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musharna/README.md

Hi, I'm Jaret 👋

PhD student in Genetics, Bioinformatics & Computational Biology at Virginia Tech. I build open-source tools at the intersection of plant genomics, machine learning, and LLM tooling.

🔧 What I'm building

data-aggregator-mcp PyPI — a unified research-data MCP: search & fetch datasets across Zenodo, DataCite, NCBI omics (GEO/SRA), and literature (PubMed/OpenAIRE) behind one normalized model. uvx data-aggregator-mcp

plant-genomics-mcp PyPI — 32 genomics tools across 11 backends (Ensembl Plants, UniProt, KEGG, NCBI BLAST, …) with cross-source synthesis.

🌱 Also working on

Long-tail CLIP for orchid ID (5,000+ species) · StyleGAN2-ADA for Cattleya · RNA-seq differential expression · auxin / ARF genomics.

🧰 Stack

Python · R · PyTorch · MCP / LLM tooling · Bioconductor

📫 Find me

musharna.github.io · ORCID 0009-0003-4055-5238

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  1. data-aggregator-mcp data-aggregator-mcp Public

    Unified research-data acquisition MCP — search & fetch datasets across Zenodo, DataCite, NCBI omics (GEO/SRA/BioProject), and literature (PubMed/OpenAIRE) behind one normalized model.

    Python 1

  2. plant-genomics-mcp plant-genomics-mcp Public

    Plant genomics MCP server — 32 tools across 11 backends (Ensembl Plants, Phytozome, UniProt, Europe PMC, QuickGO, NCBI BLAST, Gramene, KEGG, STRING-DB, ATTED-II, BAR) + cross-source synthesis. stdi…

    Python