Studying at the University of Verona

Here you can find information on the organisational aspects of the Programme, lecture timetables, learning activities and useful contact details for your time at the University, from enrolment to graduation.

Study Plan

Queste informazioni sono destinate esclusivamente agli studenti e alle studentesse già iscritti a questo corso.
Se sei un nuovo studente interessato all'immatricolazione, trovi le informazioni sul percorso di studi alla pagina del corso:

Laurea magistrale in Molecular and Medical Biotechnology - Immatricolazione dal 2025/2026.

The Study Plan includes all modules, teaching and learning activities that each student will need to undertake during their time at the University.
Please select your Study Plan based on your enrollment year.

1° Year

ModulesCreditsTAFSSD
One course to be chosen among the following
One course to be chosen among the following

2° Year  activated in the A.Y. 2017/2018

ModulesCreditsTAFSSD
Prova finale
40
E
-
ModulesCreditsTAFSSD
One course to be chosen among the following
One course to be chosen among the following
activated in the A.Y. 2017/2018
ModulesCreditsTAFSSD
Prova finale
40
E
-

Legend | Type of training activity (TTA)

TAF (Type of Educational Activity) All courses and activities are classified into different types of educational activities, indicated by a letter.




S Placements in companies, public or private institutions and professional associations

Teaching code

4S003667

Coordinator

Nicola Vitulo

Credits

6

Language

English en

Scientific Disciplinary Sector (SSD)

BIO/18 - GENETICS

Period

II sem. dal Mar 1, 2017 al Jun 9, 2017.

Learning outcomes

The advent of the new sequencing technology (Next Generation Sequencing, NGS) had a great impact on the ability to study genome complexity at genomic, transcriptomic and epigenetic level and provided interesting opportunities for the development of bioinfomatic resources for data analyses and management.
The course will provide a general overview of the main computational methods based in NGS data that can be applied in genomic studies (mainly focused on the human genome) as for example , sequence alignment, genome sequencing, genome resequencing for the identification of variants, transcriptomic analysis for the identification of differentially expressed genes.

At the end of the course the student should be able to:
Know the main data file formats
Know the different algorithm used in genomic studies and their applications
Setting up a pipeline for data managing and analysis

Program

1. Introduction to Next Generation Sequencing (NGS) data
• Biases and sequencing errors of Illumina technology
• FastQ file format
• Quality reads assessment (FastQC software)
• Reads preprocessing

2. Overview of bioinformatics methods for genome assembly
• Overlap-layout-consensus
• Debrujin graph
• Genome assembly assessment

3. Sequence alignment of NGS data
• Dynamic programming
• Heuristic methods
• SAM/BAM format

4. Resequencing and variant calling
• Identification of germline variants
• Identification of somatic variants
• Bioinformatics methods for the identification of structural variations (Insertion and Deletion, Translocation,Copy number variation)
• Variant Calling File (VCF) format and Genomic VCF format

5. Computational tools for prioritizing candidate genes

6. Analyse epigenetic data using bioinformatics tools

7. Transcriptomic analysis and RNA-seq
• RNA-seq genome alignment (TopHat, STAR)
• Transcripts reconstruction
• Gene quantification
• Data normalization
• Identification of differentially expressed genes
• Gene enrichment and gene set analysis

Bioinformatics laboratory
• Introduction to bash and linux operative system
• Usage of FastQC software for sequence quality assessment
• Setting up of a pre-processing sequence pipeline
• Sequence alignment with bowtie2
• BAM/SAM file manipulation

Examination Methods

Written with six open questions regarding the arguments of the course.

Students with disabilities or specific learning disorders (SLD), who intend to request the adaptation of the exam, must follow the instructions given HERE