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Permanent URI for this collectionhttps://hdl.handle.net/20.500.14288/3
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Publication Metadata only 1.07 - Rubberlike elasticity(Elsevier, 2012) Mark, J.E.; Department of Chemical and Biological Engineering; Erman, Burak; Faculty Member; Department of Chemical and Biological Engineering; College of Engineering; 179997Molecular structure, molecular and phenomenological theories, and computer simulations of amorphous rubberlike polymeric networks of rubber elasticity are discussed. Behavior of responsive gels, multimodal, liquid-crystalline, and reinforced elastomers in the state of thermodynamic equilibrium are outlined. Characterization of structure and properties based on stress–strain experiments, optical and spectroscopic techniques, scanning tunneling microscopy, atomic force microscopy, nuclear magnetic resonance, small-angle and Brillouin scattering, and pulse wave propagation are outlined. © 2012 Elsevier B.V. All rights reserved.Publication Metadata only 10-NJ multipass-cavity femtosecond CR3+: LiCAF laser pumped by low-power single-mode diodes(Optical Society of America, 2009) Kärtner, Franz X.; Fujimoto, James G.; Demirbaş, Ümit; Department of Physics; Sennaroğlu, Alphan; Faculty Member; Department of Physics; College of Sciences; 23851We report on the generation of 9.9-nJ, 95-fs pulses at a repetition rate of 9.58 MHz from a multipass-cavity Cr3+:LiCAF laser pumped by single-mode diodes with a total absorbed pump power of only 540 mW.Publication Metadata only 16.4: the optics of an autostereoscopic multiview display(SID, 2010) Baghsiahi, Hadi; Selviah, David R.; Willman, Eero; Fernández, Anibal; Day, Sally E.; Surman, Phil A.; N/A; Department of Electrical and Electronics Engineering; Department of Electrical and Electronics Engineering; Erden, Erdem; Chellappan, Kishore Velichappattu; Ürey, Hakan; Master Student; Researcher; Faculty Member; Department of Electrical and Electronics Engineering; Graduate School of Sciences and Engineering; College of Engineering; College of Engineering; N/A; N/A; 8579An autostereoscopic head-tracked back projection display that uses an RGB laser illumination source and a fast light engine is described. Images are horizontally scanned columns controlled by a spatial light modulator that directs two or more images in the directions of the apposite viewers 'eyes.Publication Metadata only 2D scanning MEMS stage integrated with microlens arrays for high-resolution beam steering(IEEE, 2009) Department of Electrical and Electronics Engineering; N/A; Department of Electrical and Electronics Engineering; N/A; N/A; N/A; Ürey, Hakan; Gökçe, Sertan Kutal; Holmstrom, Sven; Arslan, Aslıhan; Ataman, Çağlar; Seren, Hüseyin Rahmi; Faculty Member; Master Student; Researcher; Master Student; PhD Student; Master Student; Other; Department of Electrical and Electronics Engineering; College of Engineering; Graduate School of Sciences and Engineering; College of Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; N/A; 8579; N/A; N/A; N/A; N/A; N/A; N/AA novel MEMS stage using one set of comb fingers, capable of 2-axis motion is designed and developed. With an integrated 1.1mm square microlens-array it deflects 40um in-plane at 60V and 95um out-of-plane at 100V.Publication Metadata only 3D articulated shape segmentation using motion information(Institute of Electrical and Electronics Engineers (IEEE), 2010) Department of Computer Engineering; N/A; Yemez, Yücel; Kalafatlar, Emre; Faculty Member; Master Student; Department of Computer Engineering; College of Engineering; Graduate School of Sciences and Engineering; 107907; N/AWe present a method for segmentation of articulated 3D shapes by incorporating the motion information obtained from time-varying models. We assume that the articulated shape is given in the form of a mesh sequence with fixed connectivity so that the inter-frame vertex correspondences, hence the vertex movements, are known a priori. We use different postures of an articulated shape in multiple frames to constitute an affinity matrix which encodes both temporal and spatial similarities between surface points. The shape is then decomposed into segments in spectral domain based on the affinity matrix using a standard K-means clustering algorithm. The performance of the proposed segmentation method is demonstrated on the mesh sequence of a human actor.Publication Metadata only 3D face recognition(Institute of Electrical and Electronics Engineers (IEEE), 2006) Dutaǧaci, H.; Sankur, B.; Department of Computer Engineering; Yemez, Yücel; Faculty Member; Department of Computer Engineering; College of Engineering; 107907In this paper, we compare face recognition performances of various features applied on registered 3D scans of faces. The features we compare are DFT or DCT- based features, ICA-based features and NNMF-based features. We apply the feature extraction techniques to three different representations