Gene Regulatory Network Analysis

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In the Molecular Communication (MC), molecules are utilized to encode, transmit, and receive information. Transmission of the information is achieved by means of diffusion of molecules and the information is recovered based on the molecule concentration variations at the receiver location. The MC is very prone to inte…

• ÖZGÜR BARIŞ AKAN

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Cells rely on the precise action of proteins that detect and repair DNA damage. However, gene expression noise causes fluctuations in protein abundances that may compromise repair. For the Ada protein in Escherichia coli, which induces its own expression upon repairing DNA alkylation damage, we found that undamaged ce…

Bio-inspired networking techniques have been investigated since more than a decade. Findings in this field have fostered new developments in networking, especially in the most challenging domains such as handling large-scale networks, their dynamic nature, resource constraints, heterogeneity, unattended operation, and…

• ÖZGÜR BARIŞ AKAN

We present an experimental and computational pipeline for the generation of kinetic models of metabolism, and demonstrate its application to glycolysis in Saccharomyces cerevisiae. Starting from an approximate mathematical model, we employ a "cycle of knowledge" strategy, identifying the steps with most control over f…

• PINAR PİR

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• ÖZGÜR BARIŞ AKAN