DNA-shape Features in Families of DNA-protein Complexes

Student: Scherbakov Aleksandr

Educational Programme: Data Analysis for Biology and Medicine (Master)

Year of Graduation: 2019

DNA-shape parameters provide additional capabilities for DNA-binding protein studies. In this paper we made an attempt to solve protein family (PFAM) classification problem for DNA-binding proteins. We analyzed 10 different protein families of transcription factors with 285 structures from 115 different domains. After the extraction of DNA-shape parameters data we calculated statistics, clustered and visualized our data using bash scripts and R programming language. As a result, we made a conclusion about applicability of DNA-shape parameters for solving classification problem for DNA-binding proteins.

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