Author: David Blumenthal

In our paper "Guiding questions to avoid data leakage in biological machine learning applications", we present 7 questions that should be asked to prevent data leakage when constructing machine learning models in biological domains.

In our paper "ZEB1-mediated fibroblast polarization controls inflammation and sensitivity to immunotherapy in colorectal cancer", we investigate how the transcription factor ZEB1 promotes plasticity of cancer-associated fibroblasts that can shield tumours from the immune system. Great collaboration ...

Web tool for interactive exploration of putative epistatic interactions in eight complex diseases (late-onset Alzheimer's disease, bipolar disorder, coronary artery disease, hypertension, type-1 diabetes, type-2 diabetes, rheumatoid arthritis, inflammatory bowel disease).

Command line tool for network-based epistasis detection in complex diseases.

Funded projects: High-resolution protein-protein interaction networks for biomedical research

On July 1, Nicolai Meyerhöfer started as a doctoral researcher in the BIONETS lab. He will work on graph neural network models for prediction of tissue-specific protein-protein interactions.

In our joint retreat with the DaiSyBio group (TUM) in Peschiera del Garda, we had inspiring talks and discussions on hot topics and off topics in computational systems biology, ran two hackathons, and engaged in a series of team building events.

In our paper "Efficiently Labeling and Retrieving Temporal Anomalies in Relational Databases", we show how to flag and retrieve temporal inconsistencies in healthcare information systems.

In our paper "Drugst.One — a plug-and-play solution for online systems medicine and network-based drug repurposing", we present a versatile plugin to turn any tool that outputs a list of genes or proteins into a feature rich, drug repurposing web tool with interactive network visualization.

Plugin to turn your tool that outputs a list of genes or proteins into a feature rich, drug repurposing web tool with interactive network visualization.