Center for Systems Biology Dresden

In vitro binding energies capture Klf4 occupancy across the human genome

Transcription factors (TFs) regulate gene expression by binding to specific genomic loci determined by DNA sequence. Their sequence specificity is commonly summarized by a consensus binding motif. However, eukaryotic genomes contain billions of low-affinity DNA sequences to which...

Combining MAVEs and computational predictors improves variant classification across ancestries in hereditary cancer genes

Many commonly used computational tools for variant effect prediction exhibit ancestry-related bias because they are trained on clinical or population datasets that under-represent global diversity, leading to uneven and sometimes unfair variant classification across ancestries. M...

Mastodon: the command center for large-scale lineage-tracing microscopy datasets

Understanding development in living organisms requires following the divisions, movements, and fates of cells. While advances in microscopy have enabled whole-embryo imaging at the cellular level, extracting and analyzing cell lineages from these massive datasets remains a signif...

Curriculum for Bioimaging Data Stewardship: A Systematic Review of Existing Training Resources

Abstract The increasing complexity and volume of biological imaging data require structured and sustainable research data management to ensure reproducibility, reusability, and compliance with FAIR (Findable, Accessible, Interoperable, and Reusable) principles. In this context, D...

A topological approach to the Cahn–Hilliard equation and hyperuniform fields

Hyperuniform structures are disordered, correlated systems in which density fluctuations are suppressed at large scales. Such a property generalizes the concept of order in patterns and is relevant across diverse physical systems. We present a numerical characterization of hyperu...

A pancreatic cancer organoid-macrophage co-culture using starPEG-heparin hydrogel deciphers tumor-immune cell interactions

Abstract Macrophages are among the most abundant immune cells in the pancreatic ductal adenocarcinoma (PDAC) tumor microenvironment (TME) and play a key role in regulating the immunosuppressive niche that facilitates tumor growth. Although recent three-dimensional (3D) culture sy...