BioAFM/MicroSystems LAB

@Boğaziçi University

 

Publications

Journal Papers

  1. B Camli, E Kusakci, B Lafci, S Salman, H Torun, AD Yalcinkaya, "Cost-Effective, Microstrip Antenna Driven Ring Resonator Microwave Biosensor for Biospecific Detection of Glucose", IEEE Journal of Selected Topics in Quantum Electronics, doi: 10.1109/JSTQE.2017.2659226, 2017.

  1. BD Sahbaz, O Sezerman, H Torun, NB Iyison, “Ligand binding pocket of a novel Allatostatin receptor type C of stick insect, Carausius morosus”, Scientific Reports, 7, 41266, 2017 pdf
  1. S Sevim, S Ozer, L Feng, J Wurzel, A Fakhraee, N Shamsudhin, B Jang, C Alcantara, O Ergeneman, E Pellicer, J Sort, T Lühmann, S Pane, BJ Nelson, H Torun, "Dually actuated atomic force microscope with miniaturized magnetic bead-actuators for single-molecule force measurements", Nanoscale Horizons, doi: 10.1039/C6NH00134C, 2016 pdf.

  1. U Adiyan, F Civitci, O Ferhanoglu, H Torun, H Urey, "A Prism-Based Optical Readout Method for MEMS Bimaterial Infrared Sensors", IEEE Photonics Technology Letters, 28, 1866-1869, 2016 pdf
  1. S Sevim, N Shamsudhin, S Ozer, L Feng, A Fakhraee, O Ergeneman, S Pane, BJ Nelson, H Torun, "An atomic force microscope with dual actuation capability for biomolecular experiments", Scientific Reports, 6, 27567, 2016, doi:10.1038/srep27567 pdf

  1. H Bilgin, S Zahertar, S Sadeghzadeh, AD Yalcinkaya, H Torun, "A MEMS-based terahertz detector with metamaterial-based absorber and optical interferometric readout", Sensors and Actuators A, 244 (2016), doi: 10.1016/j.sna.2016.04.021 pdf
  1. H Torun, S Sadeghzadeh, H Bilgin, AD Yalcinkaya, "A micromachined freestanding terahertz absorber with an array of metallic patches", AIP Advances 6, 035323 (2016); doi: 10.1063/1.4945417 pdf

  1. S Zahertar, AD Yalcinkaya, H Torun, "Rectangular split-ring resonators with single-split and two-splits under different excitations at microwave frequencies", AIP Advances 5, 117220 (2015); doi: 10.1063/1.4935910 pdf
Zahertar_setup
  1. HO Cirkinoglu, H Bilgin, F Civitci, H Torun, O Ferhanoglu, "Fiber temperature sensor utilizing a thermomechanical MEMS detector", IEEE/OSA Journal of Lightwave Technology, DOI:10.1109/JLT.2015.2502992, 2015. pdf

MEMS_fiber-probe
  1. J Pokki, J Parmar, O Ergeneman, H Torun, M Guerrero, E Pellicer, J Sort, S Pane, B J Nelson, "Mobility-enhancing coatings for vitreoretinal surgical devices: hydrophilic and enzymatic coatings investigated by microrheology", ACS Applied Materials and Interfaces, doi: 10.1021/acsami.5b06937,  2015. pdf

vitreous_probe
  1. J Pokki, O Ergeneman, S Sevim, V Enzmann, H Torun, B J Nelson, "Measuring localized viscoelasticity of the vitreous body using intraocular microprobes", Biomedical Microdevices, doi:10.1007/s10544-015-9988-z  2015.pdf

  1. M. H. M. Kouhani, B. Camli, A. U. Cakaci, E. Kusakci, B. Sarioglu, G. Dundar, H. Torun, and A. D. Yalcinkaya, “Integrated Silicon Photovoltaics on CMOS with MEMS Module for Catheter Tracking,", IEEE/OSA Journal of Lightwave Technology, doi:10.1109/JLT.2015.2396117, 2015. pdf

