TÜBİTAK Project Support (09 July 2022)
The project titled "Personalized Follow-up Reporting with Metabolomics-Based Machine Learning Approaches in the Progression of Autosomal Dominant Polycystic Kidney Disease", which will be directed by Gökmen Zararsız, was deserved to be supported.
Welcome Emre Çiçekyurt
Emre Çiçekyurt is a senior computer engineering student at Abdullah Gül University. He is the founder and mentor of the Google Developer Student Club at AGU. He did his first internship experience as Mobile Application Developer at Zuzu Software Company. He is a passionate Kaggle Expert that researches and develops in the field of Machine Learning. Recently, he has been working on Early Phase Drug Discovery by using Deep Neural Networks in the PMAA Research Group.
Welcome Aleyna Erakcaoğlu
Aleyna Erakcaoğlu is an undergraduate Molecular Biology and Genetics student at Abdullah Gül University who wants to improve herself in Biostatistics, Bioinformatics, and Statistical Methods in Diagnostic Tests. In the PMAA group, she is currently working on a Meta-Analysis about Machine Learning in the Diagnosis of Skin Cancer.
Welcome İrem Eroğlu
İrem Eroğlu is an undergraduate student at Abdullah Gül University, Department of Molecular Biology and Genetics. She wants to improve herself in biostatistics, bioinformatics and statistical methods in diagnostic tests, She is currently working on a Meta-Analysis on Machine Learning in Skin Cancer Diagnosis.
Welcome Ahmet Sezgin
Ahmet is an undergraduate student at AGU Computer Science department. He aims to specialize in Bioinformatics, Data Science, and Machine Learning. He is currently working on MLSeqSurv which is a project about applying survival analysis algorithms to RNA sequencing data.
Artificial Intelligence Education in Applied Medicine (13-15 March 2022)
A comprehensive "Artificial Intelligence Education in Applied Medicine" training was provided including Basics of R programming language, Introduction to Machine Learning, Classification Analysis, Class Imbalance, Diagnostic Tests, Cluster Analysis, Regression Analysis, Bioinformatics and Artificial Intelligence Applications, Data Visualization with R.
Oral Presentation Award (16 April 2022)
Serra İlayda Yerlitaş, one of our PMAA group members, won the "best content" award among oral presentations with her presentation titled "dtComb: A Comprehensive R Library for Combining Diagnostic Tests" at the "WhyR Turkey? 2022" conference.
Patent Success (21 March 2022)
The invention includes a secure and confidential analysis system that includes algorithms in which the performance of diagnostic tests developed as a single or multicenter can be evaluated, the performances of more than one diagnostic test can be compared and the best cutoff values can be determined for the diagnostic test with high performance.
Welcome Gamze Hatlar
Gamze is an undergraduate bioengineering student at Abdullah Gul University who wants to improve herself in different kinds of areas such as Genomic Technologies, Data Science, Computer Science related to biology and health topics. In the PMAA group, she is currently working on Novel Approaches for the Progression of Autosomal Dominant Polycystic Kidney Disease.
Welcome Funda İpekten
Funda is going on her masters in Biostatistics at Erciyes University. Her research work focused on statistical analysis of high-throughput metabolomics data. In her masters thesis she works on the performance assessment of different approaches for integrating multi-omics data. In PMAA group, Funda currently works for the ‘Combining Diagnostic Tests Using Multicenter Cohort Data’.
Welcome Necla Kayaalp
Necla was born in Izmir in 1987. She graduated from the Department of Mathematics, Izmir University of Economics in 2010.
Then she started to do a master in Applied Statistics at the same university. After graduating from the master program, she did a Ph.D. in Applied Mathematics and Statistics.
She worked at Izmir University of Economics as a research assistant for seven years during my graduate studies. Her Ph.D. thesis “A new RNA-Seq data classifier based on
quantile transformation” was supervised by Prof. Dr. G.Y. Tütüncü. She gained extensive knowledge in the field of genomic research and familiarised with RNA-Seq technology
in the very beginning of my dissertation. In 2018, Prof. Dr. Gordon K Smyth, co-division head of Bioinformatics division at WEHI, invited her to visit his lab in Australia.
With the scholarship she got from “The Scientific and Technological Research Council of Turkey”, she joined Smyth lab for 8 months as a visiting scientist. During her visit at
Smyth lab, she focused on the RNA-Seq data analysis and developed a novel classification method for RNA-Seq samples, which was published in PeerJ, Bioinformatics and
Genomics section. Additionally, she assisted trainees in R workshops held at WEHI at that time. They finally focused on dependency between genes locally and proposed a new
local covariance matrix estimation technique for high throughput genomic data where dependence relation has a major role in the analysis. This study was published in
Expert Systems with Applications in 2020. After getting graduated from Ph.D., she worked in a COVID19 project as a postdoctoral researcher for 8 months. They focused on the
mutational dynamics of SARS-CoV-2 in the UK and US populations and the results are published in Infection, Genetics and Evolution.
Her research interests are computational biology, statistical data analysis, fuzzy theory, classification and biostatistics.
Welcome Selim Yürekli
Selim is continuing his undergraduate degree in computer engineering at Istanbul Technical University as a 3rd year student. He works on algorithm design and analysis in autonomous vehicles, computer vision, machine learning and deep learning. In PMAA group, he is currently working on 'Deep learning Based Data Classification for Drug Discovery'.
Welcome Esma Gamze Aksel
Esma Gamze Aksel was born in 1987 in Kars. She graduated from Selcuk University Faculty of Veterinary Medicine in 2010. In 2010, she started her PhD education at Selcuk University, Department of Biochemistry. In 2012, she was appointed as a research assistant to Erciyes University, Faculty of Veterinary Medicine, Department of Genetics. In 2013, she started her second PhD program in the Department of Animal Science. In 2019, she submitted her PhD thesis titled "Investıgatıon of some genes related wıth ımmune mechanısm by real-tıme expressıon analysıs method ın perıpheral blood mononuclear cells (PBMC) on Akkaraman lambs". She started her master's degree in Medical Biostatistics in February 2021. Areas of interest; animal genetics, biostatistics, bioinformatics, music.
