeders. Depending on the breeding goal, one wants trusses that show no branching at all, a very high ...
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Alcohol-induced histone acetylation reveals a gene network involved in alcohol tolerance.
... analysis. Gene-Expression Cluster #4 contained the slo gene, which has previously been shown to play a role in the production of ethanol ...the Gene- Expression Clusters represent co-regulated genes ...
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MicroRNA-gene expression network in murine liver during Schistosoma japonicum infection.
... Expressional alterations of hepatic miRNAs have been shown to regulate cellular processes such as liver carcinogenesis and fibrosis [26,27]. Here, the host miRNA responses in murine liver during the progression of S. ...
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Inferring gene-phenotype associations via global protein complex network propagation.
... infer gene-phenotype associations by computing the closeness between the candidate genes and known disease genes based on network topological properties ...and gene closeness in the PPI ...
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Unbiased functional clustering of gene variants with a phenotypic-linkage network.
... combined network is expected to improve the accuracy of links and thus, in addition to considering individual data types, we also built an integrated gene network ...the gene pairs were ...
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Assessment of network inference methods: how to cope with an underdetermined problem.
... 10-gene network subchallenge, the second best team in the new ranking was previously ranked 6-th, and the 7-th and 9-th best teams in the original ranking were now among the worst performers (20-th and ...
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A gene regulatory network for root epidermis cell differentiation in Arabidopsis.
... bHLH gene subfamilies that are not represented on the ATH1 microarray chip might also be involved in root epidermis ...bHLH gene not represented on the ATH1 chip, AT5G37800 (also known as RSL1 and bHLH86; ...
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Quantitative dynamic modelling of the gene regulatory network controlling adipogenesis.
... the gene expressions with the presence of stimuli, cAMP and GR signalings were added to the gene regulatory network at preadipocyte (day 0 for both human and mouse) and withdrawn at immature ...
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Integrative microRNA-gene expression network analysis in genetic hypercalciuric stone-forming rat kidney
... 700 gene ontology (GO) terms and 83 KEGG pathways that were significantly enriched in GHS ...miRNA-gene network that suggested that rno-miR-674-5p, rno- miR-672-5p, rno-miR-138-5p and rno-miR-21-3p ...
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Integrative Analysis of the Developing Postnatal Mouse Heart Transcriptome.
... containing gene identifiers (ID), their corresponding fold change and ...each network via enrichment scores, highlighting the biological significance of the ...
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Evaluation of gene association methods for coexpression network construction and biological knowledge discovery.
... the gene expression values generally vary from 3 to ...coexpression gene list resulting from coexpression analysis, and a large cluster size resulting from triple- link ...
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Some methods for sensitivity analysis of systems / networks
... Sensitivity analysis explores the relationships of, e.g., structure vs. stability, input vs. output, of various systems. It helps us understand the structural properties, dynamic mechanisms, key components (or nodes, ...
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A modularity-based method reveals mixed modules from chemical-gene heterogeneous network.
... molecular network is essential to uncover its specific mode of action from a holistic ...heterogeneous network (2-HN), which typically includes chemical similarities, chemical-target interactions and ...
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Major transcriptome reprogramming underlies floral mimicry induced by the rust fungus Puccinia monoica in Boechera stricta.
... stricta gene expression upon ...relative gene expression levels we used Rank Products (RP) protocols ...of Gene Ontology terms describing Biological Processes (GOBP) using BiNGO in Cytoscape on these ...
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A network-based gene expression signature informs prognosis and treatment for colorectal cancer patients.
... interaction network. Therefore, we used a network-based approach to integrate these signatures on the protein-protein interaction network in an attempt to identify genes of potential mechanistic ...
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The Vein Patterning 1 (VEP1) gene family laterally spread through an ecological network.
... Figure 2 shows the VEP1 ML gene tree. The tree incorporates all detected prokaryotic sequences to the species level, the only two Trebouxiophyceae BLASTp/tBLASTn positives, five representa- tive least-redundant ...
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uPATO Mobile - Network Module
... devices. Here we introduce the mobile client and its main characteristics. To use the uPATO tool the user must register first. It requires that the user defines a name, username, email, and password. Also, the user must ...
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