  1. U Adiyan, F Civitci, O Ferhanoglu, H Torun, H Urey, “A 35 μm pitch IR Thermo-Mechanical MEMS Sensor with AC-coupled Optical Readout”, IEEE Journal of Selected Topics in Quantum Electronics, accepted for publication, 2014 pdf
  1. H Torun, FC Top, G Dundar, AD Yalcinkaya, "An antenna-coupled split-ring resonator for biosensing", Journal of Applied Physics, doi: 10.1063/1.4896261, 2014. pdf
srr_biosensor
  1. S Sevim, S Tolunay, H Torun, "Micromachined sample stages to reduce thermal drift in atomic force microscopy", Microsystem Technologies, DOI 10.1007/s00542-014-2251-3, 2014; pdf
  1. H Torun, S Sadeghzadeh, AD Yalcinkaya, "Tunable overlapping half-ring resonator", Rev. Sci. Instrum. 84, 106107 (2013);  pdf
  1. RB Erarslan, U Adiyan, SZ Lulec, S Olcer, Y Temiz, Y Leblebici, H Torun, H Urey, "Design and characterization of micromachined sensor array integrated with CMOS based optical readout", Sensor Actuat A-Phys, DOI: 10.1016/j.sna.2013.10.014, 2013. pdf
  1. H Torun, O Finkler, F L Degertekin, “Atomic force microscope based biomolecular force-clamp measurements using a micromachined electrostatic actuator”, http://dx.doi.org/10.1016/j.ultramic.2012.07.023 , Ultramicroscopy, 2012 pdf
ForceClamp
  1. H Torun, D Torello, F L Degertekin, “Seesaw actuation of atomic force microscope probes for improved imaging bandwidth and displacement range”, Rev. Sci. Inst., 82, 086104 (2011) (Also selected by the Virtual Journal of Nanoscale Science and Technology, 24, http://www.vjnano.org/nano/ ) pdf
SeeSaw_actuator
  1. F L Degertekin, H Torun, “Comment on "MEMS-based high speed scanning probe microscopy" [Rev. Sci. Instrum. 81, 043702 (2010)]”, Rev. Sci. Inst., 81, (11), 117101-117101 (2010)  pdf

  1. K K Sarangapani, H Torun, O Finkler, C Zhu, F L Degertekin, "Membrane-based Actuation for High Speed Dynamic Force Spectroscopic Studies Using AFM", 2010, Eur. Biophys. J., DOI:10.1007/s00249-009-0575-1 pdf 
FastPulling
  1. H Torun, O Finkler, F L Degertekin, “A method for athermalization of atomic force microscope probes using matched structures”, Rev. Sci. Inst., 80, 076103, 2009 (Also selected by the Virtual Journal of Nanoscale Science and Technology, http://www.vjnano.org/nano/) pdf
 AthermalAFM
  1. H Torun, K K Sarangapani, F L Degertekin, “Fabrication and Characterization of Micromachined Active Probes with Polymer Membranes for Biomolecular Force Spectroscopy”, IEEE J Microelectromech S, 19 (5), 1021-1028 (2010) pdf  
PolymerMembrane
  1. M F Toy, O Ferhanoglu, H Torun, H Urey, “Uncooled Infrared Thermomechanical Detector Array: Design, Fabrication and Testing”, Sensor Actuat A-Phys, 2009, DOI:10.1016/j.sna.2009.02.010 pdf
 IR_detector
  1. H Torun, K K Sarangapani, F L Degertekin, C Zhu, “Spring constant tuning of active atomic force microscope probes using electrostatic spring softening effect", Appl. Phys. Lett., 91 (2007) 253113 (Also selected by the Virtual Journal of Nanoscale Science and Technology, http://www.vjnano.org/nano/ ) pdf
 k_tuning
  1. H Torun, J Sutanto, K K Sarangapani, P Joseph, F L Degertekin, C Zhu, "Micromachined membrane-based active probe for biomolecular mechanics measurement", Nanotechnology, 18 (2007) 165303 pdf
 Displacement_resolution
  1. H Torun, H Urey, “Uncooled thermal camera with optical readout”, Opto-Electron. Rev. 14, 55 (2006) pdf
 Uncooled_IR
  1. H Torun, H. Urey, “Thermal Deflections in Multilayer Microstructures and Athermalization”, J Appl. Phys. 100, 023527 (2006) pdf
Athermalization

