This paper provides new insights on the effects of the enlargement of the European Union (EU) and European integration by investigating the issue of scientific collaboration within the new EU member states vis-à-vis the old EU member states. The question addressed is whether the EU membership following the two enlargement waves 2004 and 2007 has significantly increased the co-publication intensity of the new member states with other member countries. The empirical results based on data collected from the Web of Science database and Difference-in-Difference estimations point towards a conclusion that joining the EU indeed has had an additional positive impact on the co-publication intensity between the new and old member states and, in particular, within the new member states themselves. These results give tentative support for the successfulness of the EU’s science policies in achieving a common ‘internal market’ in research. We also find evidence for early anticipation effects of the consecutive EU accession.