Yazar "AGÜ, Mühendislik Fakültesi, Bilgisayar Mühendisliği Bölümü" için Mühendislik Fakültesi listeleme
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The Identification of Discriminative Single Nucleotide Polymorphism Sets for the Classification of Behcet's Disease
Gormez, Yasin; Isik, Yunus Emre; Bakir-Gungor, Burcu (IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2018)Behcet's disease is a long-term multisystem inflammatory disorder, characterized by recurrent attacks affecting several organs. As the genotyping individuals get cheaper and easier following the developments in genomic ... -
Identification of possible pathogenic pathways in Behcet's disease using genome-wide association study data from two different populations
Bakir-Gungor, Burcu; Remmers, Elaine F.; Meguro, Akira; Mizuki, Nobuhisa; Kastner, Daniel L.; Gul, Ahmet; Sezerman, Osman U. (NATURE PUBLISHING GROUP, MACMILLAN BUILDING, 4 CRINAN ST, LONDON N1 9XW, ENGLAND, 2015)Behcet's disease (BD) is a multi-system inflammatory disorder of unknown etiology. Two recent genome-wide association studies (GWASs) of BD confirmed a strong association with the MHC class I region and identified two ... -
Identification of Shared Pathways Among Immune Related Diseases Utilizing Active Subnetworks
Eryilmaz, Mahmut Kaan; Kuzudisli, Cihan; Gungor, Burcu Bakir (IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2020)Different, but related diseases often contain shared symptoms indicating the presence of possible overlaps in underlying pathogenic mechanisms. The identification of the shared pathways and related factors across these ... -
Identify Commonly Affected Pathways in Psychiatric Diseases
Bulut, Umit; Bakir-Gungor, Burcu (IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2018)Genome-wide association studies (GWAS) are an extraordinary source of information when it comes to revealing the common variations of human complex diseases. Until now, the large amount of data generated from these studies ... -
Identifying Taxonomic Biomarkers of Colorectal Cancer in Human Intestinal Microbiota Using Multiple Feature Selection Methods
Jabeer, Amhar; Kocak, Aysegul; Akkas, Huseyin; Yenisert, Ferhan; Nalbantoglu, Ozkan Ufuk; Yousef, Malik; Bakir Gungor, Burcu (Institute of Electrical and Electronics Engineers Inc., 2022)A variety of bacterial species called gut microbiota work together to maintain a steady intestinal environment. The gastrointestinal tract contains tremendous amount of different species including archaea, bacteria, fungi, ... -
IGPRED-MultiTask: A Deep Learning Model to Predict Protein Secondary Structure, Torsion Angles and Solvent Accessibility
Gormez, Yasin; Aydin, Zafer (IEEE COMPUTER SOC, 2023)Protein secondary structure, solvent accessibility and torsion angle predictions are preliminary steps to predict 3D structure of a protein. Deep learning approaches have achieved significant improvements in predicting ... -
IGPRED: Combination of convolutional neural and graph convolutional networks for protein secondary structure prediction
Gormez, Yasin; Sabzekar, Mostafa; Aydin, Zafer (WILEY111 RIVER ST, HOBOKEN 07030-5774, NJ, 2021)There is a close relationship between the tertiary structure and the function of a protein. One of the important steps to determine the tertiary structure is protein secondary structure prediction (PSSP). For this reason, ... -
The impact of error control schemes on lifetime of energy harvesting wireless sensor networks in industrial environments
Tekin, Nazli; Gungor, Vehbi Cagri (ELSEVIER, RADARWEG 29, 1043 NX AMSTERDAM, NETHERLANDS, 2020)Due to the harsh channel conditions of the industrial environments, the data transmission over the wireless channel suffers from erroneous packets. The energy consumption of error control schemes is of great importance for ... -
Improved classification of colorectal polyps on histopathological images with ensemble learning and stain normalization
Yengec-Tasdemir, Sena Busra; Aydin, Zafer; Akay, Ebru; Dogan, Serkan; Yilmaz, Bulent (ELSEVIER IRELAND, 2023)Background and Objective: Early detection of colon adenomatous polyps is critically important because correct detection of it significantly reduces the potential of developing colon cancers in the future. The key challenge ... -
In silico analyses and global transcriptional profiling reveal novel putative targets for Pea3 transcription factor related to its function in neurons
