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Information content based model for the topological properties of the gene regulatory network of Escherichia coli
Berkin Malkoc, Duygu Balcan, Ayse Erzan
Gene regulatory networks (GRN) are being studied with increasingly precise quantitative tools and can provide a testing ground for ideas regarding the emergence and evolution of co…
Spontaneous Self-Assembly of Transcription Factor Based Gene Regulation Networks
Duygu Balcan, Alkan Kabakcioglu, Muhittin Mungan +1
We model the transcription factor based regulation network of yeast using a content-based network model that mimicks the recognition of binding motifs on the regulatory regions of…
Analytical Solution of a Stochastic Content Based Network Model
Muhittin Mungan, Alkan Kabakcioglu, Duygu Balcan +1
We define and completely solve a content-based directed network whose nodes consist of random words and an adjacency rule involving perfect or approximate matches, for an alphabet…