• A Two-Dimensional Method For Evaluating Maintainability And Reliability Of Open Source Software 

      Yilmaz, Nebi; Tarhan, Ayca (2019)
      Increased popularity of open source software (OSS) has led to a considerable proliferation of alternative software. However, there is a lack of studies in literature that shed light into the evaluation of OSS by organizations. ...
    • Assessing Risks And Threats With Layered Approach To Internet Of Things Security 

      Aydos, Murat; Vural, Yilmaz; Tekerek, Adem (2019)
      Internet of Things is the next-generation Internet network created by intelligent objects with software and sensors, employed in a wide range of fields such as automotive, construction, health, textile, education and ...
    • Complexity, Size And Internal Quality In The Evolution Of Mobile Applications: An Exploratory Study 

      Gezici, Bahar; Tarhan, Ayca; Chouseinoglou, Oumout (2019)
      Mobile applications are becoming complex software systems as they rapidly evolve and grow constantly to meet user requirements. However, satisfying these requirements may lead to poor design choices known as `antipatterns' ...
    • Correlation Of Critical Success Factors With Success Of Software Projects: An Empirical Investigation 

      Garousi, Vahid; Tarhan, Ayca; Pfahl, Dietmar; Coskuncay, Ahmet; Demirors, Onur (2019)
      Software engineering researchers have, over the years, proposed different critical success factors (CSFs) which are believed to be critically correlated with the success of software projects. To conduct an empirical ...
    • Discovery Of Tandem And Interspersed Segmental Duplications Using High-Throughput Sequencing 

      Soylev, Arda; Le, Thong Minh; Amini, Hajar; Alkan, Can; Hormozdiari, Fereydoun (2019)
      Motivation: Several algorithms have been developed that use high-throughput sequencing technology to characterize structural variations (SVs). Most of the existing approaches focus on detecting relatively simple types of ...
    • Examination Of Various Classification Strategies In Classification Of Lung Nodule Characteristics 

      Kaya, Aydin; Keceli, Ali Seydi; Can, Ahmet Burak (2019)
      Nodule characteristics used in the evaluation of lung nodules are generally subjective assessments of the expert opinions. Among these characteristics, the most known and used one for prediction is the degree of malignancy. ...
    • Extending A Sentiment Lexicon With Synonym-Antonym Datasets: Swnettr Plus 

      Saglam, Fatih; Genc, Burkay; Sever, Hayri (2019)
      In our previous studies on developing a general-purpose Turkish sentiment lexicon, we constructed SWNetTR-PLUS, a sentiment lexicon of 37K words. In this paper, we show how to use Turkish synonym and antonym word pairs to ...
    • Identifying Criminal Organizations From Their Social Network Structures 

      Cinar, Muhammet Serkan; Genc, Burkay; Sever, Hayri (2019)
      Identification of criminal structures within very large social networks is an essential security feat. By identifying such structures, it may be possible to track, neutralize, and terminate the corresponding criminal ...
    • Multiple Model Kalman And Particle Filters And Applications: A Survey 

      Akca, Alper; Efe, M. Onder (2019)
      Kalman Filters (KF) is a recursive estimation algorithm, a special case of Bayesian estimators under Gaussian, linear and quadratic conditions. For non-linear systems, Extended Kalman Filter (EKF) and Unscented Kalman ...
    • The Cafa Challenge Reports Improved Protein Function Prediction And New Functional Annotations For Hundreds Of Genes Through Experimental Screens 

