- Docente: Giulia Babbi
- Credits: 6
- SSD: BIO/10
- Language: English
- Moduli: Giulia Babbi (Modulo 1) Giulia Babbi (Modulo 2)
- Teaching Mode: Blended Learning (Modulo 1) Blended Learning (Modulo 2)
- Campus: Bologna
- Corso: First cycle degree programme (L) in Genomics (cod. 9211)
-
from Oct 18, 2023 to Dec 13, 2023
-
from Nov 30, 2023 to Dec 14, 2023
Learning outcomes
By the end of the course, the student has the basic knowledge of the experimental techniques for analyzing at large proteins expressed in a biological systems and their interactions. The student is familiar with the publicly available databases collecting proteomics and interactomics data and knows how to represent and analyze the structural complexity of interactions with the Network theory.
Course contents
Theoretical Session (4 CFU):
- Principles of protein structure properties
- Lab-techniques for proteomics
- Reference databases for proteins
- Protein complexes and interactions
- Types of macromolecular interactions
- Lab-techniques for interactomics
- Reference databases for interactors
- Functional enrichment
- Information retrieval in web-available databases
- Graph theory
- Properties of biological networks
Practical Part (2 CFU):
- Files and formats for handling proteins and networks
- Analysis and visualization of protein structure and protein-protein complexes
- Analysis and visualization of biological networks
- Tools for proteomics and interactomics
Readings/Bibliography
Slides, selected articles and reviews will be made available in online
Teaching methods
Lectures, laboratory activities, and script implementation, with 16 hours of activities in blended mode.
Teaching innovation methodology:
- flipped classroom: some of the resources for the study of proteins will be tested individually, and then shared in the classroom, emphasizing their differences and similarities. This will allow students to touch more closely the wide range of proteomics resources available online, testing themselves as users to measure their skills and then analyse and reinforce their most fragile points with the help of the teacher.
- journal club: students will be invited to read a selection of the latest publications in the field, first analyzing them independently, each following their own understanding times, and then discussing together, enriched by the work and voice of colleagues
- report: development of a personal paper which encourages the student to experiment what they have learned with curiosity and creativity, encouraging the development of transversal skills such as team-building and problem-solving.
Assessment methods
For the final oral exam, the student is expected to answer questions relating to the topics addressed in both modules (practical and theoretical).
At the end of the practical lectures and before attending the final oral exam, the student has to provide the written report on the practical project.
In order to enhance and recognize the student's participatory commitment, there will be moments of intermediate self-assessment in the form of questionnaires (also using digital resources), while the positive outcome of the report will be considered in the final evaluation of the exam.
Teaching tools
Online, Public Data Bases, PubMed, and materials (pdf of the lectures and selected articles) on Virtuale/MS teams.
During practical sections, students are encouraged to use their personal laptop and install directly some spread and free tools for proteomics/interactomics (ChimeraX, Cytoscape, LigPlus) and to refresh and reinforce their notion of programming (Bash, R, Python).
Before starting the practical part, students should follow Modules 1 and 2 of the online Security Course for Informatic Laboratory: https://elearning-sicurezza.unibo.it/
Office hours
See the website of Giulia Babbi