Now showing items 1-20 of 137

    • Beyond the institutional logics: international level systemic analysis of EU-Turkish relations 

      Cenker-Özek, Işıl Cerem; Oğuzlu, Tarık (Turkish Studies, 2013)
      This article aims to explain the slowing down of European Union (EU)–Turkish relations since the start of the accession negotiations in 2005 with international level systemic analysis. For this purpose, it examines the ...
    • RBPmotif: a web server for the discovery of sequence and structure preferences of RNA-binding proteins 

      Kazan, Hilal; Morris, Quaid (Nucleic acids research, 2013)
      RBPmotif web server (http://www.rnamotif.org) implements tools to identify binding preferences of RNA-binding proteins (RBPs). Given a set of sequences that are known to be bound and unbound by the RBP of interest, RBPmotif ...
    • Target-independent prediction of drug synergies using only drug lipophilicity 

      Kazan, Hilal; Yılancıoğlu, Kaan; Weinstein, Zohar B.; Meydan, Cem; Akhmetov, Azat; Toprak, Işıl; Durmaz, Arda; Iossifov, Ivan; Roth, Frederick P.; Çokol, Murat (Journal of Chemical Information and Modeling, 2014)
      Physicochemical properties of compounds have been instrumental in selecting lead compounds with increased drug-likeness. However, the relationship between physicochemical properties of constituent drugs and the tendency ...
    • An adhesion-dominated rolling Friction regime unique to micro-scale ball bearings 

      Hanrahan, Brendan M.; Misra, Saswat; Beyaz, Mustafa İlker; Feldman, Jeremy H.; Waits, Christopher M.; Ghodssi, Reza (Tribology Letters, 2014)
      We demonstrate that micro-scale rolling bearings exhibit friction and wear properties markedly different from their macro-scale counterparts. A microfabricated testing platform uses variable rolling element diameters or ...
    • On the eigenvalues and eigenvectors of a lorentzian rotation matrix by using split quaternions 

      Özdemir, Mustafa; Erdoğdu, Melek; Şimşek, Hakan (Advances in Applied Clifford Algebras, 2014)
      In this paper, we examine eigenvalue problem of a rotation matrix in Minkowski 3 space by using split quaternions. We express the eigenvalues and the eigenvectors of a rotation matrix in term of the coefficients of the ...
    • An investigation on the electromagnetic design optimization of rotary micromachines with double-layer permanent magnets 

      Özkaya, Kamil Yunus; Beyaz, Mustafa İlker (Sensors and Actuators A: Physical, 2015)
      Electromagnetic design optimization of axial-flux rotary micromachines utilizing double-layer permanent magnets is presented and applied to a micro-scale generator/spirometer currently under development. Double-layer magnet ...
    • Similar and self-similar curves in minkowski n-space 

      Şimşek, Hakan; Özdemir, Mustafa (Bulletin of Korean Mathematical Society, 2015)
      In this paper, we investigate the similarity transformations in the Minkowski n-space. We study the geometric invariants of nonnull curves under the similarity transformations. Besides, we extend the fundamental theorem ...
    • Using data mining techniques for profiling profitable hotel customers: an application of RFM analysis 

      Dursun Cengizci, Aslıhan; Caber, Meltem (Tourism Management Perspectives, 2016)
      This study focuses on profiling profitable hotel customers by RFM analysis, which is a data mining technique. In RFM analysis, Recency, Frequency and Monetary indicators are employed for discovering the nature of the ...
    • Chemogenomics and orthology‐based design of antibiotic combination therapies 

      Chandrasekaran, Sriram; Çokol-Çakmak, Melike; Şahin, Nil; Yılancıoğlu, Kaan; Kazan, Hilal; Collins, James J.; Çokol, Murat (Molecular Systems Biology, 2016)
      Combination antibiotic therapies are being increasingly used in the clinic to enhance potency and counter drug resistance. However, the large search space of candidate drugs and dosage regimes makes the identification ...
    • Modeling the combined effect of RNA-binding proteins and microRNAs in post-transcriptional regulation 

      HafezQorani, Saber; Lafzi, Atefeh; Bruin, Ruben G. de; Zonneveld, Anton Jan van; Veer, Eric P. van der; Aydın Son, Yeşim; Kazan, Hilal (Nucleic Acids Research, 2016)
      Recent studies show that RNA-binding proteins (RBPs) and microRNAs (miRNAs) function in coordination with each other to control post-transcriptional regulation (PTR). Despite this, the majority of research to date has ...
    • Generating hyperbolical rotation matrix for a given hyperboloid 

