About & Academic CV
I am Md. Hridoy Ahmed, a molecular genetics and computational biology researcher working where genomic variant interpretation, wet-lab molecular biology, and computer-aided drug and vaccine discovery meet. My work asks how genetic variation shapes complex disease, and how computational methods can shorten the road to new therapeutics.
Md. Hridoy Ahmed
Researcher · Molecular Biologist · Computational Biology
Academic Profile
I completed both my B.Sc. and M.Sc. in Genetic Engineering and Biotechnology at the University of Chittagong, finishing among the top ranks of my cohort. Those years gave me a firm grounding in molecular biology, functional genomics, and bioinformatics, and they shaped a lasting interest in translational genomics.
My research moves across several connected areas. I have profiled matrix metalloproteinase gene variants in periodontitis and diabetes, pursued antiviral drug discovery against the Chikungunya virus RdRp, and designed immunoinformatics-based vaccine candidates for the Mpox virus. To date I have published three first-author articles, two of them in Q1 journals and a Wiley review on molecular pharming, each carefully validated rather than rushed.
Beyond my own projects, I founded BioPC, a research and training community that has supported more than a thousand learners across several countries. Through it I have mentored students, led collaborative research, and run hands-on bioinformatics workshops and national olympiads.
Mission
To connect laboratory genetics with computational modelling so that the genetic basis of complex disease can be understood and acted upon, and to make rigorous research training reach students who would otherwise go without it.
Philosophy
Good science is patient and honest. I prefer results that survive validation across methods over findings that merely look striking. I also believe knowledge grows when it is shared, which is why teaching and open mentorship sit at the centre of my work.
Goals
I am pursuing doctoral study in molecular medicine, computational biology, or precision genomics, with the aim of building an independent research line on disease-associated variation and structure-based therapeutic design.
Education
M.Sc. (Thesis) — Genetic Engineering & Biotechnology
2023 – 2025University of Chittagong · First Class, · CGPA 3.94 / 4.00
- Thesis: Molecular Mechanisms of Apical Periodontitis Influenced by Diabetes via MMP-1, MMP-3 and MMP-9 Variant Analysis.
- Techniques: DNA extraction and quantification, PCR/qPCR, Sanger sequencing, whole-exome sequencing QC, and variant annotation.
B.Sc. (Honours) — Genetic Engineering & Biotechnology
2019 – 2023University of Chittagong · First Class, · CGPA 3.89 / 4.00
- Maintained first class standing across every academic year.
- Key coursework: Molecular Biology, Genetics, Genomics, Microbiology, Immunology, Recombinant DNA Technology, Cell Signalling, Bioinformatics, and Clinical Biotechnology.
Research Experience
Research Associate, Functional Genomics & Proteomics Laboratory
2025 – PresentVariant analysis across diabetes, cardiovascular disease, chronic kidney disease, PCOS, and periodontitis.
- Disease-associated variant discovery and interpretation.
- PCR and qPCR, Sanger sequencing, and gel electrophoresis.
- NGS data analysis with GATK, Hisat2, BWA, VCFtools, and SAMtools.
Thesis Researcher, Functional Genomics & Proteomics Laboratory
2024 – 2025Variant analysis across diabetes and periodontitis.
- PCR and qPCR, Sanger sequencing, and gel electrophoresis.
- NGS data analysis with GATK, Hisat2, BWA, VCFtools, and SAMtools.
Summer Research Intern, Alternative Medicine & Natural Product Research Lab
2023Isolation and screening of nanophytocompounds with computational and laboratory validation.
- Nanophytocompound isolation and purification.
- Antioxidant and antimicrobial assays in animal models.
- Molecular docking and dynamics simulation for compound screening.
Research Intern, National Institute of Biotechnology
2023Hands-on exposure to Sanger sequencing and next-generation sequencing workflows.
- Sanger sequencing and NGS workflow exposure.
- DNA extraction, PCR amplification, and gel visualisation.
- Training on molecular instrumentation.
