PHYLOGENETIC ANALYSIS OF GENES AND PROTEINS OF ALZHEIMER & PARKINSON'S

Abstract

In this work, we have done the phylogenetic analysis of Alzheimer disease (AD) & Parkinson’s (PD) as well as genomic and proteomic study of genes and proteins of these diseases, and finally designed the siRNA target for each individual genes. We selected the four genes are APOE, APP, PSEN1 and PSEN2 of AD, and four genes of the PD these are SYNUCLIEN, PARK2, PARK, PARK7. We used various kinds of software tools and Databases. For genes and proteins sequence retrieval from NCBI database, phylogenetic relationship establishment by MUSCLE, T-COFFEE, CLUSTALW2 and BLAST distance tree. These tools helped us to select significant homo loges Pan Troglodytes,Musmusculus, Macacamulatta, Bos Taurus, RattusNorvegicus, and canis lupus, their gene and protein sequences for further analysis process .We have calculated the different types of physical and chemical properties of genes and proteins using Motif Search, Oligonulceotidecalculator, Sequence Manipulation Suite. We used some software tools for detailed analysis of genes like FTGpred server and EGpred , FTGPred server for analyzing nucleotide sequence to predict the gens using Fourier transform Technique. EGPred is a Web-based server that combines abinitio methods and similarity searches to predict genes, particularly exon regions, with high accuracy. For detailed analysis protein sequence we used TOP Pred and DASTrans membrane server, these software tools gave graphical view of the protein sequence, which helped to find the trans membrane region in protein and topology of protein. Finally we designed the siRNA target of these genes for therapeutic purposes, which is significant in treating genetically inherit neurological disorders, several knockdown studies,finding in new therapeutic agents for new drug discoveries and many medical applications.