Bioinformatician | Research + Engineering
Bridging Biology and Engineering through Bioinformatics.
I am a bioinformatician with an undergraduate background in biology and graduate studies in engineering. I work at the intersection of biological questions, computational methods, and reliable scientific software.
My interests include computational systems biology, RNA-seq, genome-scale metabolic modeling, and multi-omics integration. I value transparent methods, reproducible analysis, and careful interpretation of evidence.
- Systems biology: constraint-based modeling, metabolic networks, and context-specific models
- Cancer bioinformatics: transcriptomic analysis and cancer metabolism
- Multi-omics integration: connecting molecular measurements to mechanistic models
- Reproducible research: traceable data, validated workflows, and clearly documented limitations
| Project | Focus |
|---|---|
| RNASeqAnalysisWithSalmon | Reanalysis of prostate cancer RNA-seq using Salmon, tximport, and DESeq2; includes checks and comparison with published findings. Final scientific review is ongoing. |
| AuxoYeast Reproducibility Audit | Notebook-based reproducibility investigation of yeast genome-scale metabolic model curation and auxotrophy predictions. |
| Bioinformatics Intelligence Radar | Evidence-oriented monitoring with structured records, validation, and testable Python components. |
| Biology Resource Registry | Structured, subject-based biology learning resources and documented learning pathways. |
| RNA-Seq R Course | Educational material for learning RNA-seq analysis using R. |
Programming: Python · R · Bash
Bioinformatics: Salmon · tximport · DESeq2 · COBRApy · SBML
Research computing: Linux · Jupyter · Git · GitHub Actions
I am exploring the integration of multi-omics data with context-specific human genome-scale metabolic models, particularly for studying cancer metabolism.
I aim to combine biological interpretation with maintainable, testable computational workflows while documenting scientific uncertainty and limitations.
I am interested in computational biology, systems biology, and open scientific software. For project-specific discussions, please open an issue in the relevant repository.