CURRICULUM VITAE Ugur Akgun, Ph.D.

Transcription

1 Education CURRICULUM VITAE Ugur Akgun, Ph.D. Ph.D. University of Iowa (2003) B.S. Middle East Technical University, Ankara, Turkey (1996) Research Interests Development of radiation hard light and particle detector technologies Determination of membrane protein mechanism through Molecular Dynamic Simulations Standard model and MSSM Higgs boson discovery studies in LHC Flavor physics on fixed target experiments Professional Experience Aug Present Assistant Professor, Physics Department, Coe College June 2005 July 2012 Visiting Assistant Professor July 2009 Aug 2011 Assistant Research Scientist, June 2006 Feb 2011 Jan 2004 July 2009 Assistant Research Scientist / Postdoctoral Research Scholar Biochemistry Department, University of Iowa Postdoctoral Research Scholar Research Assistant Teaching Assistant Teaching Assistant Middle East Technical University, Department of Physics Grants, Awards and Honors 2014 Co-PI on NSF Grant titled " RUI: Research on Glass at Coe College" awarded $620, PI on The Ella Pochobradsky Endowment Award, titled "Aquaporin-0 Water Conduction Regulation by Calmodulin", awarded for $4, PI on Extreme Science and Engineering Discovery Environment (XSEDE) Computational Award titled "Computational Investigation on Mechanisms of P-Glycoprotein and AQP0-CaM

2 Systems", for 225,000 cpu hrs 2013 Co-PI on NSF Grant titled "RUI-Coe College Undergraduate Glass Research Program" awarded for $97, PI on AHA Grant titled "Finding Binding Sites in P-Glycoprotein for Cardiovascular Drugs" awarded for $4, PI on Extreme Science and Engineering Discovery Environment (XSEDE) Computational Award titled "Binding Sites of Cardiovascular Drugs in P-Glycoprotein", for 200,000 cpu hrs 2013 PI on Edward S. Murray Memorial Research Fund, titled " A Boron-10 Enriched Scintillating Glass Detector Design for Fast and Slow Neutrons" awarded for $4, PI on Knapp Northcott Fund for International Travel Award for $ PI on The Ella Pochobradsky Endowment Award, titled "new radiation hard elastomer and glass scintillators for particle and medical physics applications", awarded for $4, CMS Physics Week 2010, Best Poster Award 2009 PI on TeraGrid Computational Allocation Award, titled Molecular Dynamic Simulations to Determine the Solute Selectivity of Ammonia Channels, awarded for 2000,000 cpu hrs 2001 University of Iowa Outstanding Teaching Assistant Award 1996 Middle East Technical University Honor Student Graduation Turkish Republic Prime Ministry Undergraduate Education Scholarship Services on Professional Organizations University of Iowa, FUTURE in Biomedicine Fellow, 2014 Editorial Board Member, Journal of Modern Instrumentation ( Present) Faculty for Belin-Blank Center for Gifted Education, National Science Institute, ( Present) Reviewer for manuscripts submitted to IEEE Transactions on Nuclear Science External Reviewer for National Institute of Standards and Technology proposals American Physical Society, Member ( Present) American Biophysical Society ( Present) Society of Physics Students ( Present) Presentations Invited Talks, Public and Guest Lectures 1. Binding Interactions between P-Glycoprotein and Cardiovascular Drugs, Invited Talk, Computational Biophysics Workshop, University of Iowa, Iowa City, IA 7 June "Molecular Dynamic Study to Determine the Ammonia Conduction Mechanisms in Human RhCG and Bacterial Homoloques", Invited Talk, University of Iowa, Chemistry Department, Physical Chemistry Seminars, 14 April "Glass Particle Detectors", Invited Talk, Istanbul Technical University, Istanbul, Turkey, May 22, "Using Glass as Active Media on Detector Systems", Invited Talk, IYTE, High Energy Physics and Applications Workshop (IZYEF 2012), Izmir, Turkey, June 2012

