Preliminary Study On The Method To Construct Local Gene Network For Complex Biological Phenotypes

The purpose of the study was to set up a protocol to construct the local gene network pattern of several complex biological phenotypes,and analyze the molecular mechanism of complex biological phenotypes by using the LGNPs.Hypertension,longevity and maintenance or transformation of embryonic stem cell were selected for studying the molecular mechanism of the three complex biological phenotypes.We collected lots of gene-related information such as signaling pathway from biological databases by the internet in the way of the bioinformatics methods.KGML Editor gene network diagrams from KEGG database and the software Osprey visualizing the network between gene and protein were employed in this study.The Local gene network pattern of the four complex biological traits were successfully constructed through analyzing the relevance among the susceptibility genes.Five conclusions were obtained:Firstly the local gene network patterns of hypertension included 22 signal transduction pathways,and 15 genes.We set up a hypertension genes network through selecting connections of the 64 kinds of the LGNPs.This network contained 47 genes,9 signal pathways,four of which control the Polysaccharide metabolism,glucose metabolism and fatty acid metabolism.Secondly there are fifteen genes changed significantly in microarray expression.The gene expression level of LEPR,PLC,NCX increased and the gene expression level of GLUT1,VEGF,GPCR,GS,PKG,RAP1A,AKT,PRKAR2B,ADA,AMPK,AGT,GUCY went down in microarray.The new sensitive gene of complex biological phenotype could be predicted by the application of gene chip technology.Thirdly the local gene network of human longevity contained 19 signaling pathways, 17 genes and the two compounds.We set up the LGN through selecting connections of the two to the power of twenty-three(2²³) kinds of the LGNPs.Fourthly the LGN of the worm longevity contained 6 signaling pathways,38 genes,of which 24 genes were already reported as nematode longevity genes.The gene expression levels of six genes age-1,cyc-1,aak-2,let-363,cst-1/MST and akt-1 went down in the consumption of low-fat and low-protein culture medium.Fifthly the LGN of embryonic stem cell contained 23 proteins and 20 genes.The gene expression levels of the two genes SOX2 and OCT-4 increased and the gene expression levels of IGF-2 and OCT-4 decreased in the microarray data.