Research & Expertise
See how thoughtful, end‑to‑end genomic analysis and clear communication turn complex sequencing data into insights that advance genome research and precision‑medicine‑ready science.
What to Expect
From first conversation to final report, I focus on rigorous analysis, clear communication, and results you can trust. I work collaboratively with research and clinical teams so they always understand what was done, why it matters, and how to use the findings.
Lead genomic project owner: Designed and led multiple end‑to‑end genome and sex‑chromosome studies, from hypothesis and study design through data curation, analysis, interpretation, and manuscript writing, consistently as first author with advisory‑level PI support.
Integrated genome annotation and transcriptomics: Ran MAKER with multi‑evidence support (transcriptomes, proteomes, BUSCO), iteratively trained SNAP/AUGUSTUS, and interpreted gene‑level outputs (BUSCO, exon–intron structure, gene counts) in the context of evolutionary hypotheses.
Advanced genome assembly and QC: Built and validated long‑read assembly pipelines (e.g., PacBio HiFi, hifiasm, VGP‑style workflows), including contamination detection, scaffolding, gap closing, and thorough quality assessment with tools such as GenomeScope, BUSCO, QUAST, BlobToolKit, RagTag, and TGS‑GapCloser.
Strong statistics and scripting on real data: Implemented custom windowing, permutation/randomization tests, and genome‑scale scans in R, using SAMtools/BEDTools and related tools for coverage, GC content, and structural analyses.
Deep repeat and TE analysis expertise: Constructed species‑specific TE libraries, ran systematic RepeatModeler/RepeatMasker annotation, and implemented custom randomization tests and window‑based genome scans to quantify TE landscapes and their relationship to recombination and chromosome evolution.
Recognized independent, high‑impact scientist: Two first‑author papers selected as Editor’s Choice, reflecting external recognition of methodological rigor, clarity of communication, and impact in sex‑chromosome and genome evolution.