Kandemir, Basak; Dag, Ugur; Bakir Gungor, Burcu; Durasi, Ilknur Melis; Erdogan, Burcu; Sahin, Eray; Sezerman, Ugur; Kurnaz Aksan, Isil (PUBLIC LIBRARY SCIENCE, 1160 BATTERY STREET, STE 100, SAN FRANCISCO, CA 94111 USA, 2017)Pea3 transcription factor belongs to the PEA3 subfamily within the ETS domain transcription factor superfamily, and has been largely studied in relation to its role in breast cancer metastasis. Nonetheless, Pea3 plays a ... -
In-silico Identification of Papillary Thyroid Carcinoma Molecular Mechanisms
Ersoz, Nur Sebnem; Guzel, Yasin; Bakir-Gungor, Burcu (IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2019)Representing approximately 70% to 80% of thyroid cancers, papillary thyroid cancer (PTC) is the most common type of thyroid cancers. PTC is seen in all age groups, but it is seen more frequently in women than in men. ... -
Industrial wireless sensor and actuator networks in industry 4.0: Exploring requirements, protocols, and challenges—A MAC survey
Raza, Saleem; Faheem, Muhammad; Gunes, Mesut (John Wiley and Sons Ltd, 2019)ThevisiontoconnecteverydayphysicalobjectstotheInternetpromisestocreate the Internet of Things (IoT), which is expected to integrate the diverse technologies such as sensors, actuators, radio frequency identification, ... -
Inflammatory bowel disease biomarkers of human gut microbiota selected via different feature selection methods
Bakır Güngör, Burcu; Hacılar, Hilal; Jabeer, Amhar; Nalbantoğlu, Özkan Ufuk; Aran, Oya; Yousef, Malik (PEERJ INC, 2022)The tremendous boost in next generation sequencing and in the “omics” technologies makes it possible to characterize the human gut microbiome—the collective genomes of the microbial community that reside in our gastrointestinal ... -
Integrated querying and version control of context-specific biological networks
Cowman, Tyler; Coskun, Mustafa; Grama, Ananth; Koyuturk, Mehmet (OXFORD UNIV PRESS, GREAT CLARENDON ST, OXFORD OX2 6DP, ENGLAND, 2020)Motivation: Biomolecular data stored in public databases is increasingly specialized to organisms, context/pathology and tissue type, potentially resulting in significant overhead for analyses. These networks are often ... -
Integrating Gene Ontology Based Grouping and Ranking into the Machine Learning Algorithm for Gene Expression Data Analysis
Yousef, Malik; Sayici, Ahmet; Bakir-Gungor, Burcu (SPRINGER INTERNATIONAL PUBLISHING AGGEWERBESTRASSE 11, CHAM, CH-6330, SWITZERLAND, 2021)Recent advances in the high throughput technologies resulted in the production of large gene expression data sets for several phenotypes. Via comparing the gene expression levels under different conditions, such as disease ... -
Intelligent traffic light systems using edge flow predictions
Thahir, Adam Rizvi; Coşkun, Mustafa; Kılıç, Sultan Kübra; Gungor, Vehbi Cagrı (ELSEVIER, 2024)In this paper, we propose a novel graph-based semi-supervised learning approach for traffic light management in multiple intersections. Specifically, the basic premise behind our paper is that if we know some of the occupied ... -
International student projects in a blended setting: How to facilitate problem based project work
Pedersen, Jens Myrup; Elsner, Raphael; Kuran, Mehmet Şükrü; Prikulis, Lauris; Zabludowski, Lukasz (University of Minho, 2018)his paper describes our experiences with facilitating international student projects during three years of the Erasmus+ Strategic Partnership COLIBRI (Collaboration and Innovation for Better, Personalized and IT-Supported ... -
Intrinsic graph topological correlation for graph convolutional network propagation
Coskun, Mustafa (ELSEVIER, 2022)Recently, Graph Convolutional Networks (GCNs) and their variants become popular to learn graph-related tasks. These tasks include link prediction, node classification, and node embedding, among many others. In the node ... -
Invention of 3Mint for feature grouping and scoring in multi-omics
Yazici, Miray Unlu; Marron, J. S.; Bakir-Gungor, Burcu; Zou, Fei; Yousef, Malik (FRONTIERS MEDIA SA, 2023)Advanced genomic and molecular profiling technologies accelerated the enlightenment of the regulatory mechanisms behind cancer development and progression, and the targeted therapies in patients. Along this line, intense ... -
Investigation of Hepatocellular Carcinoma Molecular Mechanisms via in Silico Analyses
Dogan, Refika Sultan; Saka, Samed; Gungor, Burcu Bakir (IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2020)Hepatocellular carcinoma (HCC) is the most common cause of cancer-related death in the world. The molecular changes in the organism during the development of HCC are not fully understood. The aim of the present study is ...