PETROU SAXINH 5, SKYDRA PELLAS, 58500, GREECE P H ONE 2381082176 • M OBI LE 6972591011• E -MAIL LYKOSTRATIS@GOOGLEMAI L. COM KONSTANTINOS LYKOSTRATISPROFILE • An experienced project developer and process manager with an exemplary academic background and a talent for high-technology enterprise endeavors; • A clear and methodical thinker, with a considerable passion for robust design, able to balance short-term pressures with long-terms objectives; • A resourceful multi-tasker, enthusiastic communicator and rapid learner who thrives as an individual but excels in a team environment; • A veritable jack-of-all-trades and master of several.PROFFESIONAL EXPERIENCE2009 – 2010 IstosOnline Advanced Internet Solutions - Project Manager • Established strategy, Co-ordinated the early stages of company development (www.istosonline.gr) and the engineering of open source social-learning software solutions for use in academic institutions (Campus Information Management Framework as an academic collaboration and e-learning environment); • Designed a series of company Standard Operating Procedures for Software Development and Revision Control, Software Configuration Management and Change Request Management based upon the Rapid Application Development Process for software prototyping; • Designed the company Policy and Standards Framework for Customer Support Management and Service Level Agreements, Quality Management/Audit Systems and Training Delivery Programs, Customer Engagement and Pricing Models of software deployment over the internet; • Chief Architect of the ErgosShop Software as a Service E-Commerce model (www.ergosshop.gr)2008 – 2009 Military Service – Greek Airforce - Airman, IT Systems • Served 1 year as Airman in the 113 Battle Wing, Commander’s Detail, Thessaloniki International Airport “Macedonia”, including 1-month secondment to the island of Lemnos, Battle wing 130, Lemnos Airport2002-2007 Ludwig Institute for Cancer Research - Systems Biology Researcher • Privately contracted by the Ludwig Institute for Cancer Research, London, for Research on Systems Biology and the development of several modelling methodology protocols under Prof A.J. Ridley and Prof M. Zvelebil.Summer 2002 Astra Zeneca R&D - Bioinformatics Researcher • Worked under Dr. Carl-Morton Firth developing Bioinformatics tools and designing an Automated SNP Analyser utilizing MySQL, Perl, CGI, web-design, Java, and data processing.Spring 2001 Leicester Royal Infirmary - Mol. Genetics Researcher • Worked under Prof J.R Pringley (University Hospital of Leicester) in developing experimental protocols for the design & development of the lab technique: DNA bisulfite treatment & Methylation Specific PCR.
EDUCATION AND QUALIFICATIONS2002-2007 PhD, Computational Systems Biology & Bioinformatics University College London Primary areas of interdisciplinary research: • Mathematical modelling and Computational Biology • Applied Biophysics in Biological Systems • Chemical Engineering Principles of Fluids in Biological Systems • Biochemistry/Molecular Genetics in Complex Biological Models • Molecular and Cellular Systems Biology • Algorithms for model parameter optimization and sensitivity analysis • Software/Database development Additional attributes and skills developed: • Strong oral/presentation and written communication skills • Time management: Organisation, planning, prioritisation skills • Initiative, and ability to work independently • Problem solving, resourcefulness • Analytical thinking, systems theory • Graduate course assistant trainer, multidisciplinary science communication.2001 -2002 MRes, Bioinformatics (Awarded Distinction) University of York • Biological sequence analysis • Programming in Perl • Machine learning • Programming in JAVA • Pattern recognition and Neural Networks • Databases (SQL) • Molecular aspects of disease • Advanced Algebra & Calculus • Structural Bioinformatics • Transferable/Communication skills • Statistics (Multivariate Data Analysis)1998- 2001 BSc, Human Genetics (Award for Excellence in Research) University of Leicester 2:1 Honours degree.1998 Panhellenics (Greek A-Levels) Skydra Senior College Biology (85%), Chemistry (80%), Physics (70%), Mathematics (70%), Greek Literature (66.5%)
INVITED ORAL PRESENTATIONSOctober 2007 - Rome, Italy • Seminar title: Mathematical Modelling of the shear stress response in endothelial cells. Speaker: Dr Kostas Lykostratis. Held at Mouse Biology Unit, EMBL Montetorondo (Rome, Italy) by Dr Liliana Minichiello.March 2005 - London, UK • Seminar title: Decoding the dynamics of molecular interactions. Speaker: Kostas Lykostratis. Held at the Institute of Structural and Molecular Biology, School of Crystallography, Birckbeck College, London.May 2005 - Zurich, Switzerland • Seminar title: Systems Biology of the Shear Stress Response. Speaker: Kostas Lykostratis. Meeting held by the Cell Migration Consortium, held at Switzerland: Lake ThunRESEARCH EXPERIENCESep-June Ludwig Institute for Cancer Research, University College London (UCL PhD research)2002-2007 Mathematical modelling of shear stress signaling in endothelial cells. In this project, a modelling and Systems Biology approach was taken to investigate and understand better the endothelial signal transduction networks that convert fluid flow stimulation into biochemical signals. A signal transduction network was built from integrin cell surface receptors to activation of the tyrosine kinases FAK and Src. To model how fluid flow initiates signalling in this network, the shear stress-induced calcium influx and the viscoelastic response of transmembrane receptors such as integrins to mechanical force were examined by means of mathematical modelling, using ordinary differential equations. These effects were used as primary activators of the