3 5. Searching for the God Particle - The Large Hadron Collider, Public Lecture, Coe College, Cedar Rapids, IA, Apr 15, The Journey of Ammonia into the Cell - A Particle Physicist's-Eye View, Invited Talk, Grinnell College, April 10, Quest to Upgrade the CMS Hadronic Calorimeters, Invited Talk, Wichita State University Physics Department, Dec. 3, "High Energy Physics Research in a Liberal Art College", Guest Lecture, Coe College, Jan 12, "Calorimeters in High Energy Physics Experiments", Guest Lecture, 6th International Summer School on Particle Accelerators and Detectors, Bodrum, Turkey, Sept 2-7, Radiation Hard Cerenkov Calorimeters for Future Colliders, Invited Talk, Turkish Physical Society 4th National Congress on Particle Accelerators and Applications, Bodrum, Turkey, Aug 30 Sept 1, "Short and Long Term Upgrade Scenarios for the CMS Hadronic Calorimeter", Invited Talk, Sabanci University, Istanbul, Turkey, 6 January, "Angels and Demons Lecture Night - Science Revealed", Public Lecture, Iowa City, IA, USA, May "Introduction to Atomic Structure", Guest Lecture, Physics Department, University of California San Diego, San Diego, CA, USA, April "Large Hadron Collider - An Overview", Invited Talk, IA-American Association of Physics Teachers Fall Conference, Mason City, IA, USA, November 2008, Selected List of Conferences, Seminars and Workshops 1. "Aquaporin-0 Water Conduction Regulation By Calmodulin" 59th Annual Biophysical Society Meeting, Baltimore, MD, 7-11 February "Water Conduction Mechanism in Aquaporin-0 Calmodulin System", presented by T. Bach, 28th Annual Gibbs Conference on Biothermodynamics, Carbondale, IL, USA, September "Proton Imaging with a High Density Scintillating Glass Calorimeter", FUTURE in Biomedicine Symposium, University of Iowa, Iowa City IA, 1 Aug "Characterizing the protein-ligand interactions within the binding domain of ABC transporter P- Glycoprotein using known cardiovascular transport ligands", Presented by J. Jagodinsky, Frontiers in Membrane Protein Structural Dynamics Meeting, Chicago, IL, 7-9 May "High-Density, Scintillating, Fluoride Glass Calorimeters", presented by Q. Xie, American Physical Society April Meeting, Savannah, GA, 4 April 2014

4 6. "Molecular Dynamic Study to Determine the Ammonia Conduction Mechanisms in Human RhCG and Bacterial Homoloques", American Physical Society March Meeting, Denver CO, 4 March "Different Ammonia Conduction Mechanisms for E. Coli AmtB and Rh Proteins", Frontiers in Structural Biology of Membrane Proteins, University of Alabama Birmingham, 4-6 April Conserved Glu in Periplasmic Vestibule Proves Different Mechanism in Rh Proteins, 56 th Annual Biophysical Society Meeting, San Diego, CA, February CMS Hadronic EndCap Calorimeter Upgrade R&D Studies, Technology and Instrumentation in Particle Physics, TIPP 2011, Chicago IL, 9-14 June Boron and Thermal Neutron Interactions on Borosilica Window Photomultiplier Tubes, presented by Edwin Norbeck, American Physical Society, April Meeting, Anaheim, CA, April 30-May 3, "Ligand Selectivity in Amt/Mep/Rh Superfamily", Workshop, Biochemistry Department, University of Iowa, Iowa City, IA, 15 February, "Detector Upgrade R&D Studies on CMS Hadronic Calorimeter", Best Poster Award CMS Physics Week 2010, Bodrum Turkey, Sept 9-16, "Selectivity Mechanism and Syncronized Phenyl Gating of Ammonia Channel", Department of Molecular Physiology and Biophysics, University of Iowa, Iowa City, IA, 7 April, "Periplasmic Vestibule Determines the Ligand Selectivity in E.Coli AmtB", American Physical Society March Meeting, Portland OR, 19 March "A Novel Method to Eliminate Muon Events on PMT Windows of CMS Hadronic Forward Calorimeter", American Physical Society April Meeting, Washington DC, February "CMS Hadronic Endcap Calorimeter Upgrade Studies for SLHC - Quartz Plate Calorimeter with Wavelength Shifting Fibers", American Physical Society April Meeting, Washington DC, February "Determination of the Mechanism of Selectivity and Ammonia Conduction By AmtB Using MD Simulations", Presented by Dr. S. Khademi, American Biophysical Society Meeting, San Francisco, CA, January "Tale of Two Kingdoms: Subatomic and Molecular", Physics Department Seminar, Bogazici University, Istanbul, Turkey, 7 January, "CMS Hadronic Calorimeter Upgrade Studies", Physics Department Seminar, Mimar Sinan University, Istanbul, Turkey, 25 December, Periplasmic Vestibule Determines the Ligand Selectivity in E.Coli AmtB Structural Biology Seminar, Department of Biochemisty, University of Iowa, Iowa City, IA, USA, 15 October 2009

