cv

Basics

Name Ruhi Soni
Email r.soni@student.vu.nl
Summary Bioinformatician-in-training with a background in molecular biology and a soft spot for scientific storytelling.

Work

  • 2024.09 - 2025.07

    Netherlands

    Bioinformatics Intern
    Cyclomics
    Investigating features of cell-free DNA (end motifs, fragment length, copy number alterations) as biomarkers in estimating tumor fraction
    • Python
    • sklearn
    • non-negative matrix factorization (NMF)
    • long-read sequencing analysis
    • Oxford Nanopore Technologies
    • cfDNA and ctDNA
    • liquid biopsies
    • Git
    • CLI
  • 2024.09 - 2025.02

    Netherlands

    Teaching Assistant
    VU Amsterdam
    Assisted students in understand core bioinformatics courses: Fundamentals of Bioinformatics, Algorithms in Sequence Analysis, Principles of Bioinformatics (minor)
    • SNP impact prediction
    • ROC-AUCs
    • ClinVar
    • Hidden Markov Models
    • Expectation-Maximization
    • dynamic programming
    • Burrows-Wheeler Alignment
  • 2021.05 - 2023.02

    India

    Business Journalist, North American Natural Resources
    Reuters
    Reported breaking news stories and trends in the U.S. and Canadian public companies
    • digital journalism
    • interviewing techniques
    • good standard practices in writing, editing and publishing
    • Refinitiv Eikon
    • Datawrapper
  • 2020.10 - 2020.12

    India (remote)

    Bioinformatics Student Intern
    Genomiki Solutions
    Variant calling analysis of COVID-19 genomes from five countries as part of BSc capstone project
    • NCBI SRA
    • BWA
    • samtools
    • bcftools
    • SnpEff
    • VEP
  • 2020.01 - 2019.09

    India

    Intern Journalist, U.S. Health and Pharmaceuticals
    Reuters
    Reported on the U.S. pharmaceutical and biotech industry, FDA regulatory decisions, clinical trials, and public health developments
    • digital journalism
    • written communication
    • interviewing techniques
    • good standard practices in editing and publishing
  • 2018.07 - 2018.08

    United Kingdom

    Summer School Research Student
    Imperial College London
    Comparison of methods to improve CD3+/CD20+ co-expression in T-cells in vaccine production
    • immunology
    • flow cytometry
    • ELISA
    • biostatistical analysis

Education

  • 2023.09 - 2025.08

    Netherlands

    MSc Bioinformatics and Systems Biology
    Vrije Universiteit Amsterdam & University of Amsterdam (VU & UvA)
    • Algorithms in Sequence Analysis
    • Biosystems Data Analysis
    • Scientific Machine Learning
    • Structural Bioinformatics
    • Computational Biology
    • Statistics with R
    • Bioinformatics for Translational Medicine
    • Quantitative Single-cell Biology
  • 2016.09 - 2021.01

    Hong Kong S.A.R.

    BSc Molecular Biology and Biotechnology
    University of Hong Kong (HKU)
    • Biostatistics
    • Principles of Biochemistry
    • Healthcare Biotechnology
    • Microbial Biology and Biotechnology
    • Plant and Food Biotechnology
    • Cell Biology and Technology
    • 'Omics Technologies and Resources
    • Genetics
    • Immunology

Volunteer

  • 2025.05 - 2025.05

    Netherlands

    Volunteer (various roles)
    BioSB Conference 2025
    Handled logistics, registration, audio-visual support, and venue set-up during the three-day scientific conference

Awards

Certificates

Genomic Data Science (6-part specialization)
Johns Hopkins University 2023-05-02
Python for Everybody (5-part specialization)
University of Michigan 2021-03-12

Publications

Skills

Programming & Scripting
Python
R
Bash
Unix/Linux CLI
Data Analysis & Visualization
pandas
NumPy
matplotlib
ggplot2
scikit-learn
Bioinformatics Tools
fastp
Trimmomatic
BWA
minimap2
samtools
bcftools
SnpEff
Snakemake
Nextflow
Reproducibility & Version Control
Git
GitHub
Jupyter
Quarto
LaTeX
Conda
Docker
SSH
Productivity & Collaboration
Microsoft Office
Google Workspace
Slack
Discord

Languages

English
Native
Hindi
Native
French
Intermediate
Dutch
Beginner
Urdu
Fluent
Punjabi
Intermediate