Our research focus

Our group aims at addressing the following questions:

1. Determine the role of epigenetic remodeling in oncogenic transformation
2. Investigate the consequences of somatic genomic alterations on the epigenetic landscape in cancer
3. Adjust methodology for studying genetic and epigenetic changes in cancer.

Methods and techniques we develop for the analysis of cancer genomes and epigenomes can be applied to most of the cancer types. Currently, we are interested in understanding the oncogenic processes related to several cancer types: mesothelioma, neuroblastoma, adrenocortical carcinoma, melanoma, MDS and CMML. But we are open to collaborations with research groups studying other types of cancer.

Our methodological research is centered on data integration and the development of high throughput data analysis methods, including machine learning, to study regulation in cancer with a special focus on epigenetic regulation. Methods we are specialists in include:

• ChIP-seq data analysis: transcription factors, histone modifications in normal and cancer cells
• Analysis of whole genome / whole exome / target sequencing data: detection of copy number alterations and structural variants
• Analysis of cancer RNA-seq: detection of abnormal transcripts expressed in cancer cells

Check the whole list of the developed software.

We offer several internship projects to bachelor and masters students. Please check this page for more information!