Mühendislik Fakültesi

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3-State Protein Secondary Structure Prediction based on SCOPe Classes
(INST TECNOLOGIA PARANARUA PROF ALGACYR MUNHOZ MADER 3775-CIC, 81350-010 CURITIBA-PARANA, BRAZIL, 2021) Atasever, Sema; Azgınoglu, Nuh; Erbay, Hasan; Aydın, Zafer; 0000-0002-2295-7917; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü; Atasever, Sema
Abstract Improving the accuracy of protein secondary structure prediction has been an important task in bioinformatics since it is not only the starting point in obtaining tertiary structure in hierarchical modeling but also enhances sequence analysis and sequence-structure threading to help determine structure and function. Herein we present a model based on DSPRED classifier, a hybrid method composed of dynamic Bayesian networks and a support vector machine to predict 3-state secondary structure information of proteins. We used the SCOPe (Structural Classification of Proteins-extended) database to train and test the model. The results show that DSPRED reached a Q3 accuracy rate of 82.36% when trained and tested using proteins from all SCOPe classes. We compared our method with the popular PSIPRED on the SCOPe test datasets and found that our method outperformed PSIPRED.
4D-QSAR investigation and pharmacophore identification of pyrrolo[2,1-c][1,4]benzodiazepines using electron conformational–genetic algorithm method
(Taylor and Francis Ltd., 2016) Özalp, A.; Yavuz, S.Ç.; Sabancı, N.; Çapur, F.; Kökbudak, Z.; Sarıpınar, E.; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü; Çopur, Fatih
In this paper, we present the results of pharmacophore identification and bioactivity prediction for pyrrolo[2,1-c][1,4]benzodiazepine derivatives using the electron conformational–genetic algorithm (EC–GA) method as 4D-QSAR analysis. Using the data obtained from quantum chemical calculations at PM3/HF level, the electron conformational matrices of congruity (ECMC) were constructed by EMRE software. The ECMC of the lowest energy conformer of the compound with the highest activity was chosen as the template and compared with the ECMCs of the lowest energy conformer of the other compounds within given tolerances to reveal the electron conformational submatrix of activity (ECSA, i.e. pharmacophore) by ECSP software. A descriptor pool was generated taking into account the obtained pharmacophore. To predict the theoretical activity and select the best subset of variables affecting bioactivities, the nonlinear least square regression method and genetic algorithm were performed. For four types of activity including the GI50, TGI, LC50 and IC50 of the pyrrolo[2,1-c][1,4] benzodiazepine series, the r2 train, r2 test and q2 values were 0.858, 0.810, 0.771; 0.853, 0.848, 0.787; 0.703, 0.787, 0.600; and 0.776, 0.722, 0.687, respectively.
An accurate investigation of the mechanical response and damage model of aluminum 7068
(Abdullah Gül Üniversitesi, 2018) Karaveli, Kadir Kaan; AGÜ, Mühendislik Fakültesi, Makine Mühendisliği Bölümü; Karaveli, Kadir Kaan
The promising combination of high strength, high toughness, low density and corrosion resistivity have made aluminium (Al) alloys the material of choice in various applications, from buildings to aerospace, for decades. Especially, Al 7068 alloy is one of the recently developed materials used mostly in defence and automobile industries due to their exceptional mechanical properties. In this master thesis, the mechanical response and Johnson-Cook damage model of Al 7068-T651 alloy was investigated. Specifically, different Johnson-Cook damage parameters were determined for different application areas considering the maximum, minimum and average results. These damage parameters can be used for accurate Finite Element Analysis simulations. To determine these damage parameters tensile tests were conducted on notched and smooth specimen son both rolling direction and perpendicular to the rolling direction. The notch radius were selected as smooth, 0.4 mm, 0.8 mm and 2 mm to provide different stress triaxiality values and observe the mechanical response at these triaxiality values. Tensile tests were repeated seven times to obtain the accurate results. The final cross-sectional areas of fractured specimens were calculated