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  • University of Minnesota

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rachanapandey2016/README.md

Hi there 👋

Rachana Pandey

🎓 Education

  • Ph.D. in Health Informatics- Translational Bioinformatics track University of Minnesota- Twin Cities (Aug 2023- present)
  • Master of Science in Biotechnology, West Virginia State University (2021-2023)
  • Bachelor of Science in Agriculture, Tribhuvan University, Nepal (2015-2019)
  • Seeking collaboration opportunities in bioinformatics project – short or long term.

📚 Publications

https://scholar.google.com/citations?user=l-D1UNYAAAAJ&hl=en

🧠 Skills & Analysis Expertise

  • Single-cell & bulk sequencing

    • Single-cell RNA-seq analysis (Cell Ranger, Seurat, scRepertoire)
    • Bulk RNA-seq analysis (FastQC, multiQC, Trimmomatic, STAR, Bowtie2, FeatureCount, DESeq2, edgeR, pathway analysis)
    • Bulk TCR-seq and repertoire profiling (MixTCRpred, scRepertoire, TCRdist3)

  • TCR & Immunogenomics

    • TCR repertoire analysis(TCRdist3)
    • TCR-epitope binding prediction (NetMHCpan, pMTnet, AlphaFold-Multimer)
    • Quasi-public & meta-clonotype analysis (TCRdist3)

  • Genomic Analysis

    • Whole genome/exome sequencing (WGS/WES)
    • ChIP-seq analysis(Chromap, MACS2)
    • GWAS, fine mapping, and PRS development (BWA, PLINK, susieR, TASSEL)

  • Statistical & Machine Learning Methods

    • Survival analysis, regression modeling
    • Dimensionality reduction (PCA, t-SNE, UMAP)
    • Classical and ensemble ML algorithms (SVM, RF)
    • Deep Learning

🌐 Connect with me

Feel free to explore my repositories and reach out if you have any questions or ideas for collaboration!

Pinned Loading

  1. Bulk-RNA-seq-differential-gene-expression-analysis Bulk-RNA-seq-differential-gene-expression-analysis Public

    R

  2. ChIP-seq-analysis ChIP-seq-analysis Public

    Shell

  3. Data-Mining-CSCI-5523 Data-Mining-CSCI-5523 Public

    Python

  4. Machine-Learning-Fundamentals Machine-Learning-Fundamentals Public

    Jupyter Notebook

  5. Polygenic-Risk-Score-Analysis-and-Fine-mapping Polygenic-Risk-Score-Analysis-and-Fine-mapping Public

  6. rachanapandey2016 rachanapandey2016 Public