Thesis

  1. L Feng, "A Software-Based Controller for Single-Molecule Experiments Using an Atomic Force Microscope Integrated with a Magnetic Manipulator", MS Thesis, Boğaziçi University, 2015
  2. N Takbiri, "Design and Development of Hall Sensors for Magnetic Microsystems", MS Thesis, Boğaziçi University, 2015
  3. S Tolunay, "Analysis of Thermal Drift in Atomic Force Microscope Cantilevers and Design of Compensating MEMS-Based Microstages", MS Thesis, Boğaziçi University, 2012
  4. I Sadeghzadeh, "Split Ring Resonator and Metamaterials at Microwave Regime, Numerical Analysis, Design, Characterization", MS Thesis, Boğaziçi University
  5. H Torun, “Micromachined Membrane-Based Active Probes for Biomolecular Force Spectroscopy”, PhD Dissertation, Georgia Inst. of Tech., 2009 pdf
  6. H Torun, "Design and Fabrication of Thermo – Mechanical Thermal Detector Arrays with Optical Readout", M.Sc. Thesis, Koc University, 2005 pdf

Conference Papers and Presentations

  1. O Cirkinoglu, H Bilgin, F Civitci, H Torun, O Ferhanoglu, "Fiber temperature sensor utilizing a thermomechanical MEMS detector", Proc. SPIE 9958, Photonic Fiber and Crystal Devices: Advances in Materials and Innovations in Device Applications X, 995813 (September 7, 2016); doi:10.1117/12.2237134
  2. B Camli, E Kusakci, B Lafci, S Salman, H Torun, AD Yalcinkaya, "A Microwave Ring Resonator Based Glucose Sensor", Eurosensors 2016, September 4-7 2016, Budapest, Hungary
  3. G Ekinci, AD Yalcinkaya, G Dundar, H Torun, "Split-Ring Resonator-Based Strain Sensor on Flexible Substrates for Glaucoma Detection", MME 2016 27th Micromechanics and Microsystems Europe Conference, 28-30 August 2016, Cork, Ireland 

  4. B Camli, E Kusakci, H Torun, A D Yalcinkaya, "Split Ring Resonator Microwave Biosensor for Glucose Detection, MME 2015 26th Micromechanics and Microsystems Europe Conference 

  5. H Bilgin, A D Yalcinkaya, H Torun, "MEMS-Based Terahertz Detectors", Eurosensors 2015, doi: 10.1016/j.proeng.2015.08.556
  6. H Torun, S Sadeghzadeh, H Bilgin, A D Yalcinkaya, "A Suspended Array of Square Patch Metamaterial Absorbers for Terahertz Applications", Eurosensors 2015, doi: 10.1016/j.proeng.2015.08.557
  7. Kouhani Mohammad Hossein Mazaheri, Cakaci Ahmet Uraz, Kusakci Emre, Torun Hamdi, Yalcinkaya Arda Yalcinkaya (2014). Design, Fabrication and Characterization of a RF Mems Resonator For MRI Applications. MME 2014 25th Micromechanics and Microsystems Europe Conference 