through optical microscopy. The effects of stress triaxiality factor and rolling direction on the mechanical properties of Al 7068-T651 alloy were successfully investigated. All damage parameters were calculated via LevenbergMarquardt optimization method. Overall, three different Johnson-Cook damage parameters based on minimum, average and maximum equivalent strain values were calculated. These Johnson-Cook ii damage parameters can be utilized for the accurate damage simulations of different applications in Finite Element Analysis, which is a computational technique and is used to obtain approximate solution of several engineering problems
Accurate Prediction of Residual Stresses in Machining of Inconel 718 Alloy through Crystal Plasticity Modelling
(Afyon Kocatepe Üniversitesi, 2023) Kesriklioglu, Sinan; Kapci, Mehmet Fazil; Büyükçapar,Rıdvan; Çetin , Barış; Yılmaz, Okan Deniz; Bal, Burak; 0000-0002-2914-808X; 0000-0003-3297-5307; 0000-0002-2550-7911; 0000-0002-7389-9155; AGÜ, Mühendislik Fakültesi, Makine Mühendisliği Bölümü; Kesriklioglu, Sinan; Kapci, Mehmet Fazil; Büyükçapar, Rıdvan; Bal, Burak
Determination and assessment of residual stresses are crucial to prevent the failure of the components used in defense, aerospace and automotive industries. The objective of this study is to present a material method to accurately predict the residual stresses induced during machining of Inconel 718. Orthogonal cutting tests were performed at various cutting speeds and feeds, and the residual stresses after machining of Inconel 718 were characterized by X-ray diffraction. A viscoplastic self-consistent crystal plasticity model was developed to import the microstructural inputs of this superalloy into a commercially available finite element software (Deform 2D). In addition, same simulations were carried out with classical Johnson - Cook material model. The simulation and experimental results showed that the crystal plasticity based multi-scale and multi-axial material model significantly improved the prediction accuracy of machining induced residual stresses of Inconel 718 when compared to the existing model, and it can be used to minimize the surface defects and cost of production trials in machining of difficult-to-cut materials.
Adaptive Fault Detection Scheme Using an Optimized Self-healing Ensemble Machine Learning Algorithm
(CHINA ELECTRIC POWER RESEARCH INST, 2022) Yavuz, Levent; Soran, Ahmet; Onen, Ahmet; Li, Xiangjun; Muyeen, S. M.; 0000-0003-1398-9447; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü; Yavuz, Levent; Soran, Ahmet
This paper proposes a new cost-efficient, adaptive, and self-healing algorithm in real time that detects faults in a short period with high accuracy, even in the situations when it is difficult to detect. Rather than using traditional machine learning (ML) algorithms or hybrid signal processing techniques, a new framework based on an optimization enabled weighted ensemble method is developed that combines essential ML algorithms. In the proposed method, the system will select and compound appropriate ML algorithms based on Particle Swarm Optimization (PSO) weights. For this purpose, power system failures are simulated by using the PSCAD-Python co-simulation. One of the salient features of this study is that the proposed solution works on real-time raw data without using any pre-computational techniques or pre-stored information. Therefore, the proposed technique will be able to work on different systems, topologies, or data collections. The proposed fault detection technique is validated by using PSCAD-Python co-simulation on a modified and standard IEEE-14 and standard IEEE-39 bus considering network faults which are difficult to detect.
Admissible invariants of genus 3 curves
(Springer New York LLC, 2015) Cinkir, Zubeyir; AGÜ, Mühendislik Fakültesi, Endüstri Mühendisliği Bölümü; Çinkir, Zübeyir
Several invariants of polarized metrized graphs and their applications in Arithmetic Geometry are studied recently. In this paper, we explicitly calculated these admissible invariants for all curves of genus 3. We find the sharp lower bound for the invariants φ, λ and ε for all polarized metrized graphs of genus 3. This improves the lower bound given for Effective Bogomolov Conjecture for such curves.