5 21. "Detector Upgrade R&D Studies on CMS Hadronic Calorimeter", IEEE Nuclear Science and Symposium and Medical Imaging Conference, Orlando FL, USA, October "A Journey from Particle Smashers to Membrane Proteins" Physics Department Seminar, Istanbul Technical University, Istanbul, Turkey, 16 March "Determination of the Ligand Selectivity Mechanism in Amt/Rh/MEP Superfamily using MD Simulations" Department of Biochemistry Research Workshop, University of Iowa, Iowa City, IA, USA, February "Mechanism and Energetics of Substrate Selectivity by Rh50 from Nitrosomonas europae", presented by L. Gray, 22nd Annual Gibbs Conference on Biothermodynamics, Carbondale, IL, USA, October "Mechanism of Substrate Selectivity and Recruitment in Ammonia Channel", 21st Annual Gibbs Conference on Biothermodynamics, Carbondale, IL, USA, September Recent Oc0 and Xc0 Analysis Results from SELEX Experiment, American Physical Society, April Meeting, Jacksonville, FL, USA, April Detector Upgrade Studies on CMS Hadronic Endcap Calorimeter, American Physical Society, April Meeting, Jacksonville, FL, USA, April 2007, 28. Preliminary Xc+ Lifetime Measurement from SELEX Experiment, 7th International Conference on Hyperons, Charm And Beauty Hadrons, BEACH 2006, Lancaster, UK, July Radiation Hard Quartz Cerenkov Calorimeters, presented by Dr. Y. Onel, The XII International Conference on Calorimetry in High Energy Physics CALOR 2006, Chicago, IL, USA, June Quartz Plate Calorimeter Prototype, American Physical Society April Meeting, Dallas, TX, USA, April SM Higgs Boson Discovery Potential at CMS via Weak Boson Fusion, American Physical Society April Meeting, Dallas, TX, USA, April "MSSM Higgs à Tau Tau Mass Reconstruction", CMS Integration and Physics Simulation Workshop, Antalya, Turkey, March 2006 Media Coverage and Outreach "Imperial City", by Ugur Akgun, Coe College, Wednesday Lectures Series, 30 July 2014 "Quantum Century", by Ugur Akgun, Coe College Thursday Forum Public Lecture Series, April 2014 "Coe College Chapter Recognizes Dr. John Salzer", by Ugur Akgun, article in Radiations Magazine, Spring 2013 Issue

6 "Secrets of the Universe", Lecture in Kennedy High School, Cedar Rapids, IA, 26 March 2013 "Crossing the Bridge: May Term in Istanbul and the Aegean Coast of Turkey", Talk at Coe College Social Hour, 21 Sept 2012 "Higgs Discovery at Cern", Live TV Interview with Ulusal Kanal (National TV Channel in Turkey), 16 Aug The Dawn of New Physics at the Large Hadron Collider at the Cern Lab on the Swiss-French Border, presentation Cosmic Café, April 21, 2012, Cedar Rapids, IA The God Particle Search, WGN Radio, Interview, 20 Apr How Does Nature Work?, Lecture in Central Community School, Elkader AI and Mason City High School, Mason City, IA, 7 March 2012 The Quest to Understand Nature - The Large Hadron Collider, Talk at Coe College Social Hour, 3 Feb 2012 Using Twitter in Classrooms, Daily Iowan TV, Interview, 24 Sept Before you go see Angels & Demons, article in hooplanow.com, 12 May 2009 Angels and Demons Lecture in Iowa, article in Press-Citizen, May 20, 2009 Quick thinking helps experiment stay afloat. article in Symmetry Breaking, Volume 05, Issue 05, November 2008 Large Hadron Collider Controversy, article in Content Magazine, September New Perspectives 2002, Poster Session, article in Fermi News, Volume 25, Number 11, June 28, 2002 Learning and Growing, Iowa Universities Extend the State s Educational Heritage to work at Fermilab, article in Fermi News, Volume 25, Number 7, April Selected Publications (out of 387 total) 1. N. Johnson, S. Xian, U. Akgun et al. "Electronically Conductive Vanadate Glasses for Resistive Plate Chamber Particle Detectors", In Print, International Journal of Applied Glass Science, Jan J. Jagodinsky and U. Akgun, "Characterizing the binding interactions between P-Glycoprotein and eight known cardiovascular transport ligands" Pharmacology Research and Perspectives, Volume 3, Issue 2, e00114, DOI: /prp2.114, Feb 2015

