Developing computational solutions for biological data.
Bridging computer science and genomics through data analysis, workflow automation, and practical problem-solving.
Professional Summary
Bioinformatician with a background in computer science, focusing on genomic data analysis and workflow automation.
Proficient in Python, R, Bash Scripting, and machine learning, I focus on analyzing biological datasets and extracting meaningful insights. Enthusiastic about applying computational tools to support research and clinical genomics.
Professional Journey
Bioinformatician
- Assigned to support operational workflows for standard human whole genome sequencing (WGS), focusing on data processing efficiency and reliability.
- Assigned to contribute to the development of a Mycobacterium tuberculosis (Mtb) genomic surveillance platform by translating public health needs into technical specifications.
- Assigned to assist in optimizing bioinformatics services and workflows for public utilization.
Bioinformatics Coordinator
- Coordinated a small 2-person bioinformatics team to direct analysis schedules for high-throughput clinical and research workflows, ensuring timely delivery.
- Explored and implemented novel bioinformatics analysis pipelines to address custom client research requirements and expand analytical capabilities.
- Bridged the gap between technical execution and client outcomes through integrated project oversight and hands-on deep-dive analysis.
- Successfully completed over 80 diverse bioinformatics projects spanning genome assembly, AMR profiling, SARS-CoV-2 variant tracking, 16S/ITS/COI metagenomics, plant genomics, human methylation, and transcriptomics.
Bioinformatician
- Analyzed and interpreted SARS-CoV-2 whole genome sequencing (WGS), NIPT, and clinical genomic data to support product delivery.
- Streamlined operational efficiency by developing automated Python-based workflows for recurring bioinformatics processes.
- Integrated Machine Learning and Deep Learning frameworks to solve predictive challenges in internal operations and client services.
- Facilitated technical growth by training over 75 professionals through 24+ specialized bioinformatics workshops.
Public Research & Open Source
Full 16S rRNA Metagenomics (ONT)
Context
Metagenomic profiling using long-read Oxford Nanopore sequencing data.
Challenge
Accurately estimating abundance and diversity from high-error-rate long reads while maintaining visualization clarity.
Approach
Developed a comprehensive pipeline for alpha/beta diversity and taxonomic profiling with advanced metagenomic visualizations.
Key Takeaway
"Analyzed microbial community composition and diversity from Nanopore long-read sequencing data."
Soil Microbiome QIIME2 Analysis
Context
Comparing soil microbiomes under conventional vs. natural farming practices.
Challenge
Identifying significant microbial shifts between chemical-free and conventional agricultural environments.
Approach
Utilized QIIME2 for robust metagenomic comparisons and differential abundance testing.
Key Takeaway
"Revealed critical differences in soil microbial health influenced by farming methodology."
IMPUTE2 Wrapper & SNP Analytics
Context
Python-based automation for human genome imputation workflows.
Challenge
Parsing IMPUTE2 outputs to automate SNP calculation and facilitate downstream analysis.
Approach
Developed a Python tool to parse and aggregate imputation results into standard analysis formats.
Key Takeaway
"Drastically reduced the time required to post-process large-scale imputation datasets."
Bioinformatics Experience (80+ Projects)
Microbial & Metagenomic Profiling
Context
Scaling metagenomic analysis for AMR detection and complex ecosystems (16S, 18S, ITS, COI).
Challenge
Managing high-throughput shotgun sequencing data for pathogenic bacteria profiling across diverse environmental samples.
Approach
Built and maintained metagenomics workflows for variant identification and bacterial pan-genome analysis.
Key Takeaway
"Delivered actionable insights for both research initiatives and high-stakes clinical applications."
Agricultural & Plant Genomics
Context
Analyzing complex plant genomes to support agricultural biotechnology.
Challenge
Handling large-scale plant genomic datasets with significant repetitive elements and structural variation.
Approach
Applied genome assembly tools and comparative genomics to analyze plant genomic datasets.
Key Takeaway
"Successfully integrated bacterial pan-genome insights with plant host data for systemic understanding."
Human Methylation & Epigenomics
Context
Precision medicine applications focusing on clinical biomarkers.
Challenge
Decoding high-dimensional methylation array data into significant biological patterns.
Approach
Implemented normalization and analysis pipelines for methylation array data analysis.
Key Takeaway
"Provided foundational data for diagnostic product development in the clinical genomic space."
80+ end-to-end bioinformatics projects completed across genomics, clinical research, and IT automation.
Project OverviewTeaching, Speaking & Mentoring
Technical Speaker & Facilitator
I act as a bridge between technology and research by conducting technical workshops, guest lectures, and training sessions. My focus is on empowering scientists with the computational tools they need to unlock biological insights.
- Mentored 8+ students and researchers across undergraduate theses, tailored bioinformatics guidance programs, and annual mentoring initiatives
- Intro to Unix for Genomics & Post-NGS workflows
- Workflow Orchestration & Reproducibility (Nextflow/Python)
- Machine Learning application in Clinical Genomics
Recent Reading & Notes
Reproducible Bioinformatics
Nature Reviews · Paper
Nextflow in Production
Seqera Docs · Newsletter
Algorithms in Bioinformatics
Dan Gusfield · Book
Selected Speaking Engagements
Workshop Bash For Biological Data Analysis
Technical Workshop Pelatihan Pemrograman Bioinformatika
Talk Show From Lab to Launch
Hands-On Session: Beginner's Guide to Machine Learning for Cases Prediction
Introduction to Nextflow for Bioinformatics Automation
Scientific Contributions
Optimisation of peptides targeting reverse transcriptase HIV-1 using QSAR, machine learning, and computational approaches
Frontiers in Pharmacology · 2025Reflective note:Applied computational methods and ML to analyze HIV-1 reverse transcriptase peptides and narrow down candidate sequences.
Revealing Pogostemon cablin (Blanco) Benth. and Murraya koenigii (L.) Spreng. action targets on AKT1 as papillary thyroid cancer therapy based on bioinformatics approach
Journal of Pharmacy & Pharmacognosy Research · 2025Reflective note:Utilized a network pharmacology and bioinformatics workflow to evaluate herbal compounds targeting AKT1 in papillary thyroid cancer.
Targeting phosphoglycerate dehydrogenase enzyme using ginger compounds to suppress thyroid cancer progression
Narra X · 2024Reflective note:Conducted virtual screening to analyze ginger-derived compounds against phosphoglycerate dehydrogenase in thyroid cancer.
Learning Impact & Certifications
Intensive Summer Schools
HPC Foundation in Computational Biomolecular Research
Deep dive into HPC infrastructure, molecular docking/dynamics, and complex systems via data, network, and AI frameworks.
Genomics & 'Omics in Infectious Diseases
Advanced training in variant detection, eQTLs, GWAS, and phylo-dynamics mentored by London School of Hygiene & Tropical Medicine experts.
Technical Certification
Cloud & Machine Learning
— Gained practical experience with SageMaker, Computer Vision, and NLP on AWS cloud infrastructure.
— Learned core cloud architecture principles for hosting and running bioinformatics workloads.
Deep Learning & IT
— Implemented GAN architectures and image classification with Python-first focus. Deep dive into Python.
— Applied neural networks to classify phenotypic patterns from genomic markers.
Continuous Learning Path
Collaboration & Contact
Let's discuss systems and science.
I'm always open to discussing new research opportunities, technical collaborations, or simply sharing insights about the evolving landscape of bioinformatics. Whether you have a specific project in mind or just want to chat about genomic data, feel free to reach out.