Advantage of co-culture strategy for targeted cancer treatment and in vitro studies
(ELSEVIERRADARWEG 29, 1043 NX AMSTERDAM, NETHERLANDS, 2021) Bayram, Nurun Nisa; Isoglu, Sevil Dincer; Baran, Yael; Ulu, Gizem Tugce; AGÜ, Mühendislik Fakültesi, Malzeme Bilimi ve Nanoteknoloji Mühendisliği Bölümü; Bayram, Nurun Nisa; Isoglu, Sevil Dincer
Advantage of co-culture strategy for targeted cancer treatment and in vitro studies
Aguhyper: a hyperledger-based electronic health record management framework
(PEERJ INC, 2024) Dedeturk, Beyhan Adanur; Bakir-Gungor, Burcu; 0000-0003-4983-2417; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü; Dedeturk, Beyhan Adanur; Bakir-Gungor, Burcu
The increasing importance of healthcare records, particularly given the emergence of new diseases, emphasizes the need for secure electronic storage and dissemination. With these records dispersed across diverse healthcare entities, their physical maintenance proves to be excessively time-consuming. The prevalent management of electronic healthcare records (EHRs) presents inherent security vulnerabilities, including susceptibility to attacks and potential breaches orchestrated by malicious actors. To tackle these challenges, this article introduces AguHyper, a secure storage and sharing solution for EHRs built on a permissioned blockchain framework. AguHyper utilizes Hyperledger Fabric and the InterPlanetary Distributed File System (IPFS). Hyperledger Fabric establishes the blockchain network, while IPFS manages the off-chain storage of encrypted data, with hash values securely stored within the blockchain. Focusing on security, privacy, scalability, and data integrity, AguHyper’s decentralized architecture eliminates single points of failure and ensures transparency for all network participants. The study develops a prototype to address gaps identified in prior research, providing insights into blockchain technology applications in healthcare. Detailed analyses of system architecture, AguHyper’s implementation configurations, and performance assessments with diverse datasets are provided. The experimental setup incorporates CouchDB and the Raft consensus mechanism, enabling a thorough comparison of system performance against existing studies in terms of throughput and latency. This contributes significantly to a comprehensive evaluation of the proposed solution and offers a unique perspective on existing literature in the field.
All-polymer ultrasonic transducer design for an intravascular ultrasonography application
(TUBITAK SCIENTIFIC & TECHNICAL RESEARCH COUNCIL TURKEY, ATATURK BULVARI NO 221, KAVAKLIDERE, ANKARA, 00000, TURKEY, 2019) Hah, Dooyoung; AGÜ, Mühendislik Fakültesi, Elektrik & Elektronik Mühendisliği Bölümü; Hah, Dooyoung
Intravascular ultrasonography (IVUS), a medical imaging modality, is used to obtain cross-sectional views of blood vessels from inside. In IVUS, transducers are brought to the proximity of the imaging targets so that high-resolution images can be obtained at high frequency without much concern of signal attenuation. To eliminate mechanical rotation rendered in conventional IVUS, it is proposed to manufacture a transducer array on a flexible substrate and wrap it around a cylindrical frame. The transducer of consideration is a capacitive micromachined ultrasonic transducer (CMUT). The whole device needs to be made out of polymers to be able to endure a high degree of bending (radius: 1 mm) Bending of the devices leads to considerable changes in the device characteristics, including resonant frequency and pull-in voltage due to geometrical dimension changes and stress induced. The main purpose of this work is to understand the effect of bending on the device characteristics by means of finite element analysis. Another objective of the work is to understand the relationships between such an effect and the device geometries. It is learned that the bending-induced stress depends strongly on anchor width, membrane thickness, and substrate thickness. It is also learned that resonant frequency and pull-in voltage become lower in most cases because of using a flexible substrate in comparison to those of the device on a rigid substrate. Bending-induced stress increases the spring constant and hence increases resonant frequency and pull-in voltage, although this effect is relatively weaker. For most of the device geometries, pull-in voltage is too high for the polymer material to endure. This is the main drawback of the all-polymer CMUT. In order to meet the design goal of 20 MHz resonant frequency, the membrane radius has to be smaller than 7.7 mu m for a thickness of 3 mu m.
