Publications without Fulltext

Permanent URI for this collectionhttps://hdl.handle.net/20.500.14288/3

Browse

Search Results

Now showing 1 - 10 of 695
  • Placeholder
    Publication
    Exploration of novel 6,8,9-trisubstituted purine analogues: synthesis, in vitro biological evaluation, and their effect on human cancer cells
    (Tubitak Scientific & Technological Research Council Turkey, 2024) Polat, Muhammed Fatih; Atalay, Rengul; Tuncbilek, Meral; N/A; Şahin, İrem Durmaz; Koç University Research Center for Translational Medicine (KUTTAM); School of Medicine
    Cancer, a leading global cause of mortality, demands continuous advancements in therapeutic strategies. This study focuses on the design and synthesis of a novel series of purine derivatives, specifically 6 -(substituted phenyl piperazine)-8-(4-phenoxyphenyl)9-cyclopentyl purine derivatives (5-11). The motivation behind this endeavor lies in addressing acquired resistance mechanisms in cancer cells, a significant hurdle in current treatment modalities. The synthesis, starting from 4,6-dichloro-5-nitropyrimidine, involves a multi -step process, resulting in seven new purine derivatives. Biological evaluation against human liver, colon, and breast cancer cells (Huh7, HCT116, and MCF7, respectively) was performed using the SRB assay. Among the synthesized analogs, compounds 5 and 6, exhibited notable cytotoxic activity, surpassing clinically used positive controls 5-Fluorouracil and Fludarabine in terms of efficacy. This research underscores the potential of purine derivatives with a phenyl group at the C-8 position as a scaffold for developing compounds with improved anticancer properties. The findings offer insights for future exploration and development of novel agents in cancer pharmaceutical research.
  • Placeholder
    Publication
    End-to-end deep multi-modal physiological authentication with smartbands
    (IEEE-Inst Electrical Electronics Engineers Inc, 2021) Ekiz, Deniz; Dardağan, Yağmur Ceren; Aydar, Furkan; Köse, Rukiye Dilruba; Ersoy, Cem; N/A; Can, Yekta Said; Researcher; College of Social Sciences and Humanities; N/A
    The number of fitness tracker users increases every day. Most of the applications require authentication to protect privacy-preserving operations. Biometrics such as face images have been used widely as login tokens, but they have privacy issues. Moreover, occlusions like face masks used for COVID may reduce their effectiveness. Smartbands can track heart rate, movements, and electrodermal activities. They have been widely used for health-related applications. The use of smartbands for authentication is in the exploratory stage. Physiological signals gathered from smartbands may be used to create a multi-modal and multi-sensor authentication system. The popularity of smartbands enables us to deploy new applications without a need to buy additional hardware. In this study, we explore the multi-modal physiological biometrics with end-to-end deep learning and feature-based traditional systems. We collected multi-modal physiological data of 80 people for five days using modern smartbands. We applied a deep learning approach to the multi-modal physiological data and used feature-based traditional machine learning classifiers. The CNN-LSTM model achieved a 9.31% equal error rate and outperformed other models in terms of authentication performance.
  • Placeholder
    Publication
    [BMIM][OAc] coating layer makes activated carbon almost completely selective for CO2
    (Elsevier Science Sa, 2022) N/A; N/A; Department of Chemical and Biological Engineering; Department of Chemical and Biological Engineering; Durak, Özce; Zeeshan, Muhammad; Keskin, Seda; Uzun, Alper; Master Student; PhD Student; Faculty Member; Faculty Member; Department of Chemical and Biological Engineering; Koç University Tüpraş Energy Center (KUTEM) / Koç Üniversitesi Tüpraş Enerji Merkezi (KÜTEM); Koç University Surface Science and Technology Center (KUYTAM) / Koç Üniversitesi Yüzey Teknolojileri Araştırmaları Merkezi (KUYTAM); Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; College of Engineering; College of Engineering; N/A; N/A; 40548; 59917
    Tuning the molecular affinity of porous materials towards desired gases is important to achieve superior selectivity for a target separation. Herein, we report a novel composite, prepared by coating an ordinary activated carbon (AC) with an ionic liquid (IL) (1-butyl-3-methylimidazolium acetate, [BMIM][OAc]) offering an almost complete CO2 selectivity over N-2 and CH4. Data indicated that pore blockage by the IL accompanied with the enhancement in polarity and reduction in the hydrophobic character of the surface hindered the sorption of N-2 and CH4. For CO2, on the other hand, new chemisorption and physisorption sites became available associated with the IL layer on the surface, making the composite material significantly selective. Newly formed chemisorption sites attributed to the cation's acidic C2H sites, which become available with bi-layer formation. Presence of multiple competitive sorption sites with different energies was further proven with thermal analysis and detailed spectroscopic analysis. Data showed that CO2/CH4 and CO2/N-2 ideal selectivities boosted from 3.3 to 688.3 (2.3 to 54.7) and from 15.6 to 903.7 (7.1 to 74.3) at 0.1 (1) bar and 25 degrees C, respectively, upon the deposition of IL layer. Especially at lower pressures, the IL/AC material became almost fully selective for CO2 offering ideal selectivities in the order of several tens of thousands. To the best of our knowledge, the remarkable enhancement in the ideal CO2 selectivity by a straightforward post-synthesis modification of an ordinary AC, as reported here, sets a new benchmark in high-performance and efficient gas separation for similar porous materials.
