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Hire Agshin B.

United States

USD 30 /hr

Bioinformatician & Computational Biologist | 6+ Years in Genomics, Single-Cell & Spatial Omics

Profile Summary

I am a PhD candidate in Bioinformatics & Computational Biology with 6+ years of research experience in cancer genomics, mutation analysis, single-cell and spatial omics, imaging, and reproducible bioinformatics workflows. I have extensive experience analyzing whole-genome sequencing data, including somatic and germline variants, driver mutations, structural variants and copy-number alterations, and integrating genomic findings with bulk RNA-seq, scRNA-seq, single-cell Multiome ATAC/RNA-seq, spatial transcriptomics and spatial single-cell imaging data. I have also applied machine learning and deep learning to biological data, including developing an ML pipeline for viral detection in lymphoma and PyTorch-based image classification. My research has contributed to peer-reviewed publications and conference work in cancer and pulmonary disease. I work primarily in Python, R, Bash and Linux, with extensive experience in HPC environments, Nextflow, Snakemake, Git/GitHub, Slurm and scientific data visualization.

Subject Matter Expertise

• ★ Genomics
• ★ Statistics
• ★ Bioinformatics
• ☆ Computational Biology
• ☆ Biostatistics
• ☆ Mathematical Biology
• ☆ Molecular Biology
• ☆ Biomarkers
• ☆ Genetics
• ☆ Microarrays
• ☆ Omics
• ☆ Transcriptomics
• ☆ Comparative Genomics
• ☆ Next Generation Sequencing (NGS)
• ☆ ATAC-Seq
• ☆ DNA Sequencing
• ☆ Gene Expression Analysis
• ☆ Genome Sequencing
• ☆ Exome Sequencing
• ☆ RNA Sequencing
• ☆ Data Analysis
• ☆ Image Processing
• ☆ Data Processing
• ☆ Data Exploration
• ☆ Data Visualization
• ☆ Machine Learning
• ☆ Data Mining
• ☆ Data Cleaning
• ☆ Neural Networks
• ☆ Deep Learning
• ☆ Regression Analysis
• ☆ Multivariate Analysis
• ☆ Nonlinear Regression
• ☆ Bayesian Statistics
• ☆ Study Design
• ☆ Spatial Statistics
• ☆ Medical Statistics
• ☆ Gene & Protein Expression Analysis
• ☆ Systems Biology
• ☆ Population Genetics

Services

• Writing
• Research
• Consulting
• Data & AI

Writing Technical Writing

Research Scientific and Technical Research, Systematic Literature Review

Consulting Scientific and Technical Consulting

Data & AI Predictive Modeling, Statistical Analysis, Image Analysis, Algorithm Design-Non ML, Algorithm Design-ML, Data Visualization, Data Mining, Data Cleaning, Data Processing, Data Insights

Work Experience

PhD candidate

University of Minnesota

September 2023 - Present

Postgraduate Researcher

Yale University

August 2021 - August 2023

Graduate Researcher

University of Zurich

September 2019 - June 2021

Internee

Yale University

July 2018 - August 2018

Education

PhD

University of Minnesota

September 2023 - Present

M.Sc (Master of Science)

University of Zurich

September 2018 - June 2021

Honours Bachelors of Science

University of Toronto

September 2013 - April 2017

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

Agshin Balayev, Ala’a Al Hrout, Karla Cervantes-Gracia, Konstantinos Gkelis, Stephan Benke, Julia M. Matínez Gómez, Karina Silina, Mitchell P. Levesque, Richard Chahwan (2025). B cell extracellular vesicles influence melanoma response to immune checkpoint therapy . Science Advances.

Agshin Balayev, Mada Ghanem, Aurélien Justet, Madeleine Jaillet, Eirini Vasarmidi, Tiara Boghanim, Mouna Hachem, Aurélie Vadel, Audrey Joannes, Pierre Mordant, et al. (2024). Identification of FGFR4 as a regulator of myofibroblast differentiation in pulmonary fibrosis . American Journal of Physiology-Lung Cellular and Molecular Physiology.

A. Justet, H.R. Pineda, T. Adams, A. Balayev, N. Mitash, M. Ishizuka, H. Kim, J. Khoury, J.D. Cala-García, J. Flint, et al. (2024). Fibrotic cocktail treated human precision lung slices replicate the cellular diversity of the IPF lung . Revue des Maladies Respiratoires.

Agshin Balayev, Vadim Kurbatov, Areo Saffarzadeh, Danielle R. Heller, Daniel J. Boffa, Justin D. Blasberg, Jun Lu, Sajid A. Khan (2020). Digital Inference of Immune Microenvironment Reveals Low-Risk Subtype of Early Lung Adenocarcinoma . The Annals of Thoracic Surgery.

PREPRINT

Agshin Balayev, Taylor S Adams, Jonas C Schupp, Johad Khoury, Aurélien Justet, Fadi Nikola, Laurens J De Sadeleer, Juan Cala-Garcia, Marta Zapata-Ortega, Panayiotis V Benos, et al. (2025). Alveolar epithelial cell plasticity and injury memory in human pulmonary fibrosis .