  8. Sadeghzadeh Seyedehayda, Yalcinkaya Arda Deniz, Torun Hamdi (2014). An Electromagnetic Tuning Method For Split-Ring Resonators. MME 2014 25th Micromechanics and Microsystems Europe Conference
  9. H Torun, FC Top, G Dundar, AD Yalcinkaya, "A Split-Ring Resonator-Based Microwave Sensor for Biosensing", International Conference on Optical MEMS and Nanophotonics, 17-21 August 2014, Glasgow, Scotland.
  10. U Adiyan, F Civitci, RB Erarslan, O Ferhanoglu, H Torun, H Urey, "Simultaneous Two-Wavelength Readout for Thermo-Mechanical MEMS Detectors", International Conference on Optical MEMS and Nanophotonics, 17-21 August 2014, Glasgow, Scotland.
  11. S Sevim, S Ozer, L Feng, K Crawford, O Karaca, H Torun, "Design, Implementation and Characterization of a 3D-Printed AFM Head with Piezotube and Electromagnetic Actuators for Biomolecular Applications", 18th International Microscopy Congress (IMC 2014),7-12 September 2014, Prague, Czech Republic
  12. K Crawford, B Duan, NB Iyison, H Torun, "Characterization of Elasticity of Wild-Type and Modified Cancer Cells using Atomic Force Microscopy-Based Methods", 18th International Microscopy Congress (IMC 2014),7-12 September 2014, Prague, Czech Republic
  13. A Fakhraee, N Shamsudhin, S Sevim, A Lindo, S Pane, O Ergeneman, H Torun, B Nelson, "Electromagnetically Actuated Cantilevers Using Magnetic Micropillars for Atomic Force Microscopy", IEEE International Magnetics Conference, May 4-8 2014, Dresden, Germany
  14. S Sevim, S Ulus, S Tolunay, H Torun, “Micromachined sample stages to eliminate thermal drift in atomic force microscopy”, MME 2013 24th Micromechanics and Microsystems Europe Conference, September 1-4, 2013, Espoo, Finland.
  15. AU Cakaci, MHM Kouhani, H Torun, AD Yalcinkaya, “An electromagnetic mems-based resonator design for catheter tracking in MRI”, MME 2013 24th Micromechanics and Microsystems Europe Conference, September 1-4, 2013, Espoo, Finland.
  16. J Pokki, O Ergeneman, S Pane, B Nelson, H Torun, “Nanostructured spectrally selective absorber by colloidal lithography”, MME 2013 24th Micromechanics and Microsystems Europe Conference, September 1-4, 2013, Espoo, Finland.
  17. J Pokki, O Ergeneman, S Sevim, H Torun, BJ Nelson, "Vitreaous humor viscoelasticity measured by intraocular microprobes", Euromech Colloquium 533, Biomechanics of the Eye, July 22-24, 2013, Genoa, Italy
  18. RB Erarslan, et al., “MEMS sensor array platform integrated with CMOS based optical readout”, The 26th IEEE International Conference on Micro Electro Mechanical Systems, January 20 – 24, 2013, Taipei, Taiwan.
  19. U Adiyan, RB Erarslan, O Ferhanoglu, H Torun, H Urey, “Diffraction grating-based optical readout for thermal imaging”, Proc. SPIE 8550, Optical Systems Design 2012, 855026 (December 18, 2012); doi:10.1117/12.981443, November 2012 in Barcelona, Spain.
  20. J Pokki, O Ergeneman, C Bergeles, H Torun, BJ Nelson, "Localized Viscoelasticity Measurements with Untethered Intravitreal Microrobots", Proc. in 34th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC2012), San Diego, USA, August 2012.
  21. S Tolunay, S Sevim, H Torun, “Analysis of Thermal Drift in Atomic Force Microscope Cantilevers and compensating Micro-structures”, Seeing at the Nanoscale 2012, July 9th-11th 2012, Bristol, UK.
  22. H  Torun, O Finkler, F L Degertekin, “Biomolecular force-clamp measurements using a micromachined electrostatic membrane actuator”, International Meeting on AFM in Life Sciences and Medicine IV, Paris, France, Aug 23-27 2011
