Degree | Type | Year | Semester |
---|---|---|---|
2500890 Genetics | OT | 4 | 1 |
You can check it through this link. To consult the language you will need to enter the CODE of the subject. Please note that this information is provisional until 30 November 2023.
The purpose of this course is to cover basic topics in bioinformatics through workshops and conferences conducted by experts in the field of bioinformatics. It is not an accumulative course but rather a cross-disciplinary one, aiming to provide students with a broad range of concepts and approaches within the field of bioinformatics.
The main objective is to equip students with the knowledge and skills necessary to apply bioinformatics in various areas of genomic research and, by extension, other omics fields. The content taught and the activities carried out during this course provide a global perspective on the potential of bioinformatics in both basic and applied research.
The subject will be composed of theoretical-practical sessions, lectures and workshops given by recognized specialists in the different subjects and fields.
Theoretical-practical sessions (~12h)
They will take place in the computer room. Students will work both individually and as a group (3-4 students) promoting active learning that will allow them to develop the capacity for analysis and synthesis, critical reasoning and the capacity to solve problems.
We are about to start a journey into real Bioinformatics. This series of four hands-on training activities will show you the basic workflows in bioinformatics: from the data management and processing with Linux, visualization, and posterior functional analyses. The practicals are divided into two big parts: Part I: Basics on Bioinformatics workflows and Part II: Solving real cases in genomics.
These practicals pretend also to gain other skills, very valuable in research but rarely experienced during the Degree, such as collaborating, learning how to transform the data into effective graphs to communicate and doing reproducible research.
Title |
Description and learning outcomes |
|
Introduction |
Subject presentation: organization, methodology, preparations, group creation, subject grading |
|
P1. Basics on Bioinformatics workflows |
Data management and processing |
Learning Linux for Bioinformatics – Learning to manage raw data with basic commands of bash, a powerful Linux language. |
Data exploration and visualization |
Data exploration and visualization – Learning how to represent biological data into knowledge graphs. We will use ggplot2, an R package. |
|
P2. Solving real cases in genomics |
Genome-Wide Association studies |
Which are the variants behind three common human diseases? We will perform a genome wide association study with R to detect SNPs associated with complex human diseases. |
Transcriptomic analyses |
Finding differential expressed genes in cancer. Perform a differential expression analyses using human cancer data. |
|
Mentoring* |
*Two extra sessions of two hours will be implemented to be set according to the needs of the students and the difficulty of the cases. |
Invited Conferences and Workshops (17 hours)
Attendance to the invited conferences (1 hour per conference) by invited experts in the field of bioinformatics is mandatory and requires in-person participation. The conferences will be conducted in English and will cover various topics related to the practical application of bioinformatics and genetics in different domains such as hospitals, private companies, and academic institutions. They will also address current and specific topics like cancer research. The exact dates of the conferences will be updated on the calendar and communicated through the communication tools available on the Moodle platform. The conferences will be virtual and may be recorded.
In-person learning activities and autonomous learning
A cooperative learning experience will be implemented, specifically the Puzzle methodology will be followed: data sets and procedures are provided in a distributed manner to small groups. Each group must manage and solve practical cases autonomously.
Each module will work in parallel on similar concepts through real practical cases, so that once finished the students will exchange information about the chosen methodology, its development and the results obtained, trying to achieve an effective cooperation among the students. The members of each group will know in depth the information they manage. Each group will make a lecture and/or writing of a portfolio through which the other groups understand the characteristics and foundations of each analysis. The four practical sessions will be linked, since the results or the methodology of one practical will be used for the next practical.
The active participation, the management of the work, as well as the discussion of the acquired knowledge will form a vital part in the role played by each student.
Conferences and workshops
A total of 5-6 conferences will be delivered by experts in their respective research or professional fields, offering a realistic perspective on bioinformatics as a key component in addressing both basic and applied biological research questions. Emphasis will be placed on the importance of data analysis in the current era of big data. Other conferences will cover practical aspects such as navigating through a Ph.D., science communication using real-life examples, and understanding the workings of the scientific world. Additionally, various career paths in bioinformatics within academic and private sectors will be explored.
This course does not have a single evaluation system for the 2023/2024 academic year.
*The proposed teaching methodology may experience some modifications depending on the restrictions to face-to-face activities enforced by health authorities.
Annotation: Within the schedule set by the centre or degree programme, 15 minutes of one class will be reserved for students to evaluate their lecturers and their courses or modules through questionnaires.
Title | Hours | ECTS | Learning Outcomes |
---|---|---|---|
Type: Directed | |||
Lectures | 10 | 0.4 | 4, 7, 6, 8 |
Theoretical-practical sessions | 12 | 0.48 | 4, 5, 7, 6, 8, 10, 3, 2, 14, 13, 15, 16 |
Workshops | 7 | 0.28 | 5, 6, 10, 3 |
Type: Supervised | |||
Portfolio | 20 | 0.8 | 4, 5, 7, 6, 8, 10, 3, 2, 14, 13, 15, 16 |
Type: Autonomous | |||
Study/Problem solving | 25 | 1 | 5, 8, 10, 13, 15, 16 |
The grading will be carried out through the delivery of four portfolios and a seminar about a bioinformatics topic chosen by the students.
Portfolio (70%). In each portfolio the basic fundamentals of the analyzed data will be exposed, the tools used, the development of the methodology, as well as a discussion on the final result of the delivery. Each portfolio will have the same weight in the final evaluation.
Seminar presentation (20%). Each group will make a 15-minute oral presentation.
Assistance and participation (10%).
The subject is passed when the average score of the assessment activities is equal to or greater than 5. The continuous and transversal nature of this evaluation means that the subject can not be evaluated if the minimum participation of the students is less than 80% of the students. proposed sessions.
This course does not have a single evaluation system for the 2023/2024 academic year.
Title | Weighting | Hours | ECTS | Learning Outcomes |
---|---|---|---|---|
Portfolio | 70% | 0 | 0 | 1, 12, 11, 4, 5, 7, 6, 9, 8, 10, 3, 2, 14, 13, 15, 16 |
Seminar lecture | 20% | 1 | 0.04 | 1, 12, 11, 4, 7, 6, 9, 10, 3, 13 |
Soft skills | 10% | 0 | 0 | 4, 5, 7, 6, 10, 3, 2, 14 |
Books
Articles
Links
All the software is installed on the computers at the faculty.