7 3. J. M. Paley, M. D. Messier, R. Raja, U. Akgun et al., "Measurement of Charged Pion Production Yields off the NuMI Target", arxiv: [hep-ex], Physical Review D, 90, , U. Akgun et al., "Characterization of 1800 Hamamatsu R7600 PMTs for CMS HF Calorimeter Upgrade", JINST 9 T06005, Journal of Instrumentation, June Q. Xie, J. Schletzbaum, and U. Akgun, "High Density Scintillating Glass Calorimeter", JINST 9 T04001, Journal of Instrumentation, April The CMS Collaboration, S. Chatrchyan,..., U. Akgun et al. "Measurement of inclusive W and Z boson production cross sections in pp collisions at sqrt(s) = 8 TeV", Physical Review Letters 112, , S. Feller and U. Akgun, "A New Glassy State Of Matter: The Color Glass Condensate", International Journal of Applied Glass Science 4 [1], 1-4, S. Chatrchyan,..., U. Akgun et al. "Search for heavy narrow dilepton resonances in pp collisions at s = 7 TeV and s = 8 TeV", Physics Letters B 2, 3, U. Akgun et al., "CMS Hadronic Endcap Calorimeter Upgrade R&D Studies" Physics Procedia 37, , The CMS Collaboration, "A New Boson with a Mass of 125 GeV Observed with the CMS Experiment at the Large Hadron Collider", Science 338, 1569, U. Akgun et al., Quartz Plate Calorimeter Prototype With Wavelength Shifting Fibers, Journal of Instrumentation, JINST 7 P07004, S. Chatrchyan,..., U. Akgun et al. "Measurement of the rapidity and transverse momentum distributions of Z bosons in pp collisions at (s)=7 TeV", Physical Review D 85, , U. Akgun, and S. Khademi "The Periplasmic Vestibule Plays Important Role for Solute Recruitment, Selectivity, and Gating in Rh/Amt/MEP Superfamily", Proceedings of National Academy of Science 108(10): , S. Chatrchyan,..., U. Akgun et al. "Search for Supersymmetry at the LHC in Events with Jets and Missing Transverse Energy", Physical Review Letters 107, , U. Akgun et al. "Boron and Thermal Neutron Interactions on Borosilica Window Photomultiplier Tubes", Journal of Instrumentation, JINST 5 P08005, U. Akgun et al. "CMS Hadronic EndCap Calorimeter Upgrade Studies for SLHC Pterphenyl Deposited Quartz Plate Calorimeter Prototype", IEEE Transactions on Nuclear Science, Volume 57, Issue 2, , N. Graf,, U. Akgun et al. Charged Kaon Mass Measurement using the Cherenkov E!ect, hep/ex , Nuclear Instruments and Methods A, 615:27-32, S. Chatrchyan,..., U. Akgun et al. "Study of Various Photomultiplier Tubes with Muon Beams And Cerenkov Light Produced in Electron Showers", Journal of Instrumentation, JINST 5:P06002, 2010