of registered faces: 3D point clouds, 2D depth images and 3D voxel representations. We also consider block-based DFT or DCT-based local features on 2D depth images and their fusion schemes. Experiments using different combinations of representation types and feature vectors are conducted on the 3D-RMA dataset. / Bu bildiride, kayıtlı 3B yüz taramalarında uygulanan çeşitli özelliklerin yüz tanıma performanslarını karşılaştırıyoruz. Karşılaştırdığımız özellikler, DFT veya DCT tabanlı özellikler, ICA tabanlı özellikler ve NNMF tabanlı özelliklerdir. Öznitelik çıkarma tekniklerini kayıtlı yüzlerin üç farklı temsiline uyguluyoruz: 3B nokta bulutları, 2B derinlik görüntüleri ve 3B voksel temsilleri. Ayrıca, 2D derinlik görüntüleri ve bunların füzyon şemaları üzerindeki blok tabanlı DFT veya DCT tabanlı yerel özellikleri de dikkate alıyoruz. 3D-RMA veri seti üzerinde farklı temsil türleri ve özellik vektörleri kombinasyonları kullanılarak deneyler yapılmıştır.Publication Metadata only 3D isometric shape correspondence(IEEE, 2010) Department of Computer Engineering; Yemez, Yücel; Sahillioğlu, Yusuf; Faculty Member; PhD Student; Department of Computer Engineering; College of Engineering; Graduate School of Sciences and Engineering; 107907; 215195We address the problem of correspondence between 3D isometric shapes. We present an automatic method that finds the optimal correspondence between two given (nearly) isometric shapes by minimizing the amount of deviation from isometry. We optimize the isometry error in two steps. In the first step, the 3D points uniformly sampled from the shape surfaces are transformed into spectral domain based on geodesic affinity, where the isometry errors are minimized in polynomial time by complete bipartite graph matching. The second step of optimization, which is well-initialized by the resulting correspondence of the first step, explicitly minimizes the isometry cost via an iterative greedy algorithm in the original 3D Euclidean space. Our method is put to test using (nearly) isometric pairs of shapes and its performance is measured via ground-truth correspondence information when available.Publication Metadata only 3D object matching via multivariate shape distributions(Institute of Electrical and Electronics Engineers (IEEE), 2005) Akgül, C.B.; Sankur, B.; Schmitt, F.; Department of Computer Engineering; Yemez, Yücel; Faculty Member; Department of Computer Engineering; College of Engineering; 1079073B nesne eşleştirme literatüründe, problemi şekil dağılımlarının karşılaştırılmasına indirgeyen yöntemler bulunmaktadır. Şekil dağılımı, 3B nesne yüzeyi üzerinde hesaplanan bir işlevin değerlerinin olasılık dağılımı olarak tanımlanır. Bu çalışmada varolan yöntemi, birden çok işlevin getirdiği şekil bilgisinden aynı anda yararlanacak şekilde genişletiyoruz. Çokboyutlu şekil dağılımları adını verdiğimiz bu 3B nesne betimleyicilerini, örnek bir 3B nesne veri tabanındaki nesneler için parametrik olmayan yaklaşımlarla kestiriyor, karşılaştırmaları alternatif metrikler yoluyla yapıyoruz. Elde edilen kesinlik-geri getirme eğrileri çokboyutlu şekil dağılımlarının karşılaştırılmasının yeni bir 3B nesne eşleştirme paradigması olabileceğini göstermektedir.Publication Metadata only 3D printed biodegradable polyurethaneurea elastomer recapitulates skeletal muscle structure and function(American Chemical Society (ACS), 2021) Gokyer, Seyda; Berber, Emine; Vrana, Engin; Orhan, Kaan; Abou Monsef, Yanad; Guvener, Orcun; Zinnuroglu, Murat; Oto, Cagdas; Huri, Pinar Yilgor; Department of Chemistry; Department of Chemistry; Yılgör, Emel; Yılgör, İskender; Researcher; Faculty Member; Department of Chemistry; College of Sciences; College of Sciences; N/A; 24181Effective skeletal muscle tissue engineering relies on control over the scaffold architecture for providing muscle cells with the required directionality, together with a mechanical property match with the surrounding tissue. Although recent advances in 3D printing fulfill the first requirement, the available synthetic polymers either are too rigid or show unfavorable surface and degradation profiles for the latter. In addition, natural polymers that are generally used as hydrogels lack the required mechanical stability to withstand the forces exerted during muscle contraction. Therefore, one of the most important challenges in the 3D printing of soft and elastic tissues such as skeletal muscle is the limitation of the availability of elastic, durable, and biodegradable biomaterials. Herein, we have synthesized novel, biocompatible and biodegradable, elastomeric, segmented polyurethane and polyurethaneurea (TPU) copolymers which are amenable for 3D printing and show high elasticity, low modulus, controlled biodegradability, and improved wettability, compared to conventional polycaprolactone (PCL) and PCL-based TPUs. The degradation profile of the 3D printed TPU scaffold was in line with the potential tissue integration and scaffold replacement process. Even though TPU attracts