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.

Type D and Type F activities

This information is intended exclusively for students already enrolled in this course.
If you are a new student interested in enrolling, you can find information about the course of study on the course page:

Laurea magistrale in Molecular and Medical Biotechnology - Enrollment from 2025/2026

Type D learning activities are the student's choice, type F activities are additional knowledge useful for job placement (internships, transversal skills, project works, etc.). According to the Teaching Regulations of the Course, some activities can be chosen and entered independently in the booklet, others must be approved by a special committee to verify their consistency with the study plan. Type D or F learning activities can be covered by the following activities.

1. Modules taught at the University of Verona

Include the modules listed below and/or in the Course Catalogue (which can also be filtered by language of delivery via Advanced Search).

Booklet entry mode: if the teaching is included among those listed below, the student can enter it independently during the period in which the curriculum is open; otherwise, the student must make a request to the Secretariat, sending the form to carriere.scienze@ateneo.univr.it during the period indicated.

2. CLA certificate or language equivalency

In addition to those required by the curriculum/study plan, the following are recognized for those matriculated from A.Y. 2021/2022:

  • English language: 3 CFUs are recognized for each level of proficiency above that required by the course of study (if not already recognized in the previous course of study).
  • Other languages and Italian for foreigners: 3 CFUs are recognized for each proficiency level starting from A2 (if not already recognized in the previous study cycle).

These CFUs will be recognized, up to a maximum of 6 CFUs in total, of type F if the study plan allows it, or of type D. Additional elective credits for language knowledge may be recognized only if consistent with the student's educational project and if adequately justified.

Those enrolled until A.Y. 2020/2021 should consult the information found here.

Method of inclusion in the booklet: request the certificate or equivalency from CLA and send it to the Student Secretariat - Careers for the inclusion of the exam in the career, by email: carriere.scienze@ateneo.univr.it

3. Transversal skills

Discover the training paths promoted by the University's TALC - Teaching and learning center intended for students regularly enrolled in the academic year of course delivery https://talc.univr.it/it/competenze-trasversali

Mode of inclusion in the booklet: the teaching is not expected to be included in the curriculum. Only upon obtaining the Open Badge will the booklet CFUs be automatically validated. The registration of CFUs in career is not instantaneous, but there will be some technical time to wait.  

4. CONTAMINATION LAB 

The Contamination Lab Verona (CLab Verona) is an experiential course with modules on innovation and enterprise culture that offers the opportunity to work in teams with students from all areas to solve challenges set by companies and organisations.  

Upon completion of a CLab, students will be entitled to receive 6 CFU (D- or F-type credits).  

Find out more:  https://www.univr.it/clabverona 

PLEASE NOTE: In order to be admitted to any teaching activities, including those of your choice, you must be enrolled in the academic year in which the activities in question are offered. Students who are about to graduate in the December and April sessions are therefore advised NOT to undertake extracurricular activities in the new academic year in which they are not enrolled, as these graduation sessions are valid for students enrolled in the previous academic year. Therefore, students who undertake an activity in an academic year in which they are not enrolled will not be granted CFU credits.  

5. Internship/internship period

In addition to the CFUs stipulated in the curriculum/study plan (check carefully what is indicated on the Teaching Regulations): here information on how to activate the internship. 

Check in the regulations which activities can be Type D and which can be Type F.

Modules and other activities that can be entered independently in the booklet

Academic year:
Semester 2 From 3/4/24 To 6/14/24
years Modules TAF Teacher
Python programming language D Carlo Combi (Coordinator)

Teaching code

4S003667

Coordinator

Nicola Vitulo

Credits

6

Language

English en

Scientific Disciplinary Sector (SSD)

BIO/18 - GENETICS

Period

Semester 2 dal Mar 4, 2024 al Jun 14, 2024.

Courses Single

Authorized

Learning objectives

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

Prerequisites and basic notions

No specific prerequisites are required. Basic knowledge of bioinformatics (eg sequence alignment) may be useful but not essential to better understand the program.

Program

1. Introduction to Next Generation Sequencing (NGS) data
a. Illumination bias and sequencing errors
b. FastQ format
c. Checking the quality of the sequences d. Sequence preprocessing
2. Overview of genome assembly methods
a. Overlap-layout-consensus
b. Debrujin graph
c. Assembly quality verification
3. Alignment of NGS data on a reference genome
a. Dynamic programming
b. Heuristic methods
c. SAM / BAM format
4. Re-sequencing and calling variants
a. Identification of germline variants
b. Identification of somatic variants
c. Bioinformatics methods for the identification of structural variants d. VCF and gVCF file format
5. Computational methods for the prioritization of candidate genes
6. Analysis of transcriptomics and RNA-seq data
a. Alignment of RNA-seq sequences
b. Reconstruction of transcripts (genome-guided / denovo)
c. Gene quantification
d. Data normalization
e. Identification of differentially expressed genes
f. Enrichment analysis

Laboratory

Some lessons will be devoted to exercises carried out with the computer. In particular, the following topics will be addressed:
- Use of the main bash commands
- Execution of some programs studied in class
- Development of simple pipelines for data analysis

Didactic methods

The teaching methods adopted in the course are:
- Frontal lessons
- Computer laboratory exercises
- Reading and presentation of scientific articles

Learning assessment procedures

The exam consists of a written verification of the level of knowledge regarding the argument of the course. The exam consist of six open questions. The student need to demonstrate the understanding of the method and application of the major bioinformatic programs and approaches learned during 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

Evaluation criteria

The level of understanding of the topics and the language properties will be evaluated

Criteria for the composition of the final grade

Each question will be assigned a score of 10, the final grade will be scaled to 30.
The presentation of scientific articles is not compulsory, students who intend to submit a scientific article can have a bonus of up to two points to be added to the grade of the exam

Exam language

Inglese/Italiano