This course provides an introduction to genomic computing, i.e. the application of computer engineering and mathematics to genomics, with an emphasis on concrete technologies and hands-on practice. It is intended for first-year PhD students who will focus their research on bioinformatics, but it can be followed by PhD students and researchers of DEIB, MAT and other departments who wish to broaden their culture.
The course will start by familiarizing students on the foundational molecular biology concepts (encoding of information in the DNA sequences and its functional use at the genomic, epigenomic, transcriptomic and proteomic levels), as well as on the DNA/RNA sequencing techniques (including the novel Next Generation Sequencing – NGS). Then, current sequencing data standards and tools for their (pre)processing and visualization will be presented, with emphasis on info-math issues related to their management and analysis.
MISSION AND GOALS
An introduction to Genomic Computing, i.e. the application of computer science and mathematics to genomics. Intended for first-year PhD students who will focus their research on biological problems, as well as for students who wish to broaden their culture.
SUBJECT OF THE COURSE
- Foundations of biology, with emphasis on defining info-math problems
- DNA Next Generation Sequencing (NGS) and tools for DNA and NGS data visualization and browsing
- Current bioinformatics data management technology and standards
- NGS data processing and analysis
Required and suggested readings will be distributed to students ahead of time
(in alphabetic order)
- Marco Masseroli, Ph.D.
Dipartimento di Elettronica, Informazione e Bioingegneria - Politecnico di Milano (http://www.bioinformatics.polimi.it/masseroli/)
- Heiko Muller, Ph.D.
Istituto Italiano di Tecnologia - SEMM, Milano (http://www.iit.it/it/persone/heiko-muller.html)
- Fernando Palluzzi
Dipartimento di Elettronica, Informazione e Bioingegneria - Politecnico di Milano (http://dottoratoit.deib.polimi.it/?id=5004&idd=373)
- Mattia Pelizzola, Ph.D.
Istituto Italiano di Tecnologia - SEMM, Milano (http://www.iit.it/it/persone/mattia-pelizzola.html)
- Laura Riva, Ph.D.
Istituto Italiano di Tecnologia - SEMM, Milano (http://www.iit.it/en/people/laura-riva.html)