Skills
Wet-Lab Skills
Sanger sequencing (preparation to chromatogram analysis) · DNA & protein isolation · Gel electrophoresis (agarose & PAGE) · PCR, qPCR & RT-PCR · Centrifugation & sample fractionation · Karyotyping · Plant extract preparation · Organic compound isolation & fractionation · Phytochemical screening · Anti-inflammatory assays (protein denaturation, membrane stabilisation) · Determination of blood components · ELISA & SDS-PAGE
Computational Biology & Bioinformatics
AutoDock, PyRx, Schrödinger Suite · GROMACS (MD simulation) · LigandScout, Discovery Studio · SwissADME / SwissModel · MarvinJS, GaussView, Gaussian, Gabedit · Cytoscape (network analysis) · STRING (protein interactions) · GEO & ArrayExpress (transcriptomics) · NAMD & VMD · MEGA (phylogenetics) · IPA (pathway analysis), DFT-based analysis · GATK, Hisat2, BWA · SAMtools, VCFtools, SnpEff · FastQC, Trimmomatic · Whole-genome assembly, genome annotation, RNA-seq, GWAS
Programming, Systems & Visualisation
R (ggplot2, Bioconductor) · Python (Biopython, Pandas, NumPy) · HTML / CSS · SPSS · Linux / Ubuntu (command line, bash scripting) · macOS · Windows · GraphPad Prism, OriginPro · LaTeX · MS Word, Excel, PowerPoint
Awards & Honours
National Science & Technology (NST) Fellowship
Government of Bangladesh. Awarded for outstanding research potential and academic excellence through a competitive national selection.
Best Research Paper Presenter — Darwin International Conference
4th Edition. Recognised for clarity, scientific rigour, and innovative methodology for the Mpox multi-epitope vaccine study.
Most Brilliant Student Award — Kishoreganj (2016)
Science category. District-level recognition for academic performance and scientific excellence.
Best Campus Representative
International Conference on Natural Science & Technology, Asian University for Women, Chittagong. Awarded for leadership and coordination.
Best Poster Presenter — Senior Category
Department of Genetic Engineering & Biotechnology, University of Chittagong. Recognised for scientific visualisation and presentation.
Grameen Bank Scholarship Recipient (2016–2017)
Awarded on the basis of merit and community contribution.
Certifications & Training
Sanger Sequencing Training
FGPL, University of Chittagong
Sample preparation and purification · Cartridge filling and sequence loading · Chromatogram interpretation and troubleshooting
Research Methodology
BRAC University (Red & White)
Research proposal writing · Scientific project design · Basic bioinformatics tools
Diabetes Course
University of Copenhagen (Coursera)
Diabetes pathophysiology · Clinical management and treatment strategies · Epigenetic factors and diet-exercise interactions
Advanced Bioinformatics & Data Analysis
NextGenHelper, India
Network construction with Cytoscape, microbiome data analysis · Python and Biopython pipelines, R and RStudio statistics · Linux workflows and NGS techniques (assembly, annotation, RNA-seq, GWAS, variant analysis)
Linux Training
Bioscience Factory Research Center, Bangladesh
Linux essentials and bash scripting for biologists · File and data handling · Pipeline automation
Professional Activities
Founder, Research Coordinator & Chief Instructor, BioPC
- Instructed 15 training programmes as chief trainer for more than 1,000 students.
- Organised two nationwide virtual bioinformatics olympiads and roughly five workshops.
- Led six research projects involving 40 trainees.
- Mentored contributors toward two Q1 journal publications.
Invited & contributed talks
- “An immuno-informatics approach for annotation of hypothetical proteins and multi-epitope vaccine design against the Mpox virus” — Darwin International Conference — 4th Edition, India
- “A structure-based drug design approach for the identification of antiviral compounds targeting the Chikungunya virus RdRp protein” — International Conference on Natural Science & Technology — Asian University for Women
- “Immuno-informatics study targeting 20 membrane glycoproteins for B and T cell epitope prediction and multi-epitope vaccine design against Monkeypox virus” — ICSB–RSG Bioinformatics Symposium