Mehmet Fatih Yanik


Last Name

Yanik

First Name

Mehmet Fatih

ORCID

0000-0002-8963-2893

Organisational unit

09474 - Yanik, Mehmet Fatih / Yanik, Mehmet Fatih

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Publications 1 - 10 of 25
  • Magnetic-visual sensor fusion-based dense 3d reconstruction and localization for endoscopic capsule robots
    Item type: Working Paper
    Turan, Mehmet; Almalioglu, Yasin; Ornek, Evin Pinar; et al. (2018)
    arXiv
    Reliable and real-time 3D reconstruction and localization functionality is a crucial prerequisite for the nav- igation of actively controlled capsule endoscopic robots as an emerging, minimally invasive diagnostic and therapeutic tech- nology for use in the gastrointestinal (GI) tract. In this study, we propose a fully dense, non-rigidly deformable, strictly real- time, intraoperative map fusion approach for actively controlled endoscopic capsule robot applications which combines mag- netic and vision-based localization, with non-rigid deformations based frame-to-model map fusion. The performance of the proposed method is demonstrated using four different ex-vivo porcine stomach models. Across different trajectories of varying speed and complexity, and four different endoscopic cameras, the root mean square surface reconstruction errors 1.58 to 2.17 cm.
  • Stopping Light in a Waveguide with an All-Optical Analog of Electromagnetically Induced Transparency
    Item type: Journal Article
    Yanik, Mehmet Fatih; Suh, Wonjoo; Wang, Zheng; et al. (2004)
    Physical Review Letters
    We introduce a new all-optical mechanism that can compress the bandwidth of light pulses to absolute zero, and bring them to a complete stop. The mechanism can be realized in a system consisting of a waveguide side coupled to tunable resonators, which generates a photonic band structure that represents a classical analogue of the electromagnetically induced transparency. The same system can also achieve a time-reversal operation. We demonstrate the operation of such a system by finite-difference time-domain simulations of an implementation in photonic crystals.
  • Electrocorticography based monitoring of anaesthetic depth in mice
    Item type: Working Paper
    Schmidt, Dominik; English, Gwendolyn; Gent, Thomas; et al. (2021)
    bioRxiv
    To improve animal welfare and data quality and reproducibility during research conducted under anaesthesia, anaesthetic depth in laboratory animals must be precisely monitored and controlled. While a variety of methods have been developed to estimate the depth of anaesthesia in humans, such tools for monitoring anaesthetic depth in laboratory animals remain limited. Here we propose an epidural electrocorticogram-based monitoring system that accurately tracks the depth of anesthesia in mice receiving inhalable isoflurane anaesthesia. Several features of the electrocorticogram signals exhibit robust modulation by the concentration of the administered anesthetic, notably, corticocortical coherence serves as an excellent indicator of anaesthetic depth. We developed a gradient boosting regressor framework that utilizes the extracted features to accurately estimate the depth of anaesthesia. Our method for feature extraction and estimation is conducted with a latency of only ten seconds, establishing a system for the real-time tracking of anaesthetic depth in mice.
  • High-throughput hyperdimensional vertebrate phenotyping
    Item type: Journal Article
    Pardo-Martin, Carlos; Allalou, Amin; Medina, Jaime; et al. (2013)
    Nature Communications
  • Unsupervised Odometry and Depth Learning for Endoscopic Capsule Robots
    Item type: Working Paper
    Turan, Mehmet; Ornek, Evin Pinar; Ibrahimli, Nail; et al. (2018)
    arXiv
    In the last decade, many medical companies and research groups have tried to convert passive capsule endoscopes as an emerging and minimally invasive diagnostic technology into actively steerable endoscopic capsule robots which will provide more intuitive disease detection, targeted drug delivery and biopsy-like operations in the gastrointestinal(GI) tract. In this study, we introduce a fully unsupervised, real-time odometry and depth learner for monocular endoscopic capsule robots. We establish the supervision by warping view sequences and assigning the re-projection minimization to the loss function, which we adopt in multi-view pose estimation and single-view depth estimation network. Detailed quantitative and qualitative analyses of the proposed framework performed on non-rigidly deformable ex-vivo porcine stomach datasets proves the effectiveness of the method in terms of motion estimation and depth recovery.
  • Subcellular in vivo time-lapse imaging and optical manipulation of C. elegans in standard multiwell plates
    Item type: Journal Article
    Rohde, Christopher B.; Yanik, Mehmet Fatih (2011)
    Nature Communications
  • Synapse microarray identification of small molecules that enhance synaptogenesis
    Item type: Journal Article
    Shi, Peng; Scott, Mark A.; Ghosh, Balaram; et al. (2011)
    Nature Communications
  • Magnetic-Visual Sensor Fusion-based Dense 3D Reconstruction and Localization for Endoscopic Capsule Robots
    Item type: Conference Paper
    Turan, Mehmet; Almalioglu, Yasin; Ornek, Evin Pinar; et al. (2018)
    2018 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS)
    Reliable and real-time 3D reconstruction and localization functionality is a crucial prerequisite for the navigation of actively controlled capsule endoscopic robots as an emerging, minimally invasive diagnostic and therapeutic technology for use in the gastrointestinal (GI) tract. In this study, we propose a fully dense, non-rigidly deformable, strictly real-time, intraoperative map fusion approach for actively controlled endoscopic capsule robot applications which combines magnetic and vision-based localization, with non-rigid deformations based frame-to-model map fusion. The performance of the proposed method is evaluated using four different ex-vivo porcine stomach models. Across different trajectories of varying speed and complexity, and four different endoscopic cameras, the root mean square surface reconstruction errors vary from 1.58 to 2.17 cm.
  • Time Reversal of Light with Linear Optics and Modulators
    Item type: Journal Article
    Yanik, Mehmet Fatih; Fan, Shanhui (2004)
    Physical Review Letters
    We introduce a new physical process that can perform a complete time-reversal operation on any electromagnetic pulse. The process uses only small refractive index modulations of linear optical elements. No nonlinear multiphoton effects such as four-wave mixing are required. The introduced process can be implemented on chip with standard semiconductor materials. Furthermore, the same process can be used to compress or expand the spectrum of electromagnetic waves while completely preserving the coherent information. We exhibit the time-reversal process by first-principles simulations of microcavity complexes in photonic crystals.
  • Voices of biotech research
    Item type: Other Journal Item
    Annabi, Nasim; Yanik, Mehmet Fatih; Platt, Randall; et al. (2021)
    Nature Biotechnology
    Nature Biotechnology asks a selection of faculty about the most exciting frontier in their field and the most needed technologies for advancing knowledge and applications.
Publications 1 - 10 of 25