Linear Error Correcting Codes for Modeling the Ribosome and Proteins - PowerPoint PPT Presentation

Linear Error Correcting Codes for Modeling the Ribosome and Proteins Mario Enrique Duarte Gonz´ alez Advisor: Prof. Reginaldo Palazzo Jr. State University of Campinas - UNICAMP FEEC - Communications Department January 19-30, 2015 Mario Enrique Duarte Gonz´ alez 2015 SP Coding and Information School

Analogy: Ribosome and Communication system Biological system transmits information Source Source (DNA and Proteins). Proteins are used for Channel encoder Channel encoder m RNA m RNA every process inside N ={A,C,G,U} N ={A,C,G,U} . . . . . . cells. C A U A U C C A U A U C G U A G U A Codon 1 Codon 1 Codon 2 Codon 2 Codon n p Codon n p Goals: Ribosome | Modulator Ribosome | Modulator Translation Translation GC : GC : Protein Protein “Genetic Code” | “Signal Constellation” “Genetic Code” | “Signal Constellation” Model Ribosome 1 N x N x N → A N x N x N → A A ={Amino Acids} A ={Amino Acids} # A = 20 # A = 20 . . . . . . Represent Proteins 2 H I D H I D V V Histidine, Isoleucine, ..., Valine Histidine, Isoleucine, ..., Valine This model was Channel Channel introduced by: (Rocha, 2010) and (Faria, 2011). Mario Enrique Duarte Gonz´ alez 2015 SP Coding and Information School

Strategy for Modeling the Ribosome and Proteins Our Strategy: Source Source Design LECC’s that 1 represent nucleotide Channel encoder Channel encoder chains and their LECC m RNA m RNA (over Z 4 or F 4 ) translated proteins Over: N ={A,C,G,U} N ={A,C,G,U} . . . . . . Z 20 for deducing C A U A U C C A U A U C G U A G U A F 4 xZ 5 Codon n p Codon n p Codon 1 Codon 1 Codon 2 Codon 2 information about Ribosome | Modulator Ribosome | Modulator ribosomes. Protein Protein “Genetic Code” | “Signal Constellation” “Genetic Code” | “Signal Constellation” A ={Amino Acids} A ={Amino Acids} Relate properties of 2 # A = 20 # A = 20 . . . . . . H I D H I D V V proteins and Histidine, Isoleucine, ..., Valine Histidine, Isoleucine, ..., Valine concepts of coding Channel Channel theory. Mario Enrique Duarte Gonz´ alez 2015 SP Coding and Information School

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