Mateusz Chiliński

The paper integrates 4D Nucleome data to analyze 3D genome structure and function in human cells, revealing chromatin domains, loops, and interactions, and showing how genetic variants affect genome folding.

ConsensuSV-ONT combines six structural variant callers with a neural network to improve accuracy in Oxford Nanopore long-read structural variant calling.

The paper introduces HiCDiffusion, a diffusion model that improves Hi-C matrix prediction by integrating an encoder-decoder architecture, achieving higher resolution and better resemblance to experimental data.

The paper introduces an improved cohesin HiChIP protocol and analysis pipeline to enhance detection of chromatin loops and stripes.

The paper improves gene expression prediction models by incorporating protein-mediated spatial chromatin interactions, resulting in significant performance gains across multiple cell lines.

The paper models chromatin folding using explosive percolation theory and shows that 80% of loops are needed for 3D condensation across cell lines.