| Since | Till | Name | Coordinator | Contract No. | Programme |
| 2011 | 2015 | VECTORS - vectors of Change in Oceans and Seas Marine Life, Impact on Economic Sectors | S. Olenin | 266445 | 7th FWP (Seventh Framework Programme) |
| 2010 | 2015 | DENOFLIT - Inventory of marine species and habitats for development of Natura 2000 network in the offshore waters of Lithuania | D. Daunys | LIFE09 NAT/LT/000234 | LIFE+ Nature & Biodiversity |
| 2010 | 2013 | SAMBAH - Static Acoustic Monitoring of the Baltic Sea Harbour Porpoise | D. Daunys | LIFE08 NAT/S/000261 | LIFE |
| 2010 | 2013 | MOMENTUP - Modern Water Management in the South Baltic Area upgrade project | N. Blažauskas | WTPB.02.01.00-94-013/10( 410-1 pad.) | Interreg South Baltic Program |
| 2010 | 2013 | Submariner - Sustainable Uses of Baltic Marine Resources | D. Ambrazaitienė | Interreg IVB - BSR Programme | |
| 2010 | 2013 | ARTWEI - Action for the Reinforcement of the Transitional Waters' Environmental Integrity | A. Razinkovas | WTPB.02.01.00-72-009/09 | Interreg South Baltic Program |
| 2010 | 2013 | WEBLAB - South Baltic WebLab - a virtual laboratory on marine science | A. Razinkovas | WTPB.01.02.00-56-006/09 | Interreg South Baltic Program |
| 2010 | 2012 | SB OFFER South Baltic Offer South Baltic Offshore Wind Energy Regions | N. Blažauskas | WTPB.02.02.00-56-004/09 | |
| 2010 | 2012 | SEANERGY 2020 - Delivering Offshore Electricity to the EU: spatial planning for offshore renewable energies and electricity grid insfrastructures in an integrated EU Maritime Policy | N. Blažauskas | IEE/09/898/SI2.558294 | Intelegent Eneregy Europe |
| 2009 | 2012 | MOMENT - Modern Water Management in the South Baltic Sea Area | N. Blažauskas | WSTPB 02.01.00-94-001/09 | Interreg South Baltic Program |
| 2009 | 2012 | SMOCS - Sustainable Management of Contaminated Sediments in the Baltic Sea | N. Blažauskas | 2024 | Interreg BSR Program |
| 2009 | 2011 | AMBER - Assessment and Modelling of Baltic Ecosystem Response | A. Razinkovas | Nr. 31V-1 | BONUS ERA-NET PLUS |
| 2009 | 2011 | PREHAB - Spatial prediction of benthic habitats in the Baltic Sea: incorporating anthropogenic pressures and economic evaluation | S. Olenin | BONUS-163 | BONUS ERA-NET PLUS |
| 2008 | 2012 | BRISK - Sub-regional risk of spill of oil and hazardous substances in the Baltic Sea | N. Blažauskas | #014 | Interreg BSR Programme |
| 2008 | 2011 | BaltSeaPlan - Introducing Maritime Spatial Planning in the Baltic Sea | N. Blažauskas | #016 | Interreg BSR Programme |
| 2008 | 2011 | Baltic Green Belt - Baltic Green Belt project for a living and sustainable Baltic coast | N. Blažauskas | #017 | Interreg BSR Programme |
| 2008 | 2011 | GRaBS - Green and Blue space adaptation for urban areas and eco towns | N. Blažauskas | 0108R1 | Interreg IV C |
| 2008 | 2012 | MEECE - Marine Ecosystem Evolution in a Changing Environment | S. Olenin | 212085 | EU FP-7 |
| 2008 | 2011 | EEE - A system for the sustainable management of Lithuanian marine resources using novel surveillance, modeling tools and an ecosystem approach | D. Daunys | LT0047 | Norway Grants and Republic of Lithuania |
| 2007 | 2010 | MOPODECO - MOdelling of the POtential coverage of habitat-forming species and DEvelopment of tools to evaluate the COnservation status of the marine Annex I habitats | D. Daunys | Nordic Council of Ministers | |
| 2006 | 2008 | IMPASSE Environmental impacts of invasive alien specines in aquaculture | S. Olenin | 044142 | EU FP-6 |
| 2004 | 2007 | Population Biology and trophic function of the shrimp species Crangon allmanni in the White Sea and the southern North Sea | S. Olenin | 03-51-5458 | EU FP6 INCO |
| 2004 | 2007 | BONUS for the Baltic Sea Science-Network of Funding Agencies | A. Razinkovas | EU FP-6 | |
| 2004 | 2007 | BSRP Baltic Sea Region Project | A. Razinkovas | GEF | |
| 2004 | 2007 | WATERSKETCH Strategies for a Sustainable River Basin Management | A. Razinkovas | N63 | Interreg IIIA |
| 2006 | 2007 | SDI-4-SEB - Sustainable Development Indicators for ICZM in the South-Eastern Baltic | N. Blažauskas | 2006/291 | Interreg IIIA |
| 2006 | 2007 | POWER - Perspectives of Offshore Wind Energy development in marine areas of Lithuania, Poland and Russia | N. Blažauskas | 2005/214 | Interreg IIIA |
| 2005 | 2008 | BALANCE (Baltic Sea management - Nature Conservation and sustainable development of the marine ecosystem through spatial planning) | S. Olenin | Interreg IIIA | |
| 2005 | 2009 | BALTIC MPA's (Marine Protected Areas in the Eastern Baltic Sea) | S. Olenin | LIFE 05 NAT/LV/000100 | EU LIFE |
| 2004 | 2009 | ALARM (Assessing Large-scale environmental risks with tested methods) | S. Olenin | GOCE-CT-2003-506675 | EU FP-6 |
| 2004 | 2009 | ELME (European Lifestyles and Marine Ecosystems) | S. Olenin | GOCE-CT-2003-505576 | EU FP-6 |
| 2004 | 2009 | MARBEF (Marine Biodiversity and Ecosystem Functioning) | A. Razinkovas | GOCE-CT-2003-505446 | EU FP-6 |
| 2003 | 2006 | COLAR (Coastal and Lagoon resource centre) | A. Razinkovas | EVK3-CT-2002-80007 | EU FP-6 |
| 2004 | 2007 | DAISIE (Delivering Alien Invasive Species Inventories for Europe) | S. Olenin | 511202 | EU FP-6 |
| 2002 | 2005 | CHARM (Characterisation of the Baltic Sea Ecosystem: Dynamics and Function of Coastal Types) | A. Razinkovas | EVK3-CT-2001-00065 | EU FP-6 |
| 2002 | 2005 | BIOFLOW (Flume Facility Co-operation Network for Biological Benthic Boundary Layer Research) | A. Razinkovas | EVR1-CT-2001-20008 | EU FP-6 |
| 2001 | 2003 | IMEW (The integrated Management of European Wetlands) | A. Kontautas | EVK2-CT-2000-00081 | EU FP-6 |
| 1997 | 1999 | Testing Monitoring Systems for Risk Assessment of Harmful Introductions by Ships to European Waters | S. Olenin | MAS3-CT97-0111 | EU MAST-3 Program Concerted Action |