  • Placeholder
    Publication
    End-to-end service-level management framework over multi-domain software defined networks
    (Institute of Electrical and Electronics Engineers (IEEE), 2016) N/A; N/A; N/A; Department of Electrical and Electronics Engineering; Bağcı, Kadir Tolga; Nacaklı, Selin; Şahin, Kemal Emrecan; Tekalp, Ahmet Murat; PhD Student; PhD Student; Master Student; Faculty Member; Department of Electrical and Electronics Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; N/A; N/A; 26207
    We introduce a distributed, dynamic, end-to-end (E2E) service-level management framework over a multi-domain SDN in order to enable end users to negotiate with their service providers a level of service according to their needs and budget. In this framework, the service provider offers multiple levels of service and allocates network resources to each user to satisfy specific service level requests in a fair manner. To this effect, controllers of different domains negotiate with each other to satisfy the service level parameters of service requests, where functions that manage E2E services collaborate with functions that manage network resources of respective domains. The proposed framework and procedures have been verified over a newly developed large-scale multi-domain SDN emulation environment./ Öz: Çok-alanlı yazılım tanımlı ağlarda (YTA), son kul- lanıcıların servis sağlayıcıları ile belirli bir servis kalitesi için uzlaşmalarını sağlamak amacıyla da gıtık, dinamik ve uçtan uca servis kalitesi yönetimi önermekteyiz. Bu yapıda servis saglayıcıları birçok servis seviyesi önermekte ve ağ kaynaklarını kullanıcılara adil bir ¸sekilde bölü¸stürmektedir. Bu amaçla, uçtan uca servisleri ve her bir alanın kaynaklarını yöneten modüller işbirligi yaparak farklı alanların ağ yöneticilerinin servis istek- lerinin kısıtlarını sağlayacak şekilde birbirleri ile uzlaşmalarına olanak sağlamaktadır. Önerilen yapı ve modüller yeni geliştirilmiş büyük ölçekli çok-alanlı bir YTA’da test edilmiştir.
  • Placeholder
    Publication
    Multicamera audio-visual analysis of dance figures
    (IEEE, 2007) N/A; N/A; Department of Computer Engineering; Department of Computer Engineering; Department of Electrical and Electronics Engineering; Ofli, Ferda; Erzin, Engin; Yemez, Yücel; Tekalp, Ahmet Murat; PhD Student; Faculty Member; Faculty Member; Faculty Member; Department of Computer Engineering; Department of Electrical and Electronics Engineering; Graduate School of Sciences and Engineering; College of Engineering; College of Engineering; College of Engineering; N/A; 34503; 107907; 26207
    We present an automated system for multicamera motion capture and audio-visual analysis of dance figures. the multiview video of a dancing actor is acquired using 8 synchronized cameras. the motion capture technique is based on 3D tracking of the markers attached to the person's body in the scene, using stereo color information without need for an explicit 3D model. the resulting set of 3D points is then used to extract the body motion features as 3D displacement vectors whereas MFC coefficients serve as the audio features. in the first stage of multimodal analysis, we perform Hidden Markov Model (HMM) based unsupervised temporal segmentation of the audio and body motion features, separately, to determine the recurrent elementary audio and body motion patterns. then in the second stage, we investigate the correlation of body motion patterns with audio patterns, that can be used for estimation and synthesis of realistic audio-driven body animation.