macrophages in 2D configuration, its 3D printed form showed limited activated macrophage adhesion and induced muscle-like structure formation by C2C12 mouse myoblasts in vitro, while resulting in a significant increase in muscle regeneration in vivo in a tibialis anterior defect in a rat model. Effective muscle regeneration was confirmed with immunohistochemical assessment as well as evaluation of electrical activity produced by regenerated muscle by EMG analysis and its force generation via a custom-made force transducer. Micro-CT evaluation also revealed production of more muscle-like structures in the case of implantation of cell-laden 3D printed scaffolds. These results demonstrate that matching the tissue properties for a given application via use of tailor-made polymers can substantially contribute to the regenerative outcomes of 3D printed tissue engineering scaffolds.Publication Metadata only 3D shape correspondence by isometry-driven greedy optimization(IEEE Computer Soc, 2010) N/A; Department of Computer Engineering; Sahillioğlu, Yusuf; Yemez, Yücel; PhD Student; Faculty Member; Department of Computer Engineering; Graduate School of Sciences and Engineering; College of Engineering; 215195; 107907We present an automatic method that establishes 3D correspondence between isometric shapes. Our goal is to find an optimal correspondence between two given (nearly) isometric shapes, that minimizes the amount of deviation from isometry. We cast the problem as a complete surface correspondence problem. Our method first divides the given shapes to be matched into surface patches of equal area and then seeks for a mapping between the patch centers which we refer to as base vertices. Hence the correspondence is established in a fast and robust manner at a relatively coarse level as imposed by the patch radius. We optimize the isometry cost in two steps. in the first step, the base vertices are transformed into spectral domain based on geodesic affinity, where the isometry errors are minimized in polynomial time by complete bipartite graph matching. the resulting correspondence serves as a good initialization for the second step of optimization in which we explicitly minimize the isometry cost via an iterative greedy algorithm in the original 3D Euclidean space. We demonstrate the performance of our method on various isometric (or nearly isometric) pairs of shapes for some of which the ground-truth correspondence is available.Publication Metadata only 3D shape recovery and tracking from multi-camera video sequences via surface deformation(Institute of Electrical and Electronics Engineers (IEEE), 2006) Skala, V.; N/A; Department of Computer Engineering; Sahillioğlu, Yusuf; Yemez, Yücel; PhD Student; Faculty Member; Department of Computer Engineering; Graduate School of Sciences and Engineering; College of Engineering; 215195; 107907This paper addresses 3D reconstruction and modeling of time-varying real objects using multicamera video. The work consists of two phases. In the first phase, the initial shape of the object is recovered from its silhouettes using a surface deformation model. The same deformation model is also employed in the second phase to track the recovered initial shape through the time-varying silhouette information by surface evolution. The surface deformation/evolution model allows us to construct a spatially and temporally smooth surface mesh representation having fixed connectivity. This eventually leads to an overall space-time representation that preserves the semantics of the underlying motion and that is much more efficient to process, to visualize, to store and to transmit. / Bu makale, çok kameralı video kullanarak zamanla değişen gerçek nesnelerin 3B yeniden yapılandırılmasını ve modellenmesini ele almaktadır. Çalışma iki aşamadan oluşmaktadır. İlk aşamada, nesnenin ilk şekli, bir yüzey deformasyon modeli kullanılarak silüetlerinden kurtarılır. Aynı deformasyon modeli, ikinci aşamada, yüzey evrimi yoluyla zamanla değişen siluet bilgisi yoluyla geri kazanılan ilk şekli izlemek için de kullanılır. Yüzey deformasyonu/evrimi modeli, sabit bağlantıya sahip uzamsal ve zamansal olarak pürüzsüz bir yüzey ağ temsili oluşturmamıza izin verir. Bu, sonunda, altta yatan hareketin anlamını koruyan ve işlemesi, görselleştirmesi, depolaması ve iletmesi çok daha verimli olan genel bir uzay-zaman temsiline yol açar.Publication Metadata only 48.4: Beam forming for a laser based auto-stereoscopic multi-viewer display(Blackwell Publishing Ltd, 2011) Baghsiahi, Hadi; Selviah, David R.; Willman, Eero; Fernández, Anibal; Day, Sally E.; Surman, Phil A.; N/A; Department of Electrical and Electronics Engineering; N/A; N/A; N/A; Department of Electrical and Electronics Engineering; Akşit, Kaan; Ölçer, Selim; Mostafazadeh, Aref; Erden, Erdem; Chellappan, Kishore Velichappattu; Ürey, Hakan; PhD Student; Other; N/A; Other; N/A; Faculty Member; Department of Electrical and Electronics Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; N/A; N/A; College