Kurum Yazarı "Bakir-Gungor, Burcu" İçin Listeleme
-
Active Subnetwork GA: A Two Stage Genetic Algorithm Approach to Active Subnetwork Search
Ozisik, Ozan; Bakir-Gungor, Burcu; Diri, Banu; Sezerman, Osman Ugur (BENTHAM SCIENCE PUBL LTDEXECUTIVE STE Y-2, PO BOX 7917, SAIF ZONE, 1200 BR SHARJAH, U ARAB EMIRATES, 2017)Background: A group of interconnected genes in a protein-protein interaction network that contains most of the disease associated genes is called an active subnetwork. Active subnetwork search is an NP-hard problem. In the ... -
AMP-GSM: Prediction of Antimicrobial Peptides via a Grouping–Scoring–Modeling Approach
Soylemez, Ummu Gulsum; Yousef, Malik; Bakir-Gungor, Burcu (MDPI, 2023)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 ... -
Application of Biological Domain Knowledge Based Feature Selection on Gene Expression Data
Yousef, Malik; Kumar, Abhishek; Bakir-Gungor, Burcu (MDPIST ALBAN-ANLAGE 66, CH-4052 BASEL, SWITZERLAND, 2021)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 ... -
Blockchain-based Fog Computing Applications in Healthcare
Adanur, Beyhan; Bakir-Gungor, Burcu; Soran, Ahmet (IEEE, 2020)— Son zamanlarda blokzincir teknolojisinin sağlık alanında kullanımı artmıştır. Blokzincir teknolojisinin sağlık alanına getirdiği birçok yenilik olmasına rağmen, halen çözülmeyi bekleyen problemleri mevcuttur. Bu ... -
CCPred: Global and population-specific colorectal cancer prediction and metagenomic biomarker identification at different molecular levels using machine learning techniques
Bakir-Gungor, Burcu; Temiz, Mustafa; Inal, Yasin; Cicekyurt, Emre; Yousef, Malik (ELSEVIER, 2024)Colorectal cancer (CRC) ranks as the third most common cancer globally and the second leading cause of cancer-related deaths. Recent research highlights the pivotal role of the gut microbiota in CRC development and ... -
A comparative study on psychiatric disorders: Identification of shared pathways and common agents
Kuzudisli, Cihan; Bakir-Gungor, Burcu (Institute of Electrical and Electronics Engineers Inc., 2022)Distinct but closely related diseases generally present shared symptoms, which address possible overlaps among their pathogenic mechanisms. Identification of significantly impacted shared pathways and other common agents ... -
Developing a label propagation approach for cancer subtype classification problem
Guner, Pinar; Bakir-Gungor, Burcu; Coskun, Mustafa (TUBITAK SCIENTIFIC & TECHNICAL RESEARCH COUNCIL TURKEYATATURK BULVARI NO 221, KAVAKLIDERE, ANKARA 00000, TURKEY, 2022)Cancer is a disease in which abnormal cells grow uncontrollably and invade other tissues. Several types of cancer have various subtypes with different clinical and biological implications. Based on these differences, ... -
Discovering Potential Taxonomic Biomarkers of Type 2 Diabetes From Human Gut Microbiota via Different Feature Selection Methods
Bakir-Gungor, Burcu; Bulut, Osman; Jabeer, Amhar; Nalbantoglu, O. Ufuk; Yousef, Malik (FRONTIERS MEDIA SAAVENUE DU TRIBUNAL FEDERAL 34, LAUSANNE CH-1015, SWITZERLAND, 2021)Human gut microbiota is a complex community of organisms including trillions of bacteria. While these microorganisms are considered as essential regulators of our immune system, some of them can cause several diseases. In ... -
The Effect of Different Classifiers on Recursive Cluster Elimination in the Analysis of Transcriptomic Data
Bulut, Nurten; Bakir-Gungor, Burcu; Qaqish, Bahjat F.; Yousef, Malik (Institute of Electrical and Electronics Engineers Inc., 2023)Gene expression data with limited sample size and a large number of genes are frequently encountered in genetic studies. In such high-dimensional data, identification of genes that distinguish between disease states is ... -
Effect of Recursive Cluster Elimination with Different Clustering Algorithms Applied to Gene Expression Data
Kuzudisli, Cihan; Bakir-Gungor, Burcu; Qaqish, Bahjat F.; Yousef, Malik. (Institute of Electrical and Electronics Engineers Inc., 2023)Feature selection (FS) is an effective tool in dealing with high dimensionality and reducing computational cost. Support Vector Machines – Recursive Cluster Elimination (SVM-RCE) is one of several algorithms that have ... -
