Publications

You can also find my articles on my Google Scholar profile.

Journal Articles

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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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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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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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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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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