      Şimşek, Hakan; Özdemir, Mustafa (Linear Algebra and Its Applications, 2016)
      Hyperbolic rotation is hyperbolically the motion of a smooth object on general hyperboloids given by −a1x2+a2y2+a3z2=±λ, λ ∈R+. In this paper, we investigate the hyperbolical rotation matrices in order to get the motion ...
    • Modeling gene regulation in liver hepatocellular carcinoma with random forests 

      Kazan, Hilal (BioMed Research International, 2016)
      Liver hepatocellular carcinoma (HCC) remains a leading cause of cancer-related death. Poor understanding of the mechanisms underlying HCC prevents early detection and leads to high mortality. We developed a random forest ...
    • The development and performance characterization of turbine prototypes for a MEMS spirometer 

      Göreke, Utku; Habibiabad, Sahar; Azgın, Kıvanç; Serinağaoğlu Doğrusöz, Yeşim; Beyaz, Mustafa İlker (IEEE Sensors Journal, 2016)
      The design, optimization, and performance characterization of turbine prototypes for the development of a Microelectromechanical Systems spirometer is reported. Four different turbines were designed based on large-scale ...
    • Bäcklund’s theorem for n dimensional lorentzian submanifold in the minkowski space 𝔼21𝑛−1 

      Şimşek, Hakan; Özdemir, Mustafa (Results in Mathematics, 2016)
      In this paper, Bäcklund’s Theorem is introduced on the Lorentzian n-submanifold of the Minkowski space 𝔼2𝑛−11 by using the method of moving frames. Also, we prove the Integrability Theorem for the Lorentzian n-submanifold ...
    • On conformal curves in 2-dimensional de sitter space 

      Şimşek, Hakan; Özdemir, Mustafa (Advances in Applied Clifford Algebras, 2016)
      In this paper, we examine the pseudo-spherical curves, which are equivalent to each other under the conformal maps preserving a fixed point in the de Sitter 2-space, by using the Clifford algebra Cl 2,1. Also, we find the ...
    • A comprehensive database of high-throughput sequencing-based RNA secondary structure probing data (structure surfer) 

      Berkowitz, Nathan D.; Silverman, Ian M.; Childress, Daniel M.; Kazan, Hilal; Wang, Li-San; Gregory, Brian D. (BMC Bioinformatics, 2016)
      Background: RNA molecules fold into complex three-dimensional shapes, guided by the pattern of hydrogen bonding between nucleotides. This pattern of base pairing, known as RNA secondary structure, is critical to their ...
    • Quaking promotes monocyte differentiation into pro-atherogenic macrophages by controlling pre-mRNA splicing and gene expression 

      Bruin, Ruben G. de; Shiue, Lily; Prins, Jurrien; Boer, Hetty C. de; Singh, Anjana; Fagg, W. Samuel; Gils, Janine M. vans; Duijs, Jacques M. G. J.; Katzman, Sol; Kraaijeveld, Adriaan O.; Bohringer, Stefan; Leung, Wai Y.; Kielbasa, Szymon M.; Donahue, John P.; Zande, Patrick H. J. van der; Sijbom, Rick; Alem, Carla M. A. van; Bot, Ilze; Kooten, Cees van; Jukema, J. Wouter; Van Esch, Hilde; Rabelink, Ton J.; Kazan, Hilal; Biessen, Erik A. L.; Ares, Manuel; Zonneveld, Anton Jan van; Veer, Eric P. van der (Nature Communications, 2016)
      A hallmark of inflammatory diseases is the excessive recruitment and influx of monocytes to sites of tissue damage and their ensuing differentiation into macrophages. Numerous stimuli are known to induce transcriptional ...
    • Inferring RBP-mediated regulation in lung squamous cell carcinoma 

      Lafzi, Atefeh; Kazan, Hilal (Plos One, 2016)
      RNA-binding proteins (RBPs) play key roles in post-transcriptional regulation of mRNAs. Dysregulations in RBP-mediated mechanisms have been found to be associated with many steps of cancer initiation and progression. Despite ...
    • Surface characteristics of scots pine wood heated at high temperatures after weathering 

      Küçüktüvek, Mustafa; Baysal, Ergün; Türkoğlu, Türkay; Peker, Hüseyin; Gündüz, Ahmet; Toker, Hilmi (Wood Research, 2017)
      This study was conducted to investigate some surface properties of wood specimens of heat treated Scots pine (Pinus sylvestris L.) after weathering such as surface hardness, surface roughness, gloss, and color changes. ...
    • Civic space in Turkey: a social capital approach to civil society 

      Cenker-Özek, Işıl Cerem (Turkish Studies, 2017)
      The present study explores civil society organizations’ (CSOs) civic and political potential in Turkey. For this purpose, it generates original data from Antalya and utilizes social network analysis to analyze the CSOs’ ...