Md Mainul hasan Sarker, PhD
Computational Biologist, Researcher & Educator
About Me
Key Expertise
- Statistical modeling
- Machine learning
- Data analysist
- Genomics
- Epigenomics
- Transcriptomics
- Bioinformatics
- NGS Analysis
Expart in| Advanced Molecular Biology | Biostat | NGS | Epigenomics | Transcriptomics | Bioinformatics
I am a dedicated researcher with a strong background in plant and human genomics, epigenomics, transcriptomics, and bioinformatics. My current work has focused on mental and physical health, Specially cardiovascular risk assesments using statistical model as well as related marker prediction, microRNA expression profiling associated with Post traumatic stress disorder. Previously I have done working on unlocking the genetic secrets behind heat tolerance in weedy rice during my tenure as a Graduate Researcher at Monash University. I have received a Graduate Research Merit Scholarship in recognition of my contributions to the field.
Key Research Highlights:
- ✦Design prediction model using R and python
- ✦Machine learning model development using python
- ✦Mediation analysis
- ✦Statistical analysis using Python, SPSS, and R
- ✦Phylogenetic and synteny analysis
- ✦NGS pipeline development and implementation
- ✦Whole-genome sequencing (WGS) analysis
- ✦RNA-seq and differential gene expression analysis
- ✦Plant tissue culture and field seed germination expertise
- ✦Bacterial tissue culture and genomics
- ✦Research protocol design and development
- ✦RT-qPCR for candidate gene validation
Research
Transcriptomic Data Analysis
Development of computational methods for bacterial transcriptome analysis, focusing on the identification and characterization of novel non-coding RNAs using Transcriptome data.
Learn more →Machine Learning in Bioinformatics
Application of machine learning techniques for biological data analysis, including deep learning approaches for sequence analysis and pattern recognition in genomic data.
Learn more →Next-Generation Sequencing Data Analysis
Development of computational pipelines for the analysis of next-generation sequencing data, including genome assembly, variant detection, and gene expression analysis.
Learn more →Bioinformatics Tool Development
Design and development of bioinformatics tools for data analysis, visualization, and interpretation, including web-based applications and command-line tools.
Learn more →Selected Publications
Screening of heat stress-tolerant weedy rice and SNP identification of heat-tolerance-related genes
Authors: MH Sarker, MH Hussain, TX Neik, MZ Hasan, WY Wee
Journal of Plant Biotechnology, 2024
Screening of heat stress-tolerant weedy rice and SNP identification of heat-tolerance-related genes.
Hot off the genes: uncovering differentially expressed genes in Malaysian weedy rice in response to heat stress
Authors: MH Sarker, MH Hussain, TX Neik, MZ Hasan, WY Wee, et al.
Euphytica, 2025
This research focused on genetic factors associated with heat tolerance and their impact on heat stress response in Malaysian weedy rice. Using RNA sequencing (RNA-Seq) technology, we examined gene expression pattern of weedy rice under high temperature stress. Specific genes related to heat tolerance in weedy rice were identified. .
DNA Methylation as a Mediator of Cardiovascular Disease Risk in Relation to PTSD Severity: Identification of Potential Epigenetic Biomarkers
Authors: MMH Sarker, A Ratanatharathorn, AH Wani, AE Aiello, et al.
Biological Psychiatry, 2025
Investigation of DNA methylation patterns as potential biomarkers for cardiovascular disease risk in relation to PTSD severity.
Murraya paniculata (L.) jack: a potential plant for treatment of toothache
Authors: MD Faisal, MH Sarker, A Rahman, AI Hossain., et al.
Journal of Medicinal Plants Research, 2014
Investigation of the potential therapeutic properties of Murraya paniculata for dental pain management.
Teaching
Next Generation Sequencing Bioinformatics
AIMST University Malaysia, 2021
Workshop on Bacterial Transcriptome Analysis and Identification of ncRNAs
Course Materials →Workshop on R for Bioinformatics
AIMST University Malaysia, 2021
R Statistics Essential Training, Python for Data Science Essential Training, Data Science Foundations: Data Mining
Course Materials →Statistical Unit teaching assistant
Monash University, 2018 to 2022
Statistics Essential Training & Marking Assistant
Course Materials →Contact
Feel free to reach out to me for research collaborations, speaking engagements, or any other inquiries.