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The bioinformatics in Vietnamese academic education. Software resources, reliability and development

Leluk J.

Bio-Algorithms and Med-Systems

2010

Vol. 6, no. 12

99--104

Since 2005 the education program at bioinformatics an molecular modeling is being developed in Vietnam national universities with the cooperation of the University of Zielona Góra (Poland). This program requires good support concerning the biological databases and bioinformatics software. A number of good quality and comprehensive genomic an protein sequence databases and protein structure database are freely accessible online for academic use and scientific research. Also there are accessible the specialized genomic databases kindly provided by Human Genome Center at Tokyo University. Similar situation concerns the bioinformatics software. However the quality and reliability of the accessible software is not always very good. Therefore the Polish group cooperating with the Vietnam National University has elaborated and supplied the academic community in Vietnam with the new and original applications. They replenish the current needs of the users studying bioinformatics and raise the quality of the obtained results. The original applications which enrich the VNU bioinformastics resources (an are solely available only in bioinformatics centers in Hanoi and Poland) are: GEISHA - a nonstatistic application for sequence multiple alignment based on genetic semihomology algorithm. Corm - application for locating and analysing the intramolecular correlated mutations. Consensus Constructor - program for consensus sequence construction. SSSS - program for sequence similarity significance estimation. Talana - protein variability/conservativity analyzer and visualiser. Nitano - detection of intra- and intermolecular residue colocations, protein contact map creator. Keram - program to detect and analyze correlated mutations.v Retamgar - calculator of 2D, 3D, 4D points distance within a protein molecule. Cylanu - PDB file modifier. SecMaker - random protein sequence generator. Byrnik - program for sequence comparison. MMCC - molecule mass centre calculator. Hypro - protein hydrophobicity profiler. These resources contributed in the formation of the first academic Bioinformatics Center in this region of Asia, located at Hanoi University of Science. Within two last years the cooperation has been developed and extended by the long term study program for Vinh University students at University of Zielona Góra. At present two other universities joined the cooperation - Hanoi University of Agriculture and International University of HCMC. In all cases the bioinformatics and molecular modeling play the leading role in both educational and scientific activity.