of Engineering; N/A; N/A; N/A; N/A; N/A; 8579An auto-stereoscopic back projection display using a RGB multiemitter laser illumination source and micro-optics to provide a wider view is described. The laser optical properties and the speckle due to the optical system configuration and its diffusers are characterised. © 2011 SID.Publication Metadata only 80-NJ multipass-cavity chirped-pulse Cr4+: forsterite laser(Optical Society of America, 2010) Fujimoto, James G.; Department of Physics; Sennaroğlu, Alphan; Çankaya, Hüseyin; Faculty Member; Researcher; Department of Physics; College of Sciences; Graduate School of Sciences and Engineering; 23851; N/ABy using 8.5 W of incident pump power, we obtained 80-nJ, 5.5-ps pulses at 1260 nm with a spectral width of 17 nm from a multipass-cavity, chirped-pulse Cr4+:forsterite laser operated at 4.9-MHz repetition rate. © 2010 Optical Society of America.Publication Metadata only A blind fractionally spaced equalization algorithm with global convergence(IEEE, 2007) Department of Electrical and Electronics Engineering; Erdoğan, Alper Tunga; Faculty Member; Department of Electrical and Electronics Engineering; College of Engineering; 41624In this article we present a fractionally spaced extension of the SubGradient based Blind equalization Algorithm (SGBA). The basic features of the proposed algorithm are the non-linear constraint on the search vector and the selection of the weighting and step size applied to the search vector. It is proven that the algorithm is globally convergent to a perfect equalization point under the well known equalizability conditions for the fractionally spaced setting. The simulation results provided at the end of the article illustrates the relative merit of the proposed algorithm in comparison to the state of the art algorithms.Publication Metadata only A brief atlas of insulin(Bentham Science, 2022) N/A; Department of Molecular Biology and Genetics; Ayan, Esra; Demirci, Hasan; PhD Student; Faculty Member; Department of Molecular Biology and Genetics; Koç Üniversitesi İş Bankası Yapay Zeka Uygulama ve Araştırma Merkezi (KUIS AI)/ Koç University İş Bank Artificial Intelligence Center (KUIS AI); Graduate School of Sciences and Engineering; College of Sciences; N/A; 307350Insulin is an essential factor for mammalian organisms: a regulator of glucose metabolism and other key signaling pathways. Insulin is also a multifunctional hormone whose absence can cause many diseases. Recombinant insulin is widely used in the treatment of diabetes. Understanding insulin, biosimilars, and biobetters from a holistic perspective will help pharmacologically user-friendly molecules design and develop personalized medicine-oriented therapeutic strategies for diabetes. Additionally, it helps to understand the underlying mechanism of other insulin-dependent metabolic disorders. The purpose of this atlas is to review insulin from a biotechnologi-cal, basic science, and clinical perspective, explain nearly all insulin-related disorders and their underlying molecular mechanisms, explore exogenous/recombinant production strategies of patented and research-level insulin/analogs, and highlight their mechanism of action from a structural per-spective. Combined with computational analysis, comparisons of insulin and analogs also provide novel information about the structural dynamics of insulin.Publication Metadata only A built-in vibration sensor using ARC-discharged reactive ion plated PZT(The Institute of Electrical Engineers of Japan, 2011) Tani, Masanao; Akamatsu, Masahiro; Yasuda, Yoshiaki; Fujita, Hiroyuk; Toshiyoshi, Hiroshi; N/A; Baran, Utku; Master Student; Graduate School of Sciences and Engineering; N/AA piezoelectrically excited micro cantilever with multiple electrode ports has been developed as a standard test device to investigate the piezoelectric oscillation sensing capability. A 5 μm thick PZT was deposited by the arc-discharge reactive ion plating on a 20-μm-thick and 2700-μm-long SOI cantilever, and its piezoelectrically measured vibration signal was correlated with the reference oscillation signal from the laser Doppler vibrometer to prove the feasibility as oscillation detector. An equivalent circuit expression for the sensing electrode has been found.Publication Metadata only A calculus of atomic actions(N/A, 2009) Qadeer, Shaz; N/A; Department of Computer Engineering; Elmas, Tayfun; Taşıran, Serdar; PhD Student; Faculty Member; Department of Computer Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; N/AWe present a proof calculus and method for the static verification of assertions and procedure specifications in shared-memory concurrent programs. The key idea in our approach is to use atomicity as a proof tool and to simplify the verification of assertions by rewriting programs to consist of larger atomic actions. We propose a novel, iterative proof style in which alternating use of abstraction and reduction is exploited to compute larger atomic code blocks in a sound