Ph.D. Theses: Recent submissions

  • Investigation of oscillatory mechanisms and thalamo-cortical circuitry of the visual system by simultaneous EEG-fMRI 
    Bayram, Ali. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2015., 2015.)
    Neural oscillation is an indispensable phenomena in the functioning of the cortical networks. Evoked neural oscillations triggered by external rhythmic stimulation mimic spontaneous ongoing oscillations, thus could shed ...
  • Antibacterial photodynamic therapy with indocyanine green and near-infrared light 
    Topaloğlu, Nermin. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2014., 2014.)
    Increase in antibiotic-resistance is a worldwide health problem which may result in septicemia and subsequent death in recent years. Some of these deaths are caused by nosocomial, burn or chronic wound infections. Photodynamic ...
  • Time-frequency and time-scale analysis of non-stationary biomedical signals 
    Serbes, Görkem. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2014., 2014.)
    Fourier transform (FT), which assumes that the analyzed signal is stationary, is not entirely appropriate to analyze biomedical signals since they are in non-stationary nature. To overcome this drawback, FT can be applied ...
  • MRI assessment of in vivo epimuscular myofascial force transmission 
    Yaman, Alper. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2014., 2014.)
    Recent developments have been evolving magnetic resonance imaging (MRI) to a combined tool in order to assess human anatomy and physiology in vivo. In the present thesis 3D high resolution anatomic and di usion weighted ...
  • Mechanics of spastic muscle and effects of treatment techniques: assessments with intra-operative and animal experiments 
    Ateş, Filiz. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2013., 2013.)
    Present thesis is focused on mechanics of spastic human muscles and the e ects of widely used treatment methods in the context of the determinant role of epimuscular myofascial force transmission (EMFT). A novel intra-operative ...
  • Detection and assessment of cardiac patent foramen ovale 
    Parlak, İsmail Burak. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2013., 2013.)
    Arterial microemboli are gas lled structures which are formed in intravascular and extravascular environment. They are characterized in spherical or ellipsoid forms which would cause diseases in a broad range from stroke ...
  • Effects of mechanical and temporal parameters on tactile psychophysical responses 
    Yıldız, Mustafa Zahid. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2013., 2013.)
    Tactile feedback is becoming more important in clinical devices and engineering. Therefore, studies on basic sensory processing in the somatosensory system are essential. In this thesis, the mechanical and temporal parameters ...
  • A model of active and attentive vision 
    Soyer, Çağatay. (Thesis (Ph.D.) - Bogazici University. Institute of Biomedical Engineering, 2002., 2002.)
    Biological vision systems explore their environment by allocating their resources to interesting parts of a scene, using both physical and mental attention mechanisms. The result of this active and attentive vision behavior ...
  • Revealing gene interactions using Bayesian Networks 
    İşçi, Şenol. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2012., 2013.)
    High throughput biological data (HTBD) targeting understanding of biochemical interactions in the cell can best be analyzed, and explained within the context of networks and pathways. Such data generally represents stochastic ...
  • Neuroimaging of brain activity using spatio-temporal signal modelling 
    Duru, Adil Deniz. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2012., 2012.)
    Functional neuroimaging enables us to obtain information about how the brain responds to cognitive and/or emotional tasks. Neuroimaging of brain activity requires spatio-temporal modelling of measured electrical and/or ...
  • Diffusion tensor fiber tracking with self-organizing feature maps 
    Göksel, Dilek. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2013., 2013.)
    The diffusion tensor imaging (DTI) is unique in its ability to estimate the white matter (WM) ber tracts in vivo noninvasively. The post-processing of DT images needs proper image analysis and visualization tools. However, ...
  • Clinical grade active guidewire design for cardivascular interventional MRI 
    Sönmez, Merdim. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2013., 2013.)
    In cardiovascular interventions, magnetic resonance imaging (MRI) can be used as an alternative to X-ray uoroscopy to address problems such as soft tissue contrast and exposed ionized radiation. In recent years, advances ...
  • Design and development of thulium laser system for medical applications 
    Bilici, Temel. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2012., 2012.)
    The Thulium (Tm:YAP) laser is suitable for medical applications due to strong absorption in water. In this thesis, a computer controlled Tm:YAP laser system with a power output up to 1 W and emission wavelength of 1980 nm ...
  • Evaluation of altitude decompression procedures and development of new decompression strategies 
    Egi, Salih Murat. (Thesis (Ph.D.) - Bogazici University. Institute of Biomedical Engineering, 1999., 1999.)
    Diving at altitude requires different tables than at sea level due to the reduction in surface level ambient pressure. In this work, the rationale for the algorithms extrapolating the sea level diving data are reviewed. ...
  • Skin tissue welding with near infrared lasers: investigation of the optimal parameters 
    Tabakoğlu, Haşim Özgür. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2010., 2010.)
    Laser tissue welding/soldering is an alternative to conventional closure techniques in surgery. In the present study, the closure capability and the contribution to recovery period of laser welding techniques were investigated ...
  • A neurovascular coupling model based on nitric oxide and carbon dioxide and its validation with two-photon microscopy imaging 
    Yücel, Meryem Ayşe. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2010., 2010.)
    Understanding neurovascular coupling is of paramount importance since while a normal coupling is vital for a healthy functioning brain, the impairment in coupling is the underlying factor of many neurodegenerative diseases. ...
  • Photofrin and indocyanine green-mediated photodynamic therapy in cancer treatment 
    Bozkulak, Özgüncem. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2010., 2010.)
    Photodynamic therapy (PDT) is a minimally invasive therapeutic approach for clinical treatment of cancer. PDT-mediated oxidative stress leads to cell death and can elicit the expression of genes associated with cell survival, ...
  • İnvestigation of the alterations in motor units in neurologic disorders by scanning electromyography 
    Göker, İmran. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2009., 2009.)
    In this study, the alterations in the length of cross-sections of MU and the changes in maximum amplitude of MUAPs in each MU in patients with JME were investigated. An experimental setup of scanning EMG was built and 3-D ...
  • Clinical grade active guidewire and catheter for interventional cardiovascular MRI 
    Kocatürk, Özgür. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2009., 2009.)
    The success and safety of interventional magnetic resonance imaging (MRI) procedures requires conspicuous intravascular instruments that can be distinguished from surrounding tissues. In this dissertation work, an "active" ...
  • Accuracy improvements of NIRS and investigation of muscle oxidative metabolism 
    Şayli, Ömer. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2009., 2009.)
    In the rst part of the thesis, the e ect of fat layer on continuous wave near infrared spectroscopy (cw-NIRS) measurements were investigated in detail, both in terms of underestimation error (caused by homogeneous medium ...

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