Bioinformatics and Genomic Data analysis

The Bioinformatics unit of the Italian Institute of Genomic Medicine address a wide range of biological issues arising from genomic, transcriptomic and epigenetic experiments. Nowadays, next generation sequencing (NGS) studies are delivering an extraordinary amount of information at an unprecedented speed in the history of biology and medicine. Disentangling the complexity proper of these genomic Big Data to identify key-regulatory biological processes remains challenging. At IIGM, we apply state-of-the-art bioinformatics, statistical and mathematical approaches to extract the proper description, interpretation and understanding of biological processes from genomic Big Data. Our goal is to develop new tools and paradigms for comparing large sets of genomic data and identifying previously hidden patterns associated with a disease, with particular focus on onco-genomics. In doing so, we perform analysis aim at integrating publicly available and in-house generated NGS data set to improve the quality of our results. The unit has extensive expertise in mathematics, statistics, scientific programming, database technology, experimental design, genomics and molecular biology. Our computational tools and softwares are designed to be highly parallelizable and to fully exploit the most modern high performance computing (HPC) infrastructures.


We analyse any type of NGS data, such as:
• DNA sequencing: Whole Exome, Whole Genome, Targeted sequencing to identify genomic variants;
• RNA sequencing to determine transcript abundance and detect alternative spliced variants;
• ChIP sequencing to identify active transcription factor binding sites or to map specific modifications of histone
proteins;
• iCLIP sequencing to characterise the regulatory mode of RNA binding proteins;
• Bisulphite sequencing to profile DNA methylation;
• Single Cell Sequencing to understand the transcriptome at single cell level.


Our skills also include:
• data visualisation
• web development
• computer programming expertise in R, Python, C++, Java, Perl, PHP and Bash
• storing of big data.


Contats:
Eng. Matteo Cereda (matteo.cereda@iigm.it)
Eng. Marco Del Giudice (marco.delgiudice@iigm.it)