Biomedical Research Foundation Academy Of AthensAcademy Of Athens
Scientific Personnel

Stamatis Stamatis Pagakis, PhD
Staff Research Scientist - Professor Level

Telephone : +30 210 6597 481
Fax : +30 210 6597 545
e-mail :

Center :

Basic Research

Core Facility Site :


Brief Bio

Stamatis Pagakis is the head of the Biological Imaging Unit (BIU).  He received his Diploma in Electrical Engineering from the University of Patras, and his MS and Ph.D. degrees in Biomedical Engineering from University of California, Davis, with specialization in cardiovascular imaging, microscopy and image analysis. His research focused on the development of imaging techniques, such as quantitative intracellular calcium imaging and 3D visualisation using image restoration, to study the biological mechanism for the modulation of capillary blood vessel permeability in-situ.

While a senior research scientist at the University Laboratory of Physiology, Oxford (1994-1997), he developed the “confocal myograph” a device  for 3D confocal imaging of pulmonary vessels during hypoxic vasoconstriction.  Before joining BRFAA in 2005, he was the director of the Confocal and Image Analysis Laboratory (CIAL) at the National Institute of Medical Research (NIMR-MRC), Mill Hill, London.

His research has been supported by the Wellcome Trust, the Medical Research Council (MRC) and by the European Union.

He has more than 30 refereed publications.  His current interests focus on image restoration, 3D visualisation and the development of algorithms for automatic analysis of biological microscopy images. He has worked with fluorescent bio-markers for more than 20 years and he has extensive experience in optical microscopy and the application of imaging techniques to visualise cellular processes in living cells.

He is a member of IEEE, the Society for Engineering in Medicine and Biology (EMBS), the Royal Microscopical Society (RMS) and the Microcirculatory Society (MCS).

Selected Publications

2010  E.L. Papadopoulou, A. Samara, M. Barberoglou, A. Manousaki, S.N. Pagakis, E. Anastasiadou, C. Fotakis and E. Stratakis: Silicon scaffolds promoting three-dimensional neuronal web of cytoplasmic processes. Tissue Engineering, Part C: Methods. Jun, 16(3):497-502.

2009    E. Vafiadaki, D.A. Arvanitis, S.N. Pagakis, V. Papalouka, D. Sanoudou, A. Kontrogianni-Konstantopoulos and E. G. Kranias: The anti-apoptotic protein HAX-1 interacts with SERCA2 and regulates its protein levels to promote cell survival: Mol Biol Cell. 2009; 20(1):306-18.

2008    J. Adler, S.N. Pagakis and I. Parmryd: Replicate Based Noise Corrected Correlation for Accurate Measurements of Colocalization, J. Micrsc.,  230(1):121-133. IF1.56

2006    M. C. Coles, H. Veiga-Fernandes, K. E. Foster, T. Norton, S. N.Pagakis, B. Seddon and D. Kioussis:  Role of T, NK cells and IL7/IL7r interactions during neonatal maturation of lymph nodes  Proc Natl Acad Sci U S A. 2006 Sep 5;103(36):13457-62.

2003    Festenstein R., S.N. Pagakis, K. Hiragami, D. Lyon, A. Verrault, B. Sekali and D. Kioussis: Modulation of heterochromatin protein 1 dynamics in primary mammalian cells. Science, Jan 31, 299:719-721

2003    J. Adler J. and S.N. Pagakis: Reducing image distortions due to temperature related microscope stage drift. J. Microsc. 210(2):131-136.

2003    Ardouin L., M. Bracke, A. Mathiot, S.N. Pagakis, T. Norton, N. Hogg and V.L.J Tybulewicz: Vav1 transduces TCR signals required for LFA-1 function and cell polarization at the immunological synapse.  Eur. J. Immunol., 33:790-797.

2002    Magee, A., N. Pirinen, J. Adler, S.N. Pagakis and I. Parmryd: Lipid rafts: cell surface platforms for T cell signalling.  Biol. Res., 35(2):127-131.

2002    Daly C.J., McGee A., Vila E., Briones A., Arribas S.M., Pagakis S.N., Adler J., Merle A., Maddison J., Pedersen J., McGrath J.C.:  Analysing the 3D structure of blood vessels using confocal microscopy. Microscopy & Analysis, 92:5-8.

2000    Mobasheri A., E. Trujillo, S. Golding, J.C. Ellory, S.N. Pagakis and A.E. Pocock, Martin-Vasallo and M.J.O Francis: Isoforms of Na+, K+-ATPase in Primary Human Bone Derived Osteoblasts, J. Biochem. Mol. Biol. & Biophys., 4:343-357.

1999     Erent M., S.N. Pagakis, J.P. Browne and P. Bayley:  Association of calmodulin with cytoskeletal structures at different stages of HeLa cell division, visualized by a calmodulin-EGFP fusion protein, Mol. Cell Biol. Res. Com., 1:209-215.

1994    Pagakis S.N. and F.E. Curry:  Imaging of Ca2+ transients in endothelial cells of single perfused capillaries: correlation of peak [Ca2+]i with sites of macromolecule leakage. Microcirculation, 1(4):213-230.


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