Kurum Yazarı "Bakir-Gungor, Burcu" PubMed İndeksli Yayınlar Koleksiyonu İçin Listeleme
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Aguhyper: a hyperledger-based electronic health record management framework
Dedeturk, Beyhan Adanur; Bakir-Gungor, Burcu (PEERJ INC, 2024)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 ... -
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 ... -
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 ... -
CSA-DE-LR: enhancing cardiovascular disease diagnosis with a novel hybrid machine learning approach
Dedeturk, Beyhan Adanur; Dedeturk, Bilge Kagan; Bakir-Gungor, Burcu (PEERJ INC, 2024)Cardiovascular diseases (CVD) are a leading cause of mortality globally, necessitating the development of efficient diagnostic tools. Machine learning (ML) and metaheuristic algorithms have become prevalent in addressing ... -
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 ... -
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 ... -
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 ... -
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 ... -
PriPath: identifying dysregulated pathways from differential gene expression via grouping, scoring, and modeling with an embedded feature selection approach
Yousef, Malik; Ozdemir, Fatma; Jaber, Amhar; Allmer, Jens; Bakir-Gungor, Burcu (BMC, 2023)BackgroundCell homeostasis relies on the concerted actions of genes, and dysregulated genes can lead to diseases. In living organisms, genes or their products do not act alone but within networks. Subsets of these networks ... -
Statistical and Machine Learning Techniques in Human Microbiome Studies: Contemporary Challenges and Solutions
Bakir-Gungor, Burcu; Moreno-Indias, Isabel; Lahti, Leo; Nedyalkova, Miroslava; Elbere, Ilze; Roshchupkin, Gennady; Adilovic, Muhamed; Aydemir, Onder; Santa Pau, Enrique Carrillo-de; D'Elia, Domenica; Desai, Mahesh S.; Falquet, Laurent; Gundogdu, Aycan; Hron, Karel; Klammsteiner, Thomas; Lopes, Marta B.; Marcos-Zambrano, Laura Judith; Marques, Claudia; Mason, Michael; May, Patrick; Pasic, Lejla; Pio, Gianvito; Pongor, Sandor; Promponas, Vasilis J.; Przymus, Piotr; Saez-Rodriguez, Julio; ampri, Alexia; Shigdel, Rajesh; Stres, Blaz; Suharoschi, Ramona; Truu, Jaak; Truica, Ciprian-Octavian; Vilne, Baiba; Vlachakis, Dimitrios; Yilmaz, Ercument; Zeller, Georg; Zomer, Aldert L.; Gomez-Cabrero, David; Claesson, Marcus J. (FRONTIERS MEDIA SAAVENUE DU TRIBUNAL FEDERAL 34, LAUSANNE CH-1015, SWITZERLAND, 2021)The human microbiome has emerged as a central research topic in human biology and biomedicine. Current microbiome studies generate high-throughput omics data across different body sites, populations, and life stages. Many ... -
TextNetTopics Pro, a topic model-based text classification for short text by integration of semantic and document-topic distribution information
Voskergian, Daniel; Bakir-Gungor, Burcu; Yousef, Malik (FRONTIERS MEDIA SA, 2023)With the exponential growth in the daily publication of scientific articles, automatic classification and categorization can assist in assigning articles to a predefined category. Article titles are concise descriptions ... -
A toolbox of machine learning software to support microbiome analysis
Marcos-Zambrano, Laura Judith; López-Molina, Víctor Manuel; Bakir-Gungor, Burcu; Frohme, Marcus; Karaduzovic-Hadziabdic, Kanita; Klammsteiner, Thomas; Ibrahimi, Eliana; Lahti, Leo; Loncar-Turukalo, Tatjana; Dhamo, Xhilda; Simeon, Andrea; Nechyporenko, Alina; Pio, Gianvito; Przymus, Piotr; Sampri, Alexia; Trajkovik, Vladimir; Lacruz-Pleguezuelos, Blanca; Aasmets, Oliver; Araujo, Ricardo; Anagnostopoulos, Ioannis; Aydemir, Önder; Berland, Magali; Calle, M. Luz; Ceci, Michelangelo; Duman, Hatice; Gündoğdu, Aycan; Havulinna, Aki S.; Kaka Bra; Kardokh Hama Najib; Kalluci, Eglantina; Karav, Sercan; Lode, Daniel; Lopes, Marta B.; May, Patrick; Nap, Bram; Nedyalkova, Miroslava; Paciência, Inês; Pasic, Lejla; Pujolassos, Meritxell; Shigdel, Rajesh; Susín, Antonio; Thiele, Ines; Truică, Ciprian-Octavian; Wilmes, Paul; Yilmaz, Ercument; Yousef, Malik; Claesson, Marcus Joakim; Truu, Jaak; Carrillo de Santa Pau, Enrique (Frontiers Media SA, 2023)The human microbiome has become an area of intense research due to its potential impact on human health. However, the analysis and interpretation of this data have proven to be challenging due to its complexity and ... -
Topological feature generation for link prediction in biological networks
Temiz, Mustafa; Bakir-Gungor, Burcu; Sahan, Pinar Guner; Coskun, Mustafa (PEERJ INC, 2023)Graph or network embedding is a powerful method for extracting missing or potential information from interactions between nodes in biological networks. Graph embedding methods learn representations of nodes and interactions ...