8 19. U. Akgun Detector Upgrade R&D of the CMS Hadronic Endcap and Forward Calorimeters, IEEE Nuclear Science Symposium and Medical Imaging Conference Proceedings, Orlando, FL, S. Abdullin,, U. Akgun et al. "The CMS barrel calorimeter response to particle beams from 2 to 350 GeV/c", European Physical Journal C 60 : , A. Blanco-Covarrubias, J. Engelfried, U. Akgun et al., "Nuclear Dependence of Charm Production", FERMILAB-Pub E, hep/ex , The European Physical Journal C, Volume 64, Issue 4, pp , U. Akgun et al., "P Terphenyl Deposited Quartz Plate Calorimeter Prototype", IEEE Nuclear Science and Symposium and Medical Imaging Conference, Dresden, Germany, October R. Adolphi... U. Akgun et al. "The CMS Experiment at the CERN LHC", Journal of Instrumentation, JINST 3 S08004, U. Akgun et al., Afterpulse timing and rate investigation of three different Hamamatsu Photomultiplier Tubes, Journal of Instrumentation, JINST 3 T01001, F. Duru, U. Akgun et al. "CMS Hadronic EndCap Calorimeter Upgrade Studies for SLHC - Cerenkov Light Collection from Quartz Plates", IEEE Transactions on Nuclear Science, 55, 2, , S. Abdullin,, U. Akgun et al. "Design, Performance, and Calibration of CMS Hadron-Outer Calorimeter", The European Physical Journal C 57 : , E. Vazquez-Jauregui, J. Engelfried, U. Akgun et al. "First Observation of the Cabibbo-suppressed Decays Xi_c+ -> Sigma+ pi- pi+ and Xi_c+ -> Sigma- pi+ pi+ and Measurement of their Branching Ratios", hep-ex/ , Physics Letters B, 666, 4, , S. Abdullin U. Akgun et al. "Design, Performance, and Calibration of CMS Hadron-Barrel Calorimeter Wedges", The European Physical Journal C, 55, , U. Akgun et al., "Quartz Plate Calorimeter as SLHC Upgrade to CMS Hadronic Endcap Calorimeters", XIII International Conference on Calorimetry in High Energy Physics, CALOR 2008, Pavio, Italy, May 2008, also CMS-CR S. Abdullin U. Akgun et al., Design, Performance, and Calibration of CMS Forward Calorimeter Wedges, The European Physical Journal C, 53 (1), , U. Akgun et al. Preliminary Xc+ Lifetime Measurement from SELEX, Nuclear Physics B (Proc. Suppl.) , Also in *Lancaster 2006, Hyperons, charm and beauty hadrons* J. L. Sanchez-Lopez U. Akgun et al., Polarization of Lambda0 and anti-lambda0 inclusively produced by 610-GeV/c Sigma- and 525-GeV/c proton beams, hep-ex/ , M. Iori, A.S. Ayan, U. Akgun et al. Measurement of the Omega_c_0 Lifetime, hep-ex/071021, 2007.

9 34. U. Akgun et al. Radiation Damage and Reflectivity Studies on Air Core Light Guides, IEEE Transactions on Nuclear Science, Vol 53, No. 3, 1547, U. Akgun and Y. Onel, Radiation-Hard Quartz Čerenkov Calorimeters, AIP Conf. Proc. 867: , Also in "Chicago 2006, Calorimetry in high energy physics" D. Isenhower U. Akgun et al. Proposal to Upgrade the MIPP Experiment, hep-ex/ , U. Akgun et al. Complete Test of 2000 CMS HF Calorimeter PMTs, Nuclear Instruments and Methods A 550, , A. Ocherashvili U. Akgun et al., Confirmation of the Doubly Charmed Baryon Ξ cc + (3520) via its Decay to p D + K -, hep-ex/ , Physics Letters B 628:18-24, U. Akgun et al., Comparison of PMTs from three different manufacturers for the CMS-HF Forward Calorimeter IEEE Transactions on Nuclear Science. Vol. 51, No. 4, August, A.V. Evdokimov U. Akgun et al., First Observation of a Narrow Charm-Strange Meson D+(SJ)(2632) à D+ (S)ETA and D0 K+, Physical Review Letters 93:242001, hepex/ , Phys.Rev.Lett.93:242001, S. Ayan U. Akgun et al., Energy Resolution and the Linearity of the CMS Forward Quartz Fiber Calorimetry Pre-Production-Prototype (PPP-I). Journal of Physics G: Nucl. Part. Phys. 30, N33-N44, Dumanoglu U. Akgun et al., Radiation-hardness studies of high OH- content quartz fibres irradiated with 500 MeV electrons, Nuclear Instruments and Methods A 490: , 2002.