Ensemble Feature Selection for Clustering Damage Modes in Carbon Fiber-Reinforced Polymer Sandwich Composites Using Acoustic Emission
Gulsen, Abdulkadir; Kolukisa, Burak; Caliskan, Umut; Bakir-Gungor, Burcu; Gungor, Vehbi Cagri (John Wiley and Sons Inc, 2024)Acoustic emission (AE) serves as a noninvasive technique for real-time structural health monitoring, capturing the stress waves produced by the formation and growth of cracks within a material. This study presents a novel ... -
GeNetOntology: identifying affected gene ontology terms via grouping, scoring, and modeling of gene expression data utilizing biological knowledge-based machine learning
Ersoz, Nur Sebnem; Bakir-Gungor, Burcu; Yousef, Malik (FRONTIERS MEDIA SA, 2023)Introduction: Identifying significant sets of genes that are up/downregulated under specific conditions is vital to understand disease development mechanisms at the molecular level. Along this line, in order to analyze ... -
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 ... -
Integrative analyses in omics data: Machine learning perspective
Yazici, Miray Unlu; Bakir-Gungor, Burcu; Yousef, Malik (Deutsche Gesellschaft fur Medizinische Informatik, Biometrie und Epidemiologie e.V., 2023)Developments in the high throughput technologies have enabled the production of an immense amount of knowledge at the multi-omics level. Considering complex diseases which are affected by multi-factors, single omics datasets ... -
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 ... -
microBiomeGSM: the identification of taxonomic biomarkers from metagenomic data using grouping, scoring and modeling (G-S-M) approach
Bakir-Gungor, Burcu; Temiz, Mustafa; Jabeer, Amhar; Wu, Di; Yousef, Malik (FRONTIERS MEDIA SA, 2023)Numerous biological environments have been characterized with the advent of metagenomic sequencing using next generation sequencing which lays out the relative abundance values of microbial taxa. Modeling the human microbiome ... -
miRcorrNet: machine learning-based integration of miRNA and mRNA expression profiles, combined with feature grouping and ranking
Yousef, Malik; Goy, Gokhan; Mitra, Ramkrishna; Eischen, Christine M.; Jabeer, Amhar; Bakir-Gungor, Burcu (PEERJ INC341-345 OLD ST, THIRD FLR, LONDON EC1V 9LL, ENGLAND, 2021)A better understanding of disease development and progression mechanisms at the molecular level is critical both for the diagnosis of a disease and for the development of therapeutic approaches. The advancements in high ... -
miRcorrNetPro: Unraveling Algorithmic Insights through Cross-Validation in Multi-Omics Integration for Comprehensive Data Analysis
Yazici, Miray Unlu; Yousef, Malik; Marron J.S.; Bakir-Gungor, Burcu (Institute of Electrical and Electronics Engineers Inc., 2023)High throughput -omics technologies facilitate the investigation of regulatory mechanisms of complex diseases. Along this line, scientists develop promising tools and methods to extend our understanding at the molecular ... -
miRdisNET: Discovering microRNA biomarkers that are associated with diseases utilizing biological knowledge-based machine learning
Jabeer, Amhar; Temiz, Mustafa; Bakir-Gungor, Burcu; Yousef, Malik (Frontiers Media S.A., 2023)During recent years, biological experiments and increasing evidence have shown that microRNAs play an important role in the diagnosis and treatment of human complex diseases. Therefore, to diagnose and treat human complex ... -
Network anomaly detection using Deep Autoencoder and parallel Artificial Bee Colony algorithm-trained neural network
Hacilar, Hilal; Dedeturk, Bilge Kagan; Bakir-Gungor, Burcu; Gungor, Vehbi Cagr (PEERJ INC, 2024)Cyberattacks are increasingly becoming more complex, which makes intrusion detection extremely difficult. Several intrusion detection approaches have been developed in the literature and utilized to tackle computer security ...
