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scatcher125/README.md

Hi, I'm Reva 👋

Bioinformatics Data Scientist & Researcher | Data Pipelines & Agentic AI | Transcriptomics & Genomics

Welcome to my page! I am a Bioinformatician who has been drawing actionable insights for Drug Development and Clinical studies within Cancer and Cardio-metabolic disease areas from Transcriptomics and Genomics data, ever since I first discovered Bioinformatics in 2018. This GitHub showcases repositories spanning my areas of expertise, including standard Transcriptomics and Genomics analyses, Data Pipelines and Agentic AI tools that I am developing.

🧬 Featured Projects

🫀 PKP2 Gene Therapy for ARVC (Communications Medicine)

Recreates bulk RNAseq analyses conducted as part of my PKP2 Gene Therapy for ARVC study published within Communications Medicine in 2024.

View Repository →

🧬 GWAS Metabolite Population Genetics

GWAS meta-analysis of metabolites and T2D; includes harmonization, genetic correlation, fine-mapping, eQTL colocalization, and Mendelian randomization.

View Repository →

🤖 QC Interpreter Agent

LangGraph-based agentic workflow that parses Genomics sequencing Quality Control (QC) metrics and uses an LLM to generate plain-English summaries for non-computational research collaborators.

View Repository →

🔬 Single-Cell RNAseq

Transcriptomic analysis pipeline for single-cell RNA sequencing data. Quality control, clustering, differential expression, and cell-type annotation.

View Repository →

Upcoming projects:

  • Survival analysis using survminer
  • MAFtools
  • bash shell scripting & slurm jobs
  • WGS/WES end-to-end workflow
  • Upstream RNAseq analyses using Salmon
  • ATAC-seq methylation data analysis
  • Nextflow/Snakemake
  • Causal inference using matchit
  • Spatial RNAseq

📫 Connect

GitHub @scatcher125 | LinkedIn | Google Scholar

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  1. RNAseq-PKP2GeneTherapy-DrugMOA RNAseq-PKP2GeneTherapy-DrugMOA Public

    Recreates bulk RNAseq analyses conducted as part of my PKP2 Gene Therapy for ARVC study published within Communications Medicine in 2024.

    R

  2. GWAS-Metabolite-Population-Genetics GWAS-Metabolite-Population-Genetics Public

    GWAS meta-analysis of metabolites and T2D; includes harmonization, genetic correlation, fine-mapping, eQTL colocalization, and Mendelian randomization.

  3. QC-Interpreter-Agent QC-Interpreter-Agent Public

    LangGraph-based agentic workflow that parses Genomics sequencing Quality Control (QC) metrics and uses an LLM to generate plain-English summaries for non-computational research collaborators.

    Python

  4. Single-cell-RNAseq Single-cell-RNAseq Public

    Single cell RNAseq analysis using Seurat. Includes dimensionality reduction, clustering and cell type identification.

    R

  5. Bulk-RNAseq Bulk-RNAseq Public

    Bulk RNA-seq analysis including differential gene expression, gene set enrichment analysis, and weighted gene co-expression network analysis.

    R

  6. erictleung/shinydiversity erictleung/shinydiversity Public

    Interactive application to explore various ecological diversity metrics

    R 5 8

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