Bioinformatician
Immunity & Cancer Lab
Supervisor: Dr Dinis Calado, The Francis Crick Institute
Jun 2023 – Present
Topics – B-cell lymphomagenesis, chemotherapy resistance, plasma cell longevity, vaccine efficacy
• Performed NGS processing & analysis across 6 projects; analysed >20 T- & B-cell single-cell datasets
• Developed advanced R packages to pipeline single-cell and JH4 amplicon sequencing analysis
• Self-host CELLxGENE portal and GitHub Pages to enable user-friendly visualization of outputs for lab members
• Validate lymphomagenesis in novel mouse genetic models by the inference of copy number variation & trajectory analysis
• Establish novel prognostic gene signatures from mouse single-cell datasets for B-cell lymphoma patients
• Integrate epigenome, transcriptome and proteome data to identify targets for antibody staining & gene manipulation
• Characterization of antigen-specific plasma cells during infections & vaccination via scRNAseq & VDJ clonotype analysis
Bioinformatician
Cancer Bioinformatics Lab
Supervisor: Prof Anita Grigoriadis, King’s College London
Oct 2022 – Mar 2023
Project – Role of plasma cells in triple-negative breast cancer (TNBC) metastasis
• Collaborated between UK Biobank, Francis Crick Institute & Lund University
• Retrieved and analysed clinical and pathological data of four TNBC study cohorts consisting of ~600 patients
• Derived mature B-cell subset signatures from human paired tumour & lymph node single-cell transcriptomic datasets
• Deconvoluted tumour-infiltrating immune cells in patient RNAseq data for multivariate survival analysis
• Performed tumour differential expression, pathway enrichment and copy number variation analyses
MRes Student
Cancer Research, Immunology and Haematology Lab
Supervisor: Dr Shahram Kordasti, King’s College London
Apr 2022 – Sep 2022
Project – Characterise Treg subset under hypoxia and inflammation in aplastic anaemia (AA)
• Performed GSEA and IPA analysis of AA single-cell data to pinpoint central transcription regulators in Treg, myeloid cells and HPSCs
• Set up hypoxic cell culture of CD4+ CD25+ Treg from PBMCs with Dr James Arnold
• Applied multi-panel flow cytometry to phenotype naïve and effector Treg subsets
MRes Student
Cancer Bioinformatics
Supervisor: Dr Anita Grigoriadis, King’s College London
Sep 2021 – Mar 2022
Project – Regulations of Treg and Tfh during lymph node metastasis of breast cancer
• Analysed Treg and Tfh from 250k tumour, stromal and immune cell 10X scRNA-seq data
• Deciphered ligand-receptor interactions between immune cells with LIANA, NicheNet and CellChat
• Data management and shell-scripting on HPC platforms across institutions (KCL, UCL, CoLCC)
BSc Student
Vascular Therapeutics
Supervisor: Dr Beata Wojciak-Stothard, Imperial College London
Sep 2020 – Mar 2021
Project – Role of KLF2 on endothelial dysfunction in pulmonary arterial hypertension
• Manipulated gene expression with shRNA and microfluidic flow simulation on human pulmonary arterial endothelial cells (HPAECs)
• Performed immunofluorescence, confocal imaging and luciferase reporter assay to study cell morphology, alignment, and pro-inflammatory response