All-Surface Induction Heating With High Efficiency and Space Invariance Enabled by Arraying Squircle Coils in Square Lattice
(IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC, 445 HOES LANE, PISCATAWAY, NJ 08855-4141 USA, 2018) Kilic, Veli Tayfun; Unal, Emre; Yilmaz, Namik; Demir, Hilmi Volkan; AGÜ, Mühendislik Fakültesi, Elektrik & Elektronik Mühendisliği Bölümü;
This paper reports an all-surface induction heating system that enables efficient heating at a constant speed all over the surface independent of the specific location on the surface. In the proposed induction system, squircle coils are placed tangentially in a two-dimensional square lattice as opposed to commonly used hexagonal packing. As a proof-of-concept demonstration, a simple model setup was constructed using a 3 x 3 coil array along with a steel plate to be inductively heated. To model surface heating, a set of six locations for the plate was designated considering symmetry points. For all of these cases, power dissipated by the system and the plate's transient heating were recorded. Independent from the specific plate position, almost equal heating speeds were measured for the similar levels of dissipated energies in the system. Using full three-dimensional electromagnetic solutions, the experimental results were also verified. The findings indicate that the proposed system is proved to enable energy efficient space-invariant heating in all-surface induction hobs.
Alzheimer Disease Associated Loci: APOE Single Nucleotide Polymorphisms in Marmara Region
(MDPI, 2024) Ismail, Aya Badeea; Dundar, Mehmet Sait; Erguzeloglu, Cemre Ornek; Ergoren, Mahmut Cerkez; Alemdar, Adem; Ozemri Sag, Sebnem; Temel, Sehime Gulsun; 0000-0002-0336-4825; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü; Dundar, Mehmet Sait
Alzheimer’s disease (AD) is a major global health challenge, especially among individuals aged 65 or older. According to population health studies, Turkey has the highest AD prevalence in the Middle East and Europe. To accurately determine the frequencies of common and rare APOE single nucleotide polymorphisms (SNPs) in the Turkish population residing in the Marmara Region, we conducted a retrospective study analyzing APOE variants in 588 individuals referred to the Bursa Uludag University Genetic Diseases Evaluation Center. Molecular genotyping, clinical exome sequencing, bioinformatics analysis, and statistical evaluation were employed to identify APOE polymorphisms and assess their distribution. The study revealed the frequencies of APOE alleles as follows: ε4 at 9.94%, ε2 at 9.18%, and ε3 at 80.68%. The gender-based analysis in our study uncovered a tendency for females to exhibit a higher prevalence of mutant genotypes across various SNPs. The most prevalent haplotype observed was ε3/ε3, while rare APOE SNPs were also identified. These findings align with global observations, underscoring the significance of genetic diversity and gender-specific characteristics in comprehending health disparities and formulating preventive strategies.
AMP-GSM: Prediction of Antimicrobial Peptides via a Grouping–Scoring–Modeling Approach
(MDPI, 2023) Soylemez, Ummu Gulsum; Yousef, Malik; Bakir-Gungor, Burcu; 0000-0002-6602-772X; 0000-0002-2272-6270; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü; Soylemez, Ummu Gulsum; Bakir-Gungor, Burcu
Due to the increasing resistance of bacteria to antibiotics, scientists began seeking new solutions against this problem. One of the most promising solutions in this field are antimicrobial peptides (AMP). To identify antimicrobial peptides, and to aid the design and production of novel antimicrobial peptides, there is a growing interest in the development of computational prediction approaches, in parallel with the studies performing wet-lab experiments. The computational approaches aim to understand what controls antimicrobial activity from the perspective of machine learning, and to uncover the biological properties that define antimicrobial activity. Throughout this study, we aim to develop a novel prediction approach that can identify peptides with high antimicrobial activity against selected target bacteria. Along this line, we propose a novel method called AMP-GSM (antimicrobial peptide-grouping-scoring-modeling). AMP-GSM includes three main components: grouping, scoring, and modeling. The grouping component creates sub-datasets via placing the physicochemical, linguistic, sequence, and structure-based features into different groups. The scoring component gives a score for each group according to their ability to distinguish whether it is an antimicrobial peptide or not. As the final part of our method, the model built using the top-ranked groups is evaluated (modeling component). The method was tested for three AMP prediction datasets, and the prediction performance of AMP-GSM was comparatively evaluated with several feature selection methods and several classifiers. When we used 10 features (which are members of the physicochemical group), we obtained the highest area under curve (AUC) value for both the Gram-negative (99%) and Gram-positive (98%) datasets. AMP-GSM investigates the most significant feature groups that improve AMP prediction. A number of physico-chemical features from the AMP-GSM's final selection demonstrate how important these variables are in terms of defining peptide characteristics and how they should be taken into account when creating models to predict peptide activity.
