Epidemiologic and genotypic information on influenza is difficult to obtain for developing countries, unless it is in the context of international programmes or collaborations. This data is important for tracking cases during pandemics like the 2009 A(H1N1) influenza outbreak. We sought to sequence novel A(H1N1); and design a prototype national web-based interactive genome library for surveillance, genotyping, and drug-resistance monitoring of influenza in the Philippines.