$ whoami
FARUK DUBE | PhD | Bioinformatician
# Decoding genomes | Building pipelines | Debugging biology
$ cat about.txt
CURRENT POSITION
PhD Scientist · Computational Biologist @ SciLifeLab, Sweden
RESEARCH FOCUS
Reverse-engineering the vaginal microbiome to map microbial community patterns and predict women's health outcomes
METHODOLOGY
Phylogenetic analysis · Machine learning · Genomic archaeology · Computational ecology
MISSION
Transform complex biological data into actionable health insights through computational innovation
$ ./list_skills.sh
→ Genomics & Sequencing
WGS · RNA-seq · Metagenomics
Assembly · Annotation · Variant calling
→ Data Science
R · Python · Bash
Statistical modeling · Data visualization
→ Machine Learning
Pattern recognition · Classification
High-dimensional biological data
→ Pipeline Engineering
Snakemake · Nextflow
Reproducible workflows · HPC
$ git log --all --graph --decorate
* Gene co-expression networks in Parascaris univalens
2024 Core responsive genes following ivermectin exposure
Identified key gene regulatory networks underlying drug resistance in parasitic nematodes using co-expression analysis and network biology approaches.
→ Read publication
* Ivermectin response mechanisms in C. elegans
2023 Integrative QTL mapping + drug resistance pathways
Combined quantitative trait loci mapping with transcriptomics to dissect genetic architecture of abamectin resistance.
→ Read publication
* Anthelminthic resistance comparative genomics
2022 Cross-species analysis: P. univalens vs C. elegans
Comparative genomics study revealing conserved mechanisms of drug resistance across nematode species.
→ Read publication
$ ls ~/side-projects/
* PhD Planner · Sweden's PhD Platform
Web App Active development
All-in-one platform for PhD students: Find courses, plan your defence, crunch stats with StatBox, and map your research literature with LinkedPapers.
→ Visit phdplanner.com
$ cat contact_info.txt
→ Email: farukmeddie@gmail.com
→ GitHub: github.com/ruqse
→ LinkedIn: linkedin.com/in/farukdube
→ Instagram: instagram.com/farukdube
# Open to: Research collaborations · Consulting opportunities · Interesting problems