      Zhou, Naihui; Jiang, Yuxiang; Bergquist, Timothy R.; Lee, Alexandra J.; Kacsoh, Balint Z.; Crocker, Alex W.; Lewis, Kimberley A.; Georghiou, George; Nguyen, Huy N.; Hamid, Md Nafiz; Davis, Larry; Dogan, Tunca; Atalay, Volkan; Rifaioglu, Ahmet S.; Dalkıran, Alperen; Cetin Atalay, Rengul; Zhang, Chengxin; Hurto, Rebecca L.; Freddolino, Peter L.; Zhang, Yang; Bhat, Prajwal; Supek, Fran; Fernández, José M.; Gemovic, Branislava; Perovic, Vladimir R.; Davidović, Radoslav S.; Sumonja, Neven; Veljkovic, Nevena; Asgari, Ehsaneddin; Mofrad, Mohammad R.K.; Profiti, Giuseppe; Savojardo, Castrense; Martelli, Pier Luigi; Casadio, Rita; Boecker, Florian; Schoof, Heiko; Kahanda, Indika; Thurlby, Natalie; McHardy, Alice C.; Renaux, Alexandre; Saidi, Rabie; Gough, Julian; Freitas, Alex A.; Antczak, Magdalena; Fabris, Fabio; Wass, Mark N.; Hou, Jie; Cheng, Jianlin; Wang, Zheng; Romero, Alfonso E.; Paccanaro, Alberto; Yang, Haixuan; Goldberg, Tatyana; Zhao, Chenguang; Holm, Liisa; Törönen, Petri; Medlar, Alan J.; Zosa, Elaine; Borukhov, Itamar; Novikov, Ilya; Wilkins, Angela; Lichtarge, Olivier; Chi, Po-Han; Tseng, Wei-Cheng; Linial, Michal; Rose, Peter W.; Dessimoz, Christophe; Vidulin, Vedrana; Dzeroski, Saso; Sillitoe, Ian; Das, Sayoni; Lees, Jonathan Gill; Jones, David T.; Wan, Cen; Cozzetto, Domenico; Fa, Rui; Torres, Mateo; Warwick Vesztrocy, Alex; Rodriguez, Jose Manuel; Tress, Michael L.; Frasca, Marco; Notaro, Marco; Grossi, Giuliano; Petrini, Alessandro; Re, Matteo; Valentini, Giorgio; Mesiti, Marco; Roche, Daniel B.; Reeb, Jonas; Ritchie, David W.; Aridhi, Sabeur; Alborzi, Seyed Ziaeddin; Devignes, Marie-Dominique; Koo, Da Chen Emily; Bonneau, Richard; Gligorijević, Vladimir; Barot, Meet; Fang, Hai; Toppo, Stefano; Lavezzo, Enrico; Falda, Marco; Berselli, Michele; Tosatto, Silvio C.E.; Carraro, Marco; Piovesan, Damiano; Ur Rehman, Hafeez; Mao, Qizhong; Zhang, Shanshan; Vucetic, Slobodan; Black, Gage S.; Jo, Dane; Suh, Erica; Dayton, Jonathan B.; Larsen, Dallas J.; Omdahl, Ashton R.; McGuffin, Liam J.; Brackenridge, Danielle A.; Babbitt, Patricia C.; Yunes, Jeffrey M.; Fontana, Paolo; Zhang, Feng; Zhu, Shanfeng; You, Ronghui; Zhang, Zihan; Dai, Suyang; Yao, Shuwei; Tian, Weidong; Cao, Renzhi; Chandler, Caleb; Amezola, Miguel; Johnson, Devon; Chang, Jia-Ming; Liao, Wen-Hung; Liu, Yi-Wei; Pascarelli, Stefano; Frank, Yotam; Hoehndorf, Robert; Kulmanov, Maxat; Boudellioua, Imane; Politano, Gianfranco; Di Carlo, Stefano; Benso, Alfredo; Hakala, Kai; Ginter, Filip; Mehryary, Farrokh; Kaewphan, Suwisa; Björne, Jari; Moen, Hans; Tolvanen, Martti E.E.; Salakoski, Tapio; Kihara, Daisuke; Jain, Aashish; Šmuc, Tomislav; Altenhoff, Adrian; Ben-Hur, Asa; Rost, Burkhard; Brenner, Steven E.; Orengo, Christine A.; Jeffery, Constance J.; Bosco, Giovanni; Hogan, Deborah A.; Martin, Maria J.; O’Donovan, Claire; Mooney, Sean D.; Greene, Casey S.; Radivojac, Predrag; Friedberg, Iddo (2019)
      Background The Critical Assessment of Functional Annotation (CAFA) is an ongoing, global, community-driven effort to evaluate and improve the computational annotation of protein function. Results Here, we report on the ...
    • Turkish Lexicon Expansion By Using Finite State Automata 

      Ozturk, Burak; Can, Burcu (2019)
      Turkish is an agglutinative language with rich morphology. A Turkish verb can have thousands of different word forms. Therefore, sparsity becomes an issue in many Turkish natural language processing (NLP) applications. ...