Ph.D. Theses: Recent submissions

  • Human muscle structure-function relation in-vivo using magnetic resonance imaging modalities 
    Karakuzu, Agah. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022)
    Non-uniform muscle deformation has become a frequent finding in biomechanics research, using imaging modalities operating at different resolution levels from sarcom eres to fascicles. Mainly due to technical limitations, ...
  • Multimodal investigation of fMRI and fNIRS derived breath hold BOLD signals with an expanded balloon model 
    Emir, Uzay Emrah. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2008., 2008.)
    Multimodal investigation of blood oxygenation level-dependent (BOLD) signal, using both functional near infrared spectroscopy (fNIRS) and functional magnetic resonance imaging (fMRI), may give further insight to the ...
  • Development of software tools for improved 1H magnetic resonance spectroscopic imaging 
    Cengiz, Sevim. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Proton magnetic resonance spectroscopic imaging (1H-MRSI) provides a non invasive, spatially resolved evaluation of brain metabolism. In the first part of this study, an open-source data analysis software, which includes ...
  • Assessment of active state titin's effects on muscle mechanics using finite element modeling 
    Çankaya, Alican Onur. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Calcium dependent mechanical behaviors characterize titin's contribution to force production in three-myo lament paradigm: (1) Sti ening of PEVK (Proline, Glutamate, Valine, Lysine) segment, and (2) reduction of free-spring ...
  • Biomedical applications of sharkskin mimicked polymeric membranes 
    Rostami, Sabra. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Infection is one of the biggest challenges of implantable biomaterials. The diffi culty of eliminating implant-associated infection imposes a huge burden on the patient's life quality aside from the considerable financial ...
  • Investigation of kinesio taping effects on muscular mechanics with novel imaging analyses 
    Yıldız, Seda. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Kinesio Taping (KT) is an elastic therapeutic tape that is utilized for the pre vention and treatment of various neuromusculoskeletal disorders and sports injuries. Despite its widespread use especially improving muscular ...
  • Indocyanine green loaded poly(lactic acid) nanoparticles mediated phototherapy of cancer 
    Güney, Melike. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Phototherapy is a promising approach for cancer treatment which can be uti lized alone or in combination with other treatment modalities. Among the available photosensitizers for phototherapy, indocyanine green (ICG) merits ...
  • Skeletal muscle mechanics and spasticity management :|human and animal experiments 
    Kaya Keleş, Cemre Su. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Being the most common motor disability in childhood, cerebral palsy (CP) describes a movement disorder for which the exact underlying mechanism is unclear, and no cure is available. Yet, local injection of botulinum toxin ...
  • Photodynamic therapy with upconversion nanoparticles 
    Güleryüz, Burcu. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2022., 2022.)
    Photodynamic therapy (PDT) is an alternative approach to conventional meth ods (i e. chemotherapy and radiotherapy) that can be utilized to treat various cancers with less side effects. However, PDT has some restrictions ...
  • Prediction of psychophysical responses from spike recordings in rat sensorimotor cortex by using Bayesian models 
    Öztürk, Sevgi. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    In this thesis, we studied the fundamental question in neuroscience: how per ception is built based on the sensory stimuli from the physical world and turned into motor actions in the face of uncertain neural representations. ...
  • Three dimensional modeling of the knee joint: prediction of ligament related gait abnormalities 
    Akalan, N. Ekin. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2007., 2007.)
    The purpose of this study is to investigate the affect of anterior bundle of ACL (aACL), anterior portion of posterior cruciate ligament PCL (aPCL), anterior and deep portions of MCL (aMCL, dMCL) and the tibiofemoral ...
  • Bioimpedance spectroscopy in prediction of type I osteoporosis in menopaused women 
    Matur, Fırat. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    Bone mineral density (BMD) is a measure of survival for men and women, and it is used to diagnose Osteoporosis that can be diagnosed and treated with an e ective screening. We measured bioimpedance spectroscopy (BIS) ...
  • Investigating the brain energy dynamics during language activity 
    Mutlu, Murat Can. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    The present dissertation aimed to measure the overall cognitive cost of language and visual processing to the brain with ear temperature measurement. Three verbal auditory experiments revealed that processing words caused ...
  • Investigation of functional brain connectivity patterns in temporal lobe epilepsy 
    Dumlu, Seda Nilgün. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    In this study, functional connectivity using both Pearson and partial correla tion coe cients and inter-subject variability were investigated in resting state func tional resonance imaging (rs-fMRI) scans that belong to ...
  • Novel biopsy needle and assisted robotic system design for prostate biopsy procedure under MRI 
    Mahçiçek, Davut İbrahim. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    Prostate cancer (PCa) is one of the most common cancer type among men. The mortality rate for prostate cancer is signi cantly high compared to other common cancer types which makes it even more concerning for elderly males. ...
  • Deep learning approaches for the localization of capsule endoscope 
    Altuğ, Kutsev Bengisu. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    Deep learning techniques hold promise to develop dense topography reconstruc tion and pose estimation methods for endoscopic videos. However, currently available datasets do not support effective quantitative benchmarking. ...
  • A study in cultured neuronal networks 
    Bayat, Fazıl Kemal. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    In this study, two platforms, combining multi-electrode arrays and optogenetic methods, were developed to study living neural networks in vitro. Both platforms, which included stimulation of neural networks developed in ...
  • Clinical grade medical device technologies for interventional cardivascular magnetic resonance imaging procedures 
    Yıldırım, Dursun Korel. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    Magnetic Resonance Imaging (MRI) is a promising candidate against X-ray fluoroscopy for the image-guidance of minimally invasive procedures thanks to its ion izing radiation-free, exquisite soft tissue contrast and ability ...
  • Improved multi inversion time arterial spin labeling MRI of the brain 
    Arslan, Dilek Betül. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    Arterial spin labeling magnetic resonance imaging (ASL MRI) measures cere bral blood flow (CBF) quantitively without using any contrast agent or radiation.The calculation of labelled blood arrival time to tissue and arterial ...
  • Biophysical approaches for modulating neural differentiation 
    Özgün, Alp. (Thesis (Ph.D.)-Bogazici University. Institute of Biomedical Engineering, 2021., 2021.)
    Neural differentiation of stem cells is central to regenerative strategies towards neurodegenerative diseases. The vast majority of literature shows chemical, biochem ical and genetic approaches to control and utilize ...

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