Machine Learning Data Analysis

Saiful Islam

+1-716-***-**** ********@*******.*** Google Scholar LinkedIn GitHub Buffalo, NY Professional Summary

• Solutions-driven scientist in Computational Biologist, Bioinformatics, specializing in network biology and machine learning applications for omics data.

• Expertise in NGS data analysis (bulk/single-cell RNA-seq, spatial transcriptomics, CITE-seq).

• Advanced skills in Seurat, Bioconductor, Scanpy, and PLINK for comprehensive biological and omics data analysis.

• Extensive programming experience: Python (6+ years), MATLAB (4+ years), R (3+ years).

• Expert in parallel computing and high-performance computing (HPC) for large-scale genomic studies.

• Proficiency in machine learning frameworks: PyTorch, TensorFlow, Keras, PyG, scikit-learn, Pandas, and more.

• PhD in Computational and Data Science with strong interdisciplinary collaboration, bridging computational and biological sciences; 10+ papers on computational biology and high dimensional data analysis, presenting research outcomes in 20+ conferences.

• Recognized leader who organized AI symposiums, scientific workshops, and mentored junior researchers. Experience

Research Assistant, State University of New York at Buffalo, University at Buffalo 01/2023-06/2025

• Developed interpretable gene module detection algorithm for multilayer correlation networks in Genotype-Tissue Expression (GTEx) data.

• Identified tissue-specific switch-like genes analyzing transcriptomes data, advancing diagnostic and therapeutic innovations in gastric cancer and vaginal atrophy.

• Explored the species-specific evolutionary dynamics of 118 species using segmental duplications networks.

• Improved cancer subtyping by integrating multi-omics data from TCGA using graph-based approach.

• Developing advanced gene regulatory inference approach utilizing human tonsil spatial CITE-seq data to improve the understanding of disease specific regulatory mechanism and the drug design. Graduate Teaching Assistant, State University of New York at Buffalo, University at Buffalo 08/2021 –12/2022 Taught MS Courses in Introduction to Probability Theory, Application of Data Sciences: Industrial Overview Lecturer of Mathematics, University of Dhaka, Dhaka, Bangladesh 11/2018 – 08/2021 Courses Taught: Linear Algebra, MATLAB Programming Technical Skills

• • Omics: Programming: RNA-seq, Python scRNA-(PyTorch, seq, Spatial Scanpy, transcriptomic, TensorFlow, CITE-Pandas, seq, epigenomics, NumPy), R (Bioconductor, multi-omics integration, Seurat, ggplot2)CRISPR, MATLAB, SQL

• ML/AI: CNN, LLMs, GAN, Graph Neural Networks, Regression analysis, PCA, SVM, supervised/unsupervised learning

• Tools: Git, Nextflow, Linux, HPC clusters, Jupyter Notebook, VS Code, RStudio, Rmarkdown Education

State University of New York (SUNY) at Buffalo, University at Buffalo Buffalo, NY, USA PhD in Computational and Data Enabled Sciences, CGPA: 4.0/4.0 Summer 2025 University of Dhaka Dhaka, Bangladesh

Master of Science in Mathematics, GPA: 4.0/4.0 05/2018 Award: A F Mujibur Rahman Foundation Gold Medal for securing First Position Bachelor of Science (Hon’s) in Mathematics, CGPA: 3.85/4.0 10/2016 Award: Dean’s Honor Award 2016

Superior Performance (1st position in 2013, 2014 and 2nd position in 2015) in National Undergraduate Mathematics Olympiad in Bangladesh

Selected Publication

1. Aqil, A., Li, Y., Wang, Z., Islam, S., et al., “Switch-like gene expression modulates disease susceptibility,” bioRxiv

(2024). [DOI:10.1101/2024.08.24.609537], Nature Communications (in press) 2. Islam, S., & Hasan, M. N., “Personalized graph feature-based multi-omics data integration for cancer subtype identification,” arXiv (2024). [DOI:10.48550/arXiv.2408.08832] 3. Islam, S., et al., “Evolvability through segmental duplication follows species-specific dynamics,” bioRxiv (2024).

[DOI:10.1101/2024.11.22.624925]

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