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Analytical study of the impact of Federal target programs (FTP) implementation with involvement of master's program students for the purpose of obtaining practical skills, identifying and developing organizational skills, increasing motivation to the educational process and competitiveness in the labor market. The result of a parallel implementation of the Federal program and training of students in the master's program has significantly improved the performance of students. The average point increased from 4.23 in 2014 to 4.55 in 2015. The publication activity increased by 64%, the number of conferences with participation of students in the master's program increased by 75%. The growth of these criteria is caused by a large number of experiments carried out, analytical review, the practical relevance of the studied material and level of motivation due to payments to students from the Federal program funds.