Analysis of optical gyroscopes with vertically stacked ring resonators
(TUBITAK SCIENTIFIC & TECHNICAL RESEARCH COUNCIL TURKEYATATURK BULVARI NO 221, KAVAKLIDERE, ANKARA 00000, TURKEY, 2021) Hah, Dooyoung; 0000-0002-1290-0597; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü; Hah, Dooyoung
Without any moving part, optical gyroscopes exhibit superior reliability and accuracy in comparison to mechanical sensors. Microring-resonator-based optical gyroscopes emerged as alternatives for bulky conventional Sagnac interferometer sensors, especially attractive for applications with limited footprints. Previously, it has been reported that planar incorporation of multiple resonators does not bring about improvement in sensitivity for a given area because the increase in Sagnac phase accumulation does not outrun the increase of area. Therefore, it was naturally suggested to consider vertical stacking of ring resonators because then, the resonators can share the same footprint. In this work, sensitivity performances of such configurations with vertically stacked microring resonators are analyzed and compared to that of a basic (single-resonator) configuration. Through comprehensive study, it is learned that the sensitivity performance of the devices with vertically-stacked resonators (either with a single bus waveguide or with two bus waveguides) does not exceed that of the basic sensor device (single resonator with one bus waveguide), i.e. the basic structure is yet to be remained as the most efficient configuration.
Analysis of the in vitro nanoparticle-cell interactions via a smoothing-splines mixed-effects model
(TAYLOR & FRANCIS LTD, 2-4 PARK SQUARE, MILTON PARK, ABINGDON OR14 4RN, OXON, ENGLAND, 2016) Dogruoz, Elifnur; Dayanik, Savas; Budak, Gurer; Sabuncuoglu, Ihsan; AGÜ, Mühendislik Fakültesi, Endüstri Mühendisliği Bölümü;
A mixed-effects statistical model has been developed to understand the nanoparticle (NP)-cell interactions and predict the rate of cellular uptake of NPs. NP-cell interactions are crucial for targeted drug delivery systems, cell-level diagnosis, and cancer treatment. The cellular uptake of NPs depends on the size, charge, chemical structure, and concentration of NPs, and the incubation time. The vast number of combinations of these variable values disallows a comprehensive experimental study of NP-cell interactions. A mathematical model can, however, generalize the findings from a limited number of carefully designed experiments and can be used for the simulation of NP uptake rates, to design, plan, and compare alternative treatment options. We propose a mathematical model based on the data obtained from in vitro interactions of NP-healthy cells, through experiments conducted at the Nanomedicine and Advanced Technologies Research Center in Turkey. The proposed model predicts the cellular uptake rate of silica, polymethyl methacrylate, and polylactic acid NPs, given the incubation time, size, charge and concentration of NPs. This study implements the mixed-model methodology in the field of nanomedicine for the first time, and is the first mathematical model that predicts the rate of cellular uptake of NPs based on sound statistical principles. Our model provides a cost-effective tool for researchers developing targeted drug delivery systems.
Analysis of the motion of a rigid rod on a circular surface using interpolated variational iteration method
(YILDIZ TECHNICAL UNIV, 2022) Coskun, Safa Bozkurt; Senturk, Erman; Atay, Mehmet Tarik; AGÜ, Mühendislik Fakültesi, Mühendislik Bilimleri Bölümü; Atay, Mehmet Tarik
In this paper, interpolated variational iteration method (IVIM) is applied to investigate the vibration period and steady-state response for the motion of rigid rod rocking back and forth on a circular surface without slipping. The problem can be considered as a strongly nonlinear oscillator. In this solution procedure, analytical variational iteration technique is utilized by evaluating the integrals numerically. The approximate analytical results produced by the presented method are compared with the other existing solutions available in the literature. The advantage of using numerical evaluation of integrals, the method becomes fast convergent and a highly accurate solution can be obtained within seconds. The authors believe that the presented technique has potentially wide application in the other nonlinear oscillation problems.
