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elebonny289/README.md

Hi, I'm Eleonora 👋

I'm a PhD student in Immunology at Sapienza University of Rome, working at the intersection of computational biology and tumor immunology. My research path started with a three-year internship in tissue engineering and biocompatibility, which gave me a solid foundation in experimental biology. During my Master's, I joined an immunology lab where I developed hands-on expertise in the computational analysis of high-dimensional single-cell data — and haven't looked back since. My current PhD project focuses on the myeloid compartment of the tumor microenvironment, combining single-cell and spatial transcriptomics to understand innate immune cell heterogeneity in cancer. I also contribute to the wet lab side of the project, working with cell lines, flow cytometry, and basic molecular assays. I care about building reproducible, well-documented analysis pipelines that connect raw sequencing data to biological insight — and about making sure the biology actually drives the analysis, not the other way around.

🔬 Research Interests

Tumour immunology & the myeloid compartment

Single-cell and spatial transcriptomics

Innate immune cell heterogeneity

🛠️ Skills & Tools

Single-cell RNA-seq: Seurat · Harmony · escape (ssGSEA) · clusterProfiler · Pseudobulk differential expression (DESeq2)

Spatial Transcriptomics: 10x Visium data processing and visualisation

Deconvolution & data integration: SPOTlight · STRIDE

Languages & Environments: R · ggplot2 · tidyverse · RStudio · Git / GitHub

Wet lab: Cell line handling · Flow cytometry (FACS) · Western blot · RT-qPCR

Languages & Environments R · ggplot2 · tidyverse RStudio · Git / GitHub

📫 Get in touch

📧 eleonora.bonanni@uniroma1.it 📧 eleonorabonanni4@gmail.com

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  1. elebonny289 elebonny289 Public

  2. scRNA-seq-analysis- scRNA-seq-analysis- Public

    Reusable R pipeline for scRNA-seq analysis of immune cells: QC, Harmony integration, clustering, cell type annotation, DESeq2 pseudobulk DEG, ssGSEA and GO enrichment. Developed during a Master's i…

    R