  • Placeholder
    Publication
    Object placement for high bandwidth memory augmented with high capacity memory
    (IEEE, 2017) N/A; N/A; Department of Computer Engineering; Laghari, Mohammad; Erten, Didem Unat; Master Student; Faculty Member; Department of Computer Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; 219274
    High bandwidth memory (HBM) is a new emerging technology that aims to improve the performance of bandwidth limited applications. Even though it provides high bandwidth, it must be augmented with DRAM to meet the memory capacity requirement of any applications. Due to this limitation, objects in an application should be optimally placed on the heterogeneous memory subsystems. In this study, we propose an object placement algorithm that places program objects to fast or slow memories in case the capacity of fast memory is insufficient to hold all the objects to increase the overall application performance. Our algorithm uses the reference counts and type of references (read or write) to make an initial placement of data. In addition, we perform various memory bandwidth benchmarks to be used in our placement algorithm on Intel Knights Landing (KNL) architecture. Not surprisingly high bandwidth memory sustains higher read bandwidth than write bandwidth, however, placing write-intensive data on HBM results in better overall performance because write-intensive data is punished by the DRAM speed more severely compared to read intensive data. Moreover, our benchmarks demonstrate that if a basic block makes references to both types of memories, it performs worse than if it makes references to only one type of memory in some cases. We test our proposed placement algorithm with 6 applications under various system configurations. By allocating objects according to our placement scheme, we are able to achieve a speedup of up to 2x.
  • Placeholder
    Publication
    Effect of preservation period on the viscoelastic material properties of soft tissues with implications for liver transplantation
    (Asme, 2010) N/A; N/A; N/A; Department of Mechanical Engineering; Department of Mechanical Engineering; Öcal, Sina; Özcan, Mustafa Umut; Başdoğan, İpek; Başdoğan, Çağatay; Master Student; Master Student; Faculty Member; Faculty Member; Department of Mechanical Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; College of Engineering; College of Engineering; N/A; N/A; 179940; 125489
    The liver harvested from a donor must be preserved and transported to a suitable recipient immediately for a successful liver transplantation. In this process, the preservation period is the most critical, since it is the longest and most tissue damage occurs during this period due to the reduced blood supply to the harvested liver and the change in its temperature. We investigate the effect of preservation period on the dynamic material properties of bovine liver using a viscoelastic model derived from both impact and ramp and hold experiments. First, we measure the storage and loss moduli of bovine liver as a function of excitation frequency using an impact hammer. Second, its time-dependent relaxation modulus is measured separately through ramp and hold experiments performed by a compression device. Third, a Maxwell solid model that successfully imitates the frequency- and time-dependent dynamic responses of bovine liver is developed to estimate the optimum viscoelastic material coefficients by minimizing the error between the experimental data and the corresponding values generated by the model. Finally, the variation in the viscoelastic material coefficients of bovine liver are investigated as a function of preservation period for the liver samples tested 1 h, 2 h, 4 h, 8 h, 12 h, 24 h, 36 h, and 48 h after harvesting. The results of our experiments performed with three animals show that the liver tissue becomes stiffer and more viscous as it spends more time in the preservation cycle.
  • Placeholder
    Publication
    Application QoS fairness in wireless video scheduling
    (Institute of Electrical and Electronics Engineers (IEEE), 2006) N/A; N/A; Department of Electrical and Electronics Engineering; Department of Electrical and Electronics Engineering; Department of Electrical and Electronics Engineering; Özçelebi, Tanır; Tekalp, Ahmet Murat; Civanlar, Mehmet Reha; Sunay, Mehmet Oğuz; PhD Student; Faculty Member; Faculty Member; Faculty Member; Department of Electrical and Electronics Engineering; Graduate School of Sciences and Engineering; College of Engineering; College of Engineering; College of Engineering; N/A; 26207; 16372; N/A
    The video pre-roll delay for filling up the client buffer can not be too long for user utility and buffer limitations in wireless point-to-multipoint streaming systems. Cross-layer design that deals with both physical and application layer aspects jointly is necessary for this purpose. We present a cross-layer optimized multiuser video adaptation and user scheduling framework for wireless video communication, where Quality-of-Service (QoS) fairness among users is provided with maximum video quality and video throughput. Both protocol layers are jointly optimized using a single Multi-Objective Optimization (MOO) framework that aims to schedule the user with the least remaining playback time and the highest video throughput (delivered video seconds per transmission slot) with maximum video quality. Experiments carried out in the IS-856 (1×EV-DO) standard and ITU pedestrian and vehicular environments demonstrate the improvements over the state-of-the-art schedulers in terms of video QoS fairness, video quality and throughput. / İstemci arabelleğini doldurmak için videodan önce gösterilen reklam gecikmesi, kablosuz noktadan çok noktaya akış sistemlerinde kullanıcı yardımcı programı ve arabellek sınırlamaları için çok uzun olamaz. Bu amaç için hem fiziksel hem de uygulama katmanı özelliklerini birlikte ele alan çapraz katman tasarımı gereklidir. Kablosuz video iletişimi için, kullanıcılar arasında Hizmet Kalitesi (QoS) adaletinin maksimum video kalitesi ve video çıkışı ile sağlandığı, katmanlar arası optimize edilmiş çok kullanıcılı bir video uyarlaması ve kullanıcı planlama çerçevesi sunuyoruz. Her iki protokol katmanı, kullanıcıyı maksimum video kalitesiyle en az kalan oynatma süresi ve en yüksek video verimi (iletim yuvası başına iletilen video saniyesi) ile programlamayı amaçlayan tek bir Çok Amaçlı Optimizasyon (MOO) çerçevesi kullanılarak ortaklaşa optimize edilmiştir. IS-856 (lxEV-DO) standardında ve ITU yaya ve araç ortamlarında gerçekleştirilen deneyler, video QoS adaleti, video kalitesi ve verim açısından en son teknoloji zamanlayıcılara göre iyileştirmeler göstermektedir.
