Molecular biologist turned computational biologist. I work at the point where wet lab meets pipeline: I prepare the libraries, then build the reproducible workflow that analyses them.
Completed a project in metagenomics (University of Greifswald/Friedrich-Loeffler-Institut), where I built a Snakemake pipeline for taxonomic profiling of the commensal RNA virome in mosquitoes and fine-tuned nucleotide-transformer foundation model for viral classification. Before that, my bachelor on Biotechnology (University of Chittagong) and a European Master in Animal Breeding and Genetics (University of Goettingen/AgroParisTech) — quantitative genetics, GWAS, and genomic prediction — all provided me the philosophy of integrative biology and systems thinking.
Currently looking for PhD, research associate/assistant or industry roles in computational biology/bioinformatics, Genetics/Breeding, experimental biology or related field.
| metagx | An interview-driven metagenomics platform. A per-tool parameter registry is the single source of truth that drives the interview questions, config validation, CLI/MCP schemas, and the Snakemake command lines at once — add a flag in one place and it appears everywhere. Covers QC → classification → abundance → assembly → binning, plus optional functional, AMR, ancient-DNA, amplicon, and strain-level layers. Ships with a documented, honest coverage matrix of what is actually executed in CI versus DAG-verified. |
| GWAS_GS | A 16-lesson course that teaches genomic prediction by reproducing a published G3 study end to end — from raw GBS reads to a 0/1/2 genotype matrix, GBLUP three ways, and the across-cycle multi-trait result. Every claim is checked against the paper's own numbers. |
| MorphTaxonomyViewer | An offline, dependency-free tool that scores how alike two organisms are from recorded morphology and compares that to their taxonomic distance. The gap between the two is where cryptic species and missing measurements become visible. |
| biostatistics | Working notes and chapters on the statistics I actually use in genomics. |
Languages: · Python · R · Bash · JS
Workflows & reproducibility: · Snakemake · Conda · Docker · Singularity/Apptainer · Git · CI
Genomics: · Metagenomics (kraken2/Bracken, assembly, binning) · Nanopore (ONT) & Illumina · Variant calling · GWAS · Genomic prediction · Functional genomics · SLURM/HPC · Imaging (Confocal Light Microscopy)
ML/DL: · PyTorch · TensorFlow · Hugging Face Transformers · fine-tuning nucleotide transformers
Wet lab: · DNA/RNA extraction · RT-qPCR · SISPA · virus enrichment (ultracentrifugation) · ONT & Illumina library prep · cloning · transfection · LMH cell culture · Neurobiological staining (HES, LFB) · Neurobiological techniques (ISH, IF)
- A novel function for KIF1C in myelination and myelin maintenance (Submitted to GLIA, my MS thesis project from INRAE Jouy-en-Josas)
- Hasan M.M., Das R., Rasheduzzaman M., et al. Global and local mutations in Bangladeshi SARS-CoV-2 genomes. Virus Research 297 (2021).
- Lokman S.M., Rasheduzzaman M., et al. Exploring the genomic and proteomic variations of SARS-CoV-2 spike glycoprotein: a computational biology approach. Infection, Genetics and Evolution 84 (2020).
LinkedIn · ORCID · HuggingFace · md.rasheduzzaman.ugoe[@]gmail.com