  23.  H Torun, “Analysis of Frequency-dependent Viscous Damping for Micromachined Membranes in Viscous Fluid”, 4th South-East Workshop of Soft Materials, Atlanta, GA, May 13 2010
  24. H Torun, K K Sarangapani, O Finkler, F L Degertekin, "Micromachined active probes with polymer membranes for single-molecule force-clamp and pulling experiments", Seeing at Nanoscale VII, Santa Barbara, CA, July 28-31 2009
  25. H Torun, “Micromachined Membrane-Based Active Probes for Biomolecular Force Spectroscopy”, 3rd South-East Workshop of Soft Materials, Atlanta, GA, May 15 2009
  26. H Torun, K K Sarangapani, F L Degertekin, C Zhu, “Parallel active polymer probes with integrated interferometer for single molecule force spectroscopy”, International Meeting on AFM in Life Sciences and Medicine II, Monterey, CA, Oct 15-18 2008
  27. H Torun, K K Sarangapani, C Zhu, F L Degertekin, “Single molecule force spectroscopy using active polymer membrane probes with integrated interferometer”, International Congress of Nanotechnology (ICN+T 2008), Keystone, Co, July 20-25 2008
  28. H Torun, K K Sarangapani, C Zhu, F L Degertekin, “Active Atomic Force Microscope Probes with Electrostatic Spring Constant Tuning Capability”, International Congress of Nanotechnology (ICN+T 2008), Keystone, Co, July 20-25 2008
  29. F L Degertekin, G Onaran, M Balantekin, H Torun, "Novel AFM probes for fast imaging and quantitative material characterization", MRS Fall Meeting, Boston, MA, Nov 26-30, 2007
  30. M F Toy, O Ferhanoglu, H Torun, F L Degertekin, H Urey, “MOEMS thermal imaging camera”, Research in Microelectronics and Electronics, 2008. PRIME 2008. Ph.D., Istanbul, Turkey, June 22-25, 2008
  31. H Torun, K K Sarangapani, C Zhu, F L Degertekin, "Micromachined membrane-based active probe for biomolecular mechanics measurement", Seeing at Nanoscale V, Santa Barbara, CA, June 24-27 2007
  32. F L Degertekin, A G Onaran, H Torun, M Balantekin, K Sarangapani, C Zhu, "AFM probe structures with integrated interferometric sensing and electrostatic actuation", Kanazawa Workshop on Atomic Force Microscopy, Kanazawa, Japan, January 12-18th, 2007
  33. Ferhanoğlu, M F Toy, H Torun, H Ürey, “Optik Okumalı Soğutmasız Kızılötesi Dedektör”, (in Turkish), 8. Ulusal Fotonik Çalıştayı, Koç Univ, Istanbul, Sep 2006
  34. H Torun, O Ferhanoglu, H Urey, “Thermo-mechanical Detector Array with Optical Readout”, International Conference On Optical MEMS and Their Applications, Montana, August 21-24th, 2006
  35. H Torun, J B Sutanto, K K Sarangapani, C Zhu, F L Degertekin, “Membrane type displacement and force sensing transducer with sub-nano sensitivity for biological applications”, International Congress of Nanotechnology (ICNT 2006), Basel, 30 July - 4 August 2006
  36. H Urey, H Torun, “Optik Okumalı Soğutmasız MEMS-Tabanlı Termal Kamera”, (in Turkish), 7. Ulusal Optik, Elektro-Optik ve Fotonik Calisma Toplantisi, Bilkent University, Ankara, December 2005
  37. H Torun, H Urey, “Uncooled thermal camera with optical readout”, Proc. SPIE Vol. 5957, p. 152-160, Warsaw, August 2005
  38. H Torun, C Ataman, H Urey, “Optik Yontemler ile Dinamik MEMS Karakterizasyonu”, (in Turkish), 6. Ulusal Elektro-Optik Calisma Toplantisi, Sabanci University, Istanbul, December 2004

Patents

  1. H Torun, FL Degertekin, O Finkler, US Patent 8,239,968
  2. H Urey, H Torun, US Patent 8,624,187 (Licensed to ASELSAN)