Avaris

Contact Information

• Materials Science and Engineering (MRC-205)
  Rensselaer Polytechnic Institute
  110 Eighth Street, Troy, NY 12180 U.S.A.
  
• 1-617-899 38 05
• dturgut@gmail.com

Current Position

Education

• Ph.D. in Materials Science and Engineering, 2011
  Sabanci University, Istanbul, Turkey
  Network Characterization of Packing Architecture for Condensed Matter Sytems
• M.Sc. in Civil Engineering, 2004
  Bogazici University, Istanbul, Turkey
  Fluctuations, Order and Collectivity in Complex Networks
• B.Sc. in Civil Engineering, 2002
  Bogazici University, Istanbul, Turkey
  
• Ankara Science High School, Ankara, Turkey, 1997

Teaching Experience

• Assistant at Sabanci University, Fall 2004 - Fall 2011
  MATH 102 - Calculus II
  MATH 201 - Linear Algebra
  MATH 202 - Differential Equations
  MATH 203 - Introduction to Probability
  MATH 306 - Statistical Modeling
  MAT 306 - Computational Techniques for Material Science
• Assistant at Bogazici University, Fall 2002 - Spring 2004
  ENGG 110 - Engineering Graphics
  CE 243 - Statics
  CE 245 - Mechanics
  CE 301 - Civil Engineering System Analysis
  CE 484 - Risk Assesment and Management

Work Experience

• Summer 2000, DSI, Isparta, Turkey
  Intern at Quality Control and Assurance Department
  Overview of several constructions funded by DSI
• Summer 2001, ARC Construction Company, Istanbul, Turkey
  Intern at Project Department
  Planning and scheduling of construction projects managed by company

Research Keywords

Publications

• D. Turgut, A.R. Atilgan, C. Atilgan
  Assortative mixing in close-packed spatial networks
  PLoS ONE 5(12): e15551, 2010.
  doi:10.1371/journal.pone.0015551
• A.R. Atilgan, D. Turgut, and C. Atilgan
  Screened nonbonded interactions in native proteins manipulate optimal paths for robust residue communication
  Biophysical Journal, 92(9): p. 3052-3062, 2007.
  doi:10.1529/biophysj.106.099440

Presentations

• D. Turgut*, O.B. Okan, A. Garcia, R. Ozisik
  Investigating the nature of folded protein structure with the aid of crystalline and amorphous models
  APS March Meeting, Baltimore, MA, USA, March 2013.
  contributed talk
• D. Turgut, O.B. Okan*, A. Garcia, R. Ozisik
  Predicting folding-unfolding transitions in proteins without a priori knowledge of the folded state
  APS March Meeting, Baltimore, MA, USA, March 2013.
  contributed talk
• D. Turgut*, O.B. Okan, A. Rammohan, R. Ozisik
  Many-Body Atomic Displacement Correlations in Elastic Network Models Illuminate R-G-D Ligand Binding to the αvβ3 Integrin
  56th Biophysical Society Annual Meeting, San Diego, CA, USA, February 2012.
  poster
• A.R. Atilgan*, D. Turgut, A.O. Aykut, C. Atilgan
  Orchestrating Population Shifts of Native Proteins in Different Environments
  55th Biophysical Society Annual Meeting, Baltimore, MD, USA, March 2011.
  contributed talk
• D. Turgut*, O.B.Okan, C.Atilgan, A.R.Atilgan
  Statistical properties of spatial complex networks
  17th Statistical Physics Days, Istanbul, Turkey, July 2010.
  contributed talk
• D. Turgut, C. Atilgan, A. R. Atilgan*
  Three Dimensional Lattice-Based Network Models Portray the Properties of Folded Proteins
  Greek-Turkish Conference on Statistical Mechanics and Dynamical Systems, Rhodos, Greece - Marmaris, Turkey, 11-17 September 2008.
  contributed talk
• D. Turgut, C. Atilgan, A. R. Atilgan*
  Three Dimensional Lattice-Based Network Models Portray the Properties of Folded Proteins
  XXI Sitges Conference, Statistical Mechanics of Molecular Biophysics, Sitges(Barcelona), Spain, 2-6 June 2008.
  invited talk
• C. Atilgan, O. Keskin*, D. Turgut, A. R. Atilgan
  Hot Regions that Potentially Moderate Binding Affinity in Interacting Proteins are Identified by Optimal Paths in Weighted Residue Networks
  15th International Conference on Intelligent Systems for Molecular Biology AND 6th European Conference on Computational Biology, Vienna, Austria, 21-25 July 2007.
  poster
• A.R. Atilgan*, D. Turgut, C.Atilgan
  A few designed-in interactions imposed on chain connectivity are sufficient for robust residue communications
  51st Annual Meeting of the Biophysical Society, Baltimore, MA, USA, March 3-7, 2007
  poster
• A. R. Atilgan*, D. Turgut, C. Atilgan
  A Few Designed-in Interactions Imposed on Chain Connectivity Preserve Centrality Measures in Residue Networks
  Networks in Computational Biology, Ankara, Turkey, 10-12 September 2006.
  contributed talk
• D. Turgut*, C. Atilgan, A.R. Atilgan
  Protein-like qualities of residue networks are preserved by a few designed-in interactions imposed on chain connectivity
  New Directions in Complex Systems, Buyukada, Istanbul, Turkey, Sept 2006
  contributed talk
• D. Turgut*, C. Atilgan, A.R. Atilgan
  Shortest Paths in Weighted Residue Networks
  13th Statistical Physics Days, Istanbul, Turkey, July 2006
  contributed talk
• C. Baysal*, D. Turgut, A. R. Atilgan
  Phase Transitions and Equations of State for Residue Networks
  19th Symposium of the Protein Society, Boston, MA, USA, 30 July - 3 August 2005
  poster
• D. Turgut*, C. Atilgan, A.R. Atilgan
  Phase Transitions and Equations of State for Residue Networks
  12th Statistical Physics Days, Istanbul, Turkey, June 2005
  contributed talk
• D. Turgut*, C. Baysal, A.R.Atilgan
  Fluctuations, Order and Collectivity in Complex Networks
  Chemical Physics VI, Istanbul, Turkey, Oct 2004
  poster

Web Server

• JResNets Web server for optimal strong path calculation and visualization in residue networks

Summer Schools

• Second Annual French Complex Systems Summer School
  Lyon and Paris, July 15-August 10, 2008

Languages