Résumé

PhD, Computer Engineering, Istanbul Technical University, Istanbul, Turkey, currently attending
MS, Computer Engineering, Istanbul Technical University, Istanbul, Turkey, 2009
BS, Computer Engineering, Istanbul Technical University, Istanbul, Turkey, 2006

Software Developer, EVD, September 2009-February 2010
- Test Development
  - Analyzed, implemented and tested the computational model of The Energy Performance of Buildings Project conducted by T.R. The Ministry of Public Works and Settlement.
Full-time Research Assistant Supported by TÜBİTAK, ITU, September 2006-June 2009
- Research on Bioinformatics
  - Classified proteins and peptides using sequence similarity-based techniques.
  - Implemented a tool for sequence alignment and Oommen-Kashyap transition probability calculation.
Assistant Student, ITU Computer Center, November 2002-September 2005
- Software Development (.NET)
  - Built a central authentication system similar to Microsoft Passport by extending the .NET libraries and using LDAP. (https://giris.itu.edu.tr/)
  - Built an anti-virus web portal similar to Symantec Security Response. (http://www.bidb.itu.edu.tr/?a=52)
- Technical Support
  - Gave support on software, servers, network and PC hardware.
Intern, Tekstilbank Computer Center, August 2004-August 2004
- Enterprise Servers and Oracle Database
  - Installed HP-UX 11i and Oracle Database 10g on an HP V-Class server.
  - Gained experience on enterprise servers, SANs, Unix and Oracle Database.
  - Investigated Tekstilbank’s server and network infrastructure.

Aygün, E.; Oommen B.J. & Cataltepe, Z. Peptide Classification Using Optimal and Information Theoretic Syntactic Modelling Pattern Recognition, 2010, 43, 3891
Herdağdelen, A.; Aygün, E. & Bingol, H. A formal treatment of generalized preferential attachment and its empirical validation Europhysics Letters, 2007, 78, 60007

Aygün, E.; Oommen B.J. & Cataltepe, Z. On Utilizing Optimal and Information Theoretic Syntactic Modelling for Peptide Classification Pattern Recognition in Bioinformatics, 2009
Aygün, E.; Komurlu, C.; Aydin, Z. & Cataltepe, Z. Protein Function Prediction with Amino Acid Sequence and Secondary Structure Alignment Scores International Symposium on Health Informatics and Bioinformatics, 2008
Filiz, A.; Aygün, E.; Keskin, O. & Cataltepe, Z. Importance of Secondary Structure Elements for Prediction of GO Annotations International Symposium on Health Informatics and Bioinformatics, 2008
Aygün E. & Cataltepe Z. Gene Ontology (GO) Molecular Function Prediction Based on Alignment Scores International Symposium on Health Informatics and Bioinformatics, 2007
Cataltepe, Z. & Aygün, E. An Improvement of Centroid-Based Classification Algorithm for Text Classification IEEE 23rd International Conference on Data Engineering, 2007, 952-956
Herdagdelen, A.; Aygün, E. & Bingol, H. Measuring generalized preferential attachment in an online hyper-textual dictionary: Eksi Sozluk European Conference on Complex Systems, 2005

Aygün, E. & Önduygu D.C. EVODES: An Evolutionary Poster Design Environment Rovereto Workshop on Cognition and Evolution, 2009
Cataltepe, Z.; Ayan, U. & Aygün, E. Protein Function Prediction Using Motifs, Sequence Features, Alignment Scores Research in Computational Molecular Biology, 2007
Cataltepe, Z.; Aygün, E.; Filiz, A.; Keskin, O.; Komurlu, C. & Altunbasak, Y. Dimensionality Reduction for Protein Function Prediction Automated Function Prediction – Biosapiens Joint Special Interest Group Meeting at ISMB/ECCB, 2007

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