Katarzyna Wreczycka

B.Sc. & M.Sc. in Bioinformatics @MIMUW
Ph.D. in Computational Biology @MDC-BIMSB

Zurich- and Gothenburg-based machine learning scientist and bioinformatician with 10+ years of experience in data analysis and disease (epi)genomics.

Here’s a glimpse of my portfolio.

Data science & omics

Statistical analysis

I employed a wide range of statistical techniques to extract meaningful insights from complex datasets, including:

Survival Analysis: Kaplan-Meier estimator, Cox proportional hazards model
Regression Analysis: Linear regression and other predictive models
Classification Methods: Logistic regression, elastic net, random forests, SVMs, and positive-unlabeled learning
Unsupervised Methods: Hierarchical clustering, PCA, MOFA, and autoencoders

Omics data analysis

My work focuses on analyzing large-scale sequencing data with statistical methods and software tools to uncover patterns across various omics datasets. This helps generate new hypotheses and uncover insights into biological systems.

In my projects, I integrated multi-omics data from a variety of sources, including:

Gene expression data (RNA-seq, scRNA-seq)
DNA methylation profiles (Bisulfite-seq, RRBS, methylation arrays)
Open chromatin regions (ATAC-seq)
Transcription factor binding sites (ChIP-seq)
Data from specialized protocols and methods, such as DRIP-seq and RDIP-seq, for detecting DNA-RNA hybrids
Information on therapies, drugs, and biomarkers from internal and external clinical trial databases

Experience

ETH Zürich & Functional Genomics Center Zürich
Bioinformatician | Scientific Assistant II
April 2025 – June 2025

Consultancy for Pharmaceutical Companies, Start-ups, and Consulting Firms
Freelance in Bioinformatics and Data Science
February 2023 – March 2025

Bioinformatics and Omics Data Science Platform at MDC-BIMSB
PhD Student
September 2015 – November 2021

Institute of Computer Science, Polish Academy of Sciences & MDC BIMSB
Visiting Predoctoral Researcher
March 2015 - August 2015

Selected publications

Peer-reviewed articles :

Strategies for analyzing bisulfite sequencing data. Journal of Biotechnology, 261, 105-115, 2017
PiGx: reproducible genomics analysis pipelines with GNU Guix. GigaScience, 7(12), giy123, 2018
HOT or not: Examining the basis of high-occupancy target regions. Nucleic Acids Research, 47(11), 5735–5745, 2019
Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation. NAR Genomics and Bioinformatics, 5(2), lqad061, 2023

Freelance

I have been freelancing as a bioinformatician and data scientist since 2023. Some of my high profile clients include:

To have a chat, feel free to get in touch via e-mail at katwre [at] gmail.com.