Scientific goal of the project "Spatial network model of sequence diversity and structure of the human genome on a population scale" is to analyze the impact of structural variants (SVs, such as deletions, duplications, insertions, inversions, translocations, etc.) and single nucleotide polymorphisms (single molecule polymorphism, SNP) on the three-dimensional structure of the human genome.

Scientists want to understand how rewiring (i.e. changing the set of chromatin loops) of the genome in different cell types disrupts gene expression, and thus leads to the tumor formation process. Public and private datasets from the large-scale next generation sequencing (NGS) experiments will be used to implement the project, and computational methods developed by Principal Investigator (PI), such as statistical data analysis, machine learning and computer simulations.

The project will finish with the publicizing the web server and the source code of the proprietary 3D-OME algorithm predicting the three-dimensional structure of the mammalian genome based on DNA sequencing data, biopolymer theory and biophysical properties of chromatin.

The team want to show that modeling allows to describe the transformation of the local three- dimensional structure of chromatin, and the disruption of expression of genes in the genomic domain after a change in the DNA sequence (single nucleotide mutation, deletion, duplication, insertion, etc.).

Attention, PhD students - recruitment to the team of dr. hab. Dariusz Plewczyński from Bioinformatics and Computational Genomics Laboratory. More information here.