A Model of Genetic Networks with Delayed Stochastic Dynamics

Ribeiro, Alexandra B.

doi:10.1002/9783527622818.ch7

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Mathematical Modeling Perspective1

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2014

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“…Over the last years, many different models have been introduced to model the transcription regulation of genes (Gardner and Faith, 2005 ; Karlebach and Shamir, 2008 ; Ribeiro, 2008 ). These models vary on, e.g., the level of their detail complexity, the closeness to biological reality or the time complexity of the simulations.…”

Section: Mathematical Modeling Perspectivementioning

confidence: 99%

Untangling statistical and biological models to understand network inference: the need for a genomics network ontology

Emmert‐Streib¹,

Dehmer²,

Haibe‐Kains³

2014

Front. Genet.

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In this paper, we shed light on approaches that are currently used to infer networks from gene expression data with respect to their biological meaning. As we will show, the biological interpretation of these networks depends on the chosen theoretical perspective. For this reason, we distinguish a statistical perspective from a mathematical modeling perspective and elaborate their differences and implications. Our results indicate the imperative need for a genomic network ontology in order to avoid increasing confusion about the biological interpretation of inferred networks, which can be even enhanced by approaches that integrate multiple data sets, respectively, data types.

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Section: Mathematical Modeling Perspectivementioning

confidence: 99%