manner. This makes possible the verification of assertions in the transformed program by simple sequential reasoning within atomic blocks, or significantly simplified application of existing concurrent program verification techniques such as the Owicki-Gries or rely-guarantee methods. Our method facilitates a clean separation of concerns where at each phase of the proof, the user worries only about only either the sequential properties or the concurrency control mechanisms in the program. We implemented our method in a tool called QED.We demonstrate the simplicity and effectiveness of our approach on a number of benchmarks including ones with intricate concurrency protocols.Publication Metadata only A case of left testicular artery with high origin passing through a left renal vein fenestration(Via Medica Medical Publishers, 2024) Yılmaz, Ebru; Tatar, Cem; Keskin, Aleyna; Yalçın, Büşra; Gürses, İlke Ali; Graduate School of Health Sciences; School of MedicineBackground: Fenestrations of are extremely rare in the venous system, especially renal veins. This paper aims to present a case of left renal vein fenestration where a high origin testicular artery passes through it. Materials and Methods The variation was observed incidentally in a 74-year-old Caucasian male cadaver during routine retroperitoneal dissections for second year medical students. Results: A fenestration in the mid portion of the left renal vein was observed. The length and height of the fenestration was 23 and 3.6 millimeters, respectively. The left testicular artery passed through the fenestration and followed a normal course distal to the fenestration. Posterior to the left renal vein, the testicular artery originated from the lateral aspect of abdominal aorta, just caudal to the left renal artery. On the right side, the testicular artery had a similar high origin, and two renal arteries were present. No venous variations were observed on the right side. Conclusions: The long course of the left renal vein is a factor of preference for donor kidney selection. Uncommon variations of the left renal veins, such as fenestrations, might result in a change in surgical technique and would put the left donor kidney at risk of prolonged anastomosis time and lower survival rates.Publication Metadata only A chain-binomial model for pull and push-based information diffusion(IEEE, 2006) Department of Mathematics; Department of Computer Engineering; Çağlar, Mine; Özkasap, Öznur; Faculty Member; Faculty Member; Department of Mathematics; Department of Computer Engineering; College of Sciences; College of Engineering; 105131; 113507We compare pull and push-based epidemic paradigms for information diffusion in large scale networks. Key benefits of these approaches are that they are fully distributed, utilize local information only via pair-wise interactions, and provide eventual consistency, scalability and communication topology-independence, which make them suitable for peer-to-peer distributed systems. We develop a chain-Binomial epidemic probability model for these algorithms. Our main contribution is the exact computation of message delivery latency observed by each peer, which corresponds to a first passage time of the underlying Markov chain. Such an analytical tool facilitates the comparison of pull and push-based spread for different group sizes, initial number of infectious peers and fan-out values which are also accomplished in this study. Via our analytical stochastic model, we show that push-based approach is expected to facilitate faster information spread both for the whole group and as experienced by each member.Publication Metadata only A challenging design case study for interactive media design education: interactive media for individuals with autism(Springer, 2014) Esin Orhun, Simge; Ünlüer Çimen, Ayça; Department of Media and Visual Arts; Yantaç, Asım Evren; Faculty Member; Department of Media and Visual Arts; College of Social Sciences and Humanities; 52621Since 1999, research for creativity triggering education solutions for interactive media design (IMD) undergraduate level education in YIldIz Technical University leaded to a variety of rule breaking exercises. Among many approaches, the method of designing for disabling environment, in which the students design for the users with one or more of their senses disabled, brought the challenge of working on developing interactive solutions for the individuals with autism spectrum conditions (ASC). With the aim of making their life easier, the design students were urged to find innovative yet functional interaction solutions for this focused user group, whose communicational disability activate due to the deficiencies in their senses and/or cognition. Between 2011 and 2012, this project brief supported by participatory design method motivated 26 students highly to develop design works to reflect the perfect fit of interaction design to this challenging framework involving the defective social communication cases of autism.