shear stress response in endothelial cells, allowing quantitative analysis of the intracellular signal transduction flow which propagates from integrin to paxillin, FAK and Src activation. The magnitude and dependencies of each influence were examined individually and in conjunction with each other. The model was used to investigate the role and dynamic regulation of previously unstudied molecules in the network and the simulated results were compared against experimental data. Techniques: Systems Biology software; Data analysis, Modelling & simulations, Database design2003 -2004 Bogue Fellowship, Research training on Systems Biology, USA, Seattle Institute for Systems Biology, Seattle, Washington State, USA The fellowship allowed for a six-month external placement research training scheme to take place in Seattle, USA, at the institute for Systems Biology under the presidency of Dr Leroy Hood. Various short-term projects involved training and applications on: • Multivariate Statistical Analysis of Biological Data • Mathematical Modelling Design and Systems Biology • Matlab simulations on ODE/PDE systems • Applied principles of Multidisciplinary research: Combinatorial applications of Biophysics, Chemical Engineering. Molecular Biology, Genetics, Mathematics, Computer Science • Interdisciplinary Communication Skills
May-Sep Astra Zeneca R&D (MRes External placement)2002 Design of an Automated SNP Viewer – (Awarded Prize for Research Excellence) The project involved the design of a system for automated mining of SNP-information and the generation of new information previously unavailable. An interactive viewer was developed to aid visualisation of the gene of interest, the coding region, the SNP locations and the effects of the polymorphisms at the protein level. The developed system was used as a template for the identification of SNPs that might play key role in disease genes or genes with differential behaviour on drugs and medical treatments. Techniques: Perl programming, JAVA programming, CGI scripting, HTML editing, SRS.Feb-Apr MRes project II (University if York)2002 Identification of conserved core structures and residues in kinesins Structural alignments of all the kinesin motor domain structures confirmed that these enzymes share a common core structure and revealed extensive similarity located outside the conserved nucleotide binding site residues. A model structure composed of the structurally invariant core residues was constructed. This model was subsequently used to scan the entire RCSB PDB database for structurally similar proteins. Techniques: Molecular structure analysis, multiple structural alignments and Perl scripting.Nov-Dec MRes project I (University of York)2001 Computational Analysis of Microarray Data Techniques: Examination of gene expression levels of 1611 genes using Hierarchical and K-means clustering, Principal Component Analsysis and Partial Least Squares.Oct-Apr BSc project Thesis (University of Leicester)2000-2001 Investigation into the methylation state of Caspase 8 and E-cadherin in cancer cell lines and formalin fixed tissues from neuroblastomas.June-Sept Research assistant (Leicester Royal Infirmary)2000 Developing experimental protocols for the design and refinement of a new experimental technique: DNA bisulfite treatment and Methylation Specific PCR.TEACHING EXPERIENCE• Structural Bioinformatics Graduate Course Seminars (2003, 2004). University College London - Birkbeck College.• Several Computational Molecular Biology undergraduate laboratory practicals at University of York, 2002• Several 1st and 2nd year Biological Sciences undergraduate laboratory practicals at Leicester University, 2001AWARDS/DISTINCTIONS/ ACHIEVEMENTS • UK National Young Bioinformatician of the Year 2004 Award (Co-Winner), Young Bioinformaticians Forum, Oxford 2004, WELCOME TO THE FUTURE. DRUG DISCOVERY TODAY, VOLUME 10, ISSUE 3, 1 FEBRUARY 2005, PAGES 172-173. • Bogue Research Fellowship Awarded by Dean of Life Sciences of University College London, UCL 2004 • Award for Best Annual Poster Presentation, Biological Sciences Faculty, Computer Science Dept, University of York 2002 • Award for Best Annual Poster Presentation, Biological Sciences Faculty, Genetics Dept, University of Leicester 2001
• Undergraduate Research Excellence Award, Biological Sciences Faculty, Genetics Dept, University of Leicester 2001KEY TECHNICAL SKILLSComputing Bioinformatics and Systems Biology Software: • Systems Biology/Mathematicall Modelling: (MATLAB - Optimisation, PDE and Statistics Toolboxes, Cytoscape, SBW, Jarnac, Jdesigner, GEPASI, Dizzy, Virtual-Cell, SBML, CellML) , • Molecular Modelling: (Quanta, Rasmol, VMD, SwissPDB); • Structural/Sequence Alignments: (CAMINE, VAST, DALI, ClustalX, GCG, HMMer, Psi-Blast); • Phylogenetic Analysis: (Treeview, PAUP), • DNA Array Data: (EisenLab, Cluster-Treeview, Jexpress, TigrMEV, AMANDA, Genespring); Other Software & Operating Systems: MS Office, Mac iWork, Reference Manager; Corel Draw, Adobe Illustrator and Photoshop, Windows, Mac OS X and Unix-Linux operating systems;Development Programming Languages and Database Systems Software Development Lifecycle (Rational Unified Process); Object-Oriented Development and Design Patterns; Java (3 years), Perl (3 years), Drupal (2 years); Matlab (4 years); Currently studying Python as a Rapid Application Framework Knowledge of Open Source/Free Software Licensing and Copyright Law. Systems Administration Relational Database Design University level Mathematics.Languages • Fluency in English • Fluency in Greek • Basic studies in French and ItalianOther • Clean driving license (automobile). Obtained June 1998. • Self-taught guitar player and regularly composing own songs • Avid interest in reading philosophy and biographical manuscripts