The aim of the course is to provide notions of advanced biological technologies for the amplification and characterization of nucleic acids, and for the study of the genomes and transcriptomes, as well as notions concerning the investigation of chromatin, non-coding RNAs and for genome editing. Notions of bioinformatics for the genome analysis and the search of biological databases will also be acquired.

1.    Basics of bioinformatics 
1.1.    Primary and derivative database; genome browsers; gene ontology database
1.2.    Main tools for DNA/protein sequence analysis and for searching biological information in public databases (e.g. BLAST)
2.    Nucleic acid amplification 
2.1.    PCR-based techniques (asymmetric PCR)
2.2.    Non PCR-based techniques (LCR, NASBA, SDA, LAMP)
2.3.    Techniques for Whole Genome Amplification and Whole Transcriptome Amplification  
3.    Real-time PCR: principles and chemistries 
3.1.    Absolute quantification of nucleic acids:  applications and data analysis
3.2.    Probe-based methods for genotyping 
3.3.    Melting analysis and High Resolution Melt (HRM) analysis: : principles and examples of applications 
4.    Digital PCR e droplet digital PCR
4.1.    principles and applications for cfDNA analysis and prenatal diagnosis  
5.    DNA Microarrays 
5.1.    manufacturing principles
5.2.    planar microarrays and bead microarray
5.3.    applications in transcriptome analysis and in molecular diagnostics (SNP arrays, CGH arrays, arrays for the detection and characterization of microorganisms).
6.    Next-generation sequencing 
6.1.    Technologies based on pyrosequencing 
6.2.    Technologies based on reversible terminators 
6.3.    Technologies based on oligonucleotide ligation detection (SOLiD) 
6.4.    Technologies based on hydrogen ion detection (ion torrent)
6.5.    Third generation sequencing (PacBio sequencing)
7.    Metagenomics: applications for the analysis of microbial communities 
8.    Chip-on-chip and Chip-seq: methods and applications to study transcription factors and chromatin organization 
9.    RNA interference
9.1.    Techniques to study microRNAs 
9.2.    miRNA-mediated gene silencing
10.    Genome engineering through CRISPR/Cas-based methods 
11.    Protein arrays 
11.1.    function arrays
11.2.    detection arrays
11.3.    reverse phase arrays
 

Knowledge and ability of comprehension. The student must demonstrate the possession of a solid knowledge of basic molecular biology and knowledge of the fundamentals of molecular technologies covered during the course.

Ability to apply knowledge and comprehension The student must also show to be able to apply the acquired knowledge in a research and/or clinical diagnostics or environmental context.

Autonomy of judgement The student will be able to critically evaluate the most appropriate biological technology to gain useful information in different research or diagnostics contexts. 

Communication skills The student must be able to describe the biological technologies listed in the course program using adequate scientific language and referring to concrete examples.

Learning skill. The student will be able to build his own learning path, using learning materials fournished by the teacher or autonomously acquired.

The teaching material prepared by the lecturer in addition to recommended textbooks (such as for instance slides, lecture notes, exercises, bibliography) and communications from the lecturer specific to the course can be found inside the Moodle platform › blended.uniurb.it

Search for biological information in public databases. 

Teaching

Lectures

Attendance

None

Course books

• Molecular Diagnostics, 2nd Edition 2009 Patrinos, Ansorge. Elsevier academic press. 
• ppt files and scientific reviews published on international journals will be made available online (moodel platform)

Assessment

Oral examination. During the examination the student must demonstrate: that it has acquired full mastery of the concepts covered during the course; to be able to make logical connections between the techniques learned and their applications; to be able to illustrate the key concepts in a limited time and using appropriate scientific language.

Disability and Specific Learning Disorders (SLD)

Students who have registered their disability certification or SLD certification with the Inclusion and Right to Study Office can request to use conceptual maps (for keywords) during exams.

To this end, it is necessary to send the maps, two weeks before the exam date, to the course instructor, who will verify their compliance with the university guidelines and may request modifications.

Course books

• Molecular Diagnostics, 2nd Edition 2009 Patrinos, Ansorge. Elsevier academic press. 
• ppt files and scientific reviews published on international journals will be made available online (moodel platform)

Assessment

Oral examination. During the examination the student must demonstrate: that it has acquired full mastery of the concepts covered during the course; to be able to make logical connections between the techniques learned and their applications; to be able to illustrate the key concepts in a limited time and using appropriate scientific language.

Disability and Specific Learning Disorders (SLD)

Students who have registered their disability certification or SLD certification with the Inclusion and Right to Study Office can request to use conceptual maps (for keywords) during exams.

To this end, it is necessary to send the maps, two weeks before the exam date, to the course instructor, who will verify their compliance with the university guidelines and may request modifications.

Optional laboratory practice to be carried out in the laboratories of the biotechnology section (Fano).

The laboratory practice will cover qPCR and HRM analysis.