Analysis of under-five mortality by diseases in countries with different levels of development: a comparative analysis
(Prusa Medikal Yayıncılık, 2023) Sütçü, Muhammed; Güner, Pınar; Ersöz, Nur Şebnem; 0000-0002-8523-9103; 0000-0001-5979-0375; 0000-0003-3343-9936; AGÜ, Mühendislik Fakültesi, Endüstri Mühendisliği Bölümü; Sütçü, Muhammed; Güner, Pınar; Ersöz, Nur Şebnem
Objectives: The right to health is critical for children because they are sensitive beings who are more susceptible to disease and health problems. It would be beneficial to compare child mortality rates in countries with different levels of development and to conduct studies to address them by taking into account their causes. This study aims to analyze the situation of developed, developing and least developed countries in terms of causes under-5 child mortality (U5CM) determined by World Health Organization and to identify the similarities or differences of under-five mortality. Methods: Child mortality rates per 1,000 live births between 2000 and 2017 years in between different age groups (0-27 days and 1-59 months) by causes (disease-specific) were obtained from World Health Organization for a total 15 countries including developed, developing and least developed countries. Regression analysis was performed to identify which causes have more impact on child mortality. In addition, the relationship between diseases was calculated using Euclidean distance, and diseases were clustered using k-means clustering algorithm for each country. Results: As a result of mathematical and statistical analysis, it was seen that causes of child mortality have a significant relation with the development level of country where a child was born. Conclusions: It has been observed that the causes of child mortality in countries with different levels of development vary depending on different factors such as geographical conditions, air quality population and access to medicine.
Analyzing lifetime of energy harvesting wireless multimedia sensor nodes in industrial environments
(Elsevier, 2018) Tekin, Nazli; Erdem, H.Emre; Gungor, V.Cagri; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü;
Recently, there has been a great demand for multimedia communication using Wireless Multimedia Sensor Networks (WMSNs) in industrial environments thanks to their low cost, flexibility, and rapid deployment. However, WMSNs face a major challenge of limited lifetime due to their limited battery capacity. Compared to regular data transmission, multimedia data transmission causes higher energy consumption because of larger data sizes leading to faster depletion of sensor node's batteries. The objective of this paper is to analytically quantify the impact of different energy harvesting methods based on vibration, indoor solar, and temperature difference as well as Fast-Zonal DCT and BinDCT based image compression methods on the lifetime of Telos and Mica2 sensor nodes deployed in indoor industrial environment. Performance results show that energy harvesting and image compression techniques improve lifetime of Mica2 and Telos motes by 51.8% and 25.8%, respectively when used with proper power management methods.
Anhydrous proton conducting poly(vinyl alcohol) (PVA)/ poly(2-acrylamido-2-methylpropane sulfonic acid) (PAMPS)/1,2,4-triazole composite membrane
(Elsevier Ltd, 2016) Erkartal, Mustafa; Aslan, Ayse; Erkilic, Ufuk; Dadi, Seyma; Yazaydin, Ozgur; Usta, Hakan; Sen, Unal; 0000-0002-9772-128X; 0000-0003-1849-9180; 0000-0001-8562-723X; 0000-0002-0618-1979; 0000-0003-3736-5049; AGÜ, Mühendislik Fakültesi, Malzeme Bilimi ve Nanoteknoloji Mühendisliği Bölümü; Erkartal, Mustafa; Erkılıç, Ufuk; Dadı, Şeyma; Usta, Hakan; Şen, Ünal
The design and fabrication of anhydrous proton exchange membranes are critically important for high temperature proton exchange membrane fuel cell (HT-PEMFC) operating between 100 and 200 °C. Herein, we demonstrate a novel proton conducting membrane consisting of poly(vinyl alcohol) (PVA), poly (2-acrylamido-2-methylpropane sulfonic acid) (PAMPS) and 1,2,4-triazole, which was fabricated by physical blending, casting and solvent evaporation techniques. The in-situ chemical cross-linking was performed by glutaraldehyde (GA) to improve the water management of the membranes. The molecular structure of the membranes and intermolecular interactions between the constituents were confirmed by Fourier-transform infrared spectroscopy (FT-IR). The surface and cross-section morphologies of the membranes were observed by scanning electron microscopy (SEM). The thermal stability performance of the membranes was studied with thermogravimetric analysis (TGA). In order to determine the physico-chemical properties of the membranes, water uptake (WU), dimensional change and ion exchange capacity (IEC) tests were carried out. The proton conductivities of composite membranes increase with the temperature and the temperature dependencies exhibit an Arrhenius behavior. Proton conductivity measurements revealed an optimum ratio between PAMPS and 1,2,4-triazole content to achieve higher proton conductivity. In anhydrous state at 150 °C, the highest proton conductivity measured was 0.002 S/cm for PVA:PAMPS:1,2,4-triazole (1:1:1) composition. Overall, our investigation showed that 1,2,4-triazole is a promising proton carrier reagent above 100 °C when it is embedded into appropriate host polymers.