  • Placeholder
    Publication
    A computational biomechanical investigation of posterior dynamic instrumentation: combination of dynamic rod and hinged (dynamic) screw
    (Asme, 2014) Kiapour, Ali; Goel, Vijay K.; N/A; N/A; Erbulut, Deniz Ufuk; Öktenoğlu, Bekir Tunç; Özer, Ali Fahir; Researcher; Faculty Member; School of Medicine, College of Engineering; School of Medicine; 37661; 220898; 1022
    Currently, rigid fixation systems are the gold standard for degenerative disk disease treatment. Dynamic fixation systems have been proposed as alternatives for the treatment of a variety of spinal disorders. These systems address the main drawbacks of traditional rigid fixation systems, such as adjacent segment degeneration and instrumentation failure. Pedicle-screw-based dynamic stabilization (PDS) is one type of these alternative systems. The aim of this study was to simulate the biomechanical effect of a novel posterior dynamic stabilization system, which is comprised of dynamic (hinged) screws interconnected with a coiled, spring-based dynamic rod (DSDR), and compare it to semirigid (DSRR and RSRR) and rigid stabilization (RSRR) systems. A validated finite element (FE) model of L1-S1 was used to quantify the biomechanical parameters of the spine, such as range of motion, intradiskal pressure, stresses and facet loads after single-level instrumentation with different posterior stabilization systems. The results obtained from in vitro experimental intact and instrumented spines were used to validate the FE model, and the validated model was then used to compare the biomechanical effects of different fixation and stabilization constructs with intact under a hybrid loading protocol. The segmental motion at L4-L5 increased by 9.5% and 16.3% in flexion and left rotation, respectively, in DSDR with respect to the intact spine, whereas it was reduced by 6.4% and 10.9% in extension and left-bending loads, respectively. After instrumentation-induced intradiskal pressure at adjacent segments, L3-L4 and L5-S1 became less than the intact in dynamic rod constructs (DSDR and RSDR) except in the RSDR model in extension where the motion was higher than intact by 9.7% at L3-L4 and 11.3% at L5-S1. The facet loads were insignificant, not exceeding 12N in any of the instrumented cases in flexion. In extension, the facet load in DSDR case was similar to that in intact spine. The dynamic rod constructions (DSDR and RSDR) led to a lesser peak stress at screws compared with rigid rod constructions (DSRR and RSRR) in all loading cases. A dynamic construct consisting of a dynamic rod and a dynamic screw did protect the adjacent level from excessive motion.
  • Placeholder
    Publication
    Opportunities and challenges of MOF-based membranes in gas separations
    (Elsevier, 2015) Avci, Ahmet K.; N/A; Department of Chemical and Biological Engineering; Adatoz, Elda Beruhil; Keskin, Seda; PhD Student; Faculty Member; Department of Chemical and Biological Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; 40548
    Gas separation using metal organic framework (MOF) membranes has become an increasingly important research field over the last years. Several recent studies have shown that thin-film MOF membranes and MOF/polymer composite membranes can outperform well known polymer and zeolite membranes in various gas separation applications. The continuously increasing number of experimental and computational studies emphasizes the superior membrane properties of MOFs. In this review, we present a summary of experimental and computational studies both for thin-film MOF membranes and MOF/polymer composite membranes. We aim to address opportunities and challenges related with use of MOF membranes for gas separations as well as give directions on the requirements for employing these membranes in practical applications. (C) 2015 Elsevier B.V. All rights reserved.