European Union support for Lithuania undoubtedly makes a positive impact on economic growth and it structure. But there is even more important that a considerable funds flowing to different regions of Lithuania, and are focused to their economic development, the promotion of cohesion and human resources development. From the beginning of Lithuania’s independence the territorial differences of regional development began to emerge, which progressively deepened over time. These differences affected the sector of human resources: the economic activity of the population, education, knowledge, skills and other areas.The development of human resources is one of the objectives of European Union’s regional policy. Therefore, the aim of the study – to analyze the changes in use of European Union funds in Lithuania’ municipalities over the 2007–2013 period.