An ant colony optimisation algorithm for balancing two-sided U-type assembly lines with sequence-dependent set-up times
(SPRINGER INDIA, 7TH FLOOR, VIJAYA BUILDING, 17, BARAKHAMBA ROAD, NEW DELHI, 110 001, INDIA, 2018) Delice, Yilmaz; Aydogan, Emel Kizilkaya; Soylemez, Ismet; Ozcan, Ugur; 0000-0002-4654-0526; 0000-0002-8253-9389; AGÜ, Mühendislik Fakültesi, Endüstri Mühendisliği Bölümü
Some practical arrangements in assembly lines necessitate set-up times between consecutive tasks. To create more realistic models of operations, set-up times must be considered. In this study, a sequence-dependent set-up times approach for two-sided u-type assembly line (TUAL) structures is proposed for the first time. Previous studies on TUAL have not included set-up times in their analyses. Furthermore, an algorithm based on the Ant Colony Optimization (ACO) algorithm, which is using a heuristic priority rule based procedure has been proposed in order to solve this new approach. In this paper, we look at the sequence-dependent set-up times between consecutive tasks and consecutive cycles, called the "forward set-up time'' and the "backward set-up time'', respectively. Additionally, we examine the "crossover set-up time'', which arises from a new sequence of tasks in a crossover station. In order to model more realistic assembly line configurations, it is necessary to include sequence-dependent set-up times when computing all of the operational times such as task starting times and finishing times as well as the total workstation time. In this study, the proposed approach aims to minimize the number of mated-stations as the primary objective and to minimize the number of total workstations as a secondary objective. In order to evaluate the efficiency of the proposed algorithm, a computational study is performed. As can be seen from the experimental results the proposed approach finds promising results for all literature-test problems.
Application of Biological Domain Knowledge Based Feature Selection on Gene Expression Data
(MDPIST ALBAN-ANLAGE 66, CH-4052 BASEL, SWITZERLAND, 2021) Yousef, Malik; Kumar, Abhishek; Bakir-Gungor, Burcu; AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü; Bakir-Gungor, Burcu
In the last two decades, there have been massive advancements in high throughput technologies, which resulted in the exponential growth of public repositories of gene expression datasets for various phenotypes. It is possible to unravel biomarkers by comparing the gene expression levels under different conditions, such as disease vs. control, treated vs. not treated, drug A vs. drug B, etc. This problem refers to a well-studied problem in the machine learning domain, i.e., the feature selection problem. In biological data analysis, most of the computational feature selection methodologies were taken from other fields, without considering the nature of the biological data. Thus, integrative approaches that utilize the biological knowledge while performing feature selection are necessary for this kind of data. The main idea behind the integrative gene selection process is to generate a ranked list of genes considering both the statistical metrics that are applied to the gene expression data, and the biological background information which is provided as external datasets. One of the main goals of this review is to explore the existing methods that integrate different types of information in order to improve the identification of the biomolecular signatures of diseases and the discovery of new potential targets for treatment. These integrative approaches are expected to aid the prediction, diagnosis, and treatment of diseases, as well as to enlighten us on disease state dynamics, mechanisms of their onset and progression. The integration of various types of biological information will necessitate the development of novel techniques for integration and data analysis. Another aim of this review is to boost the bioinformatics community to develop new approaches for searching and determining significant groups/clusters of features based on one or more biological grouping functions.

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