| We introduce the construction of a Bioinformatics analysis platform based on Linux operation system and Web interfaces. This system includes three functional modules: BLAST, InterProScan and Jemboss. They are responsible for sequence similarity query in nucleotide and protein databases, analysis or prediction of protein structural domains and functional sites, and comprehensive bioinformatics analysis of biological sequence respectively. This platform has the advantages with its low-cost, powerful functions, high confidentiality, and strong expasibility, and can meet the needs of most laboratories on routine bioinformatics analysis. Objective to explore the differently expressed genes in tumor between in situ and metastasis, and perform an initial bioinformatics analysis on a novel gene, SFT2D1, which is highly expressed in hepatic metastasis.Method The mRNA of the tissues from the in situ site and hepatic metastasis are respectively marked with Cy3-dUTP and Cy5-dUTP and hybridized with expression profile microarray, and the differently expressed genes are obtained. Initial bioinformatics analysis is performed on a novel gene named SFT2D1 which have no functional researches at present. Its gene structure, genome localization, the physical and chemical characteristics of the putative protein, subcellular localization, functional domain and so on are delineated, and the systematic evolution analysis is performed on the similar proteins of several species.Result Using expression profile microarray, many differently expressed genes are uncovered. Efficient bioinformatics analysis have fundamentally identified that SFT2D1 protein is a trans-membrane protein located on endoplasmic reticulum, and may involved in the synthesis and processing of metastasis related proteins.Conclusion Microarray is an efficient and high-throughout strategy for the detection of differently expressed genes. And SFT2D1 is thought to be a potential target for tumor metastasis researches by bioinformatics analysis. |
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