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publications
Meta-analysis of miRNA Expression Profiles for Prostate Cancer Recurrence following Radical Prostatectomy
Published in PLoS ONE, 2017
This meta-analysis identifies key miRNA expression profiles associated with prostate cancer recurrence after radical prostatectomy.
Recommended citation: Elnaz Pashaei, Elham Pashaei, Maryam Ahmady, Mustafa Ozen, Nizamettin Aydin (2017). "Meta-analysis of miRNA Expression Profiles for Prostate Cancer Recurrence following Radical Prostatectomy." PLoS ONE.
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CDHu40: a novel marker gene set of neuroendocrine prostate cancer
Published in Briefings in Bioinformatics, 2024
Discovery of a marker gene set for neuroendocrine prostate cancer.
Recommended citation: Liu, S., Nam, H.S., Zeng, Z., Deng, X., Pashaei, E., et al. (2024). "CDHu40: a novel marker gene set of neuroendocrine prostate cancer." Briefings in Bioinformatics.
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Biomarker Identification for Alzheimer’s Disease Using a Multi-Filter Gene Selection Approach
Published in International Journal of Molecular Sciences, 2025
Gene selection strategy to identify Alzheimer’s biomarkers from expression data.
Recommended citation: Pashaei, E., Pashaei, E., Aydin, N. (2025). "Biomarker Identification for Alzheimer’s Disease Using a Multi-Filter Gene Selection Approach." IJMS.
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Binary Hiking Optimization for Gene Selection: Insights from HNSCC RNA-Seq Data
Published in Expert Systems with Applications, 2025
A new binary optimization approach for selecting informative genes from RNA-Seq data.
Recommended citation: Pashaei, E., Pashaei, E., Mirjalili, S. (2025). "Binary Hiking Optimization for Gene Selection." Expert Systems with Applications.
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DiCE: differential centrality-ensemble analysis based on gene expression profiles and protein–protein interaction network
Published in Nucleic Acids Research, 2025
We proposed DiCE, a differential centrality-ensemble framework to discover key genes in cancer using PPI networks and expression data.
Recommended citation: Elnaz Pashaei, Sheng Liu, Kailing Li, et al. (2025). "DiCE: differential centrality-ensemble analysis based on gene expression profiles and protein–protein interaction network." Nucleic Acids Research.
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talks
Talk 1 on Relevant Topic in Your Field
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Conference Proceeding talk 3 on Relevant Topic in Your Field
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teaching
Bioinformatics Algorithms
Undergraduate and Master's Course, Istanbul Aydın University, Department of Software Engineering, 2019
I taught this course at both the undergraduate and master’s levels every Spring semester at Istanbul Aydın University.
Data Mining
Undergraduate and Master's Course, Istanbul Aydın University, Department of Software Engineering, 2019
This course was taught to both undergraduate (SEN 431) and master’s students across multiple Spring and Fall semesters.