Projeto (Ciências Informáticas)

Code:

CC4048

Acronym:

CC4048

Keywords
Classification	Keyword
CNAEF	Informatics Sciences

Instance: 2022/2023 - 2S (edição n.º 1)

Active?	Yes
Responsible unit:	Department of Computer Science
Course/CS Responsible:	Bioinformatics and Computational Biology

Cycles of Study/Courses

Acronym	No. of Students	Study Plan	Curricular Years	Credits UCN	Credits ECTS	Contact hours	Total Time
E:BBC	0	PE_Bioinformatics and Computational Biology	1	-	6	14	162

Teaching language

Suitable for English-speaking students

Objectives

Bioinformatics is an interdisciplinary field that combines the fields of computer science, biology and biomedical science and statistics. Bioinformatics is devoted to the application and development of new computational methods for expanding the use of biological, biomedical or epidemiological data. Recent developments in high-throughput technologies have led to a real revolution in the biological and biomedical research with bioinformatics playing a central role in the analysis of massive amounts of data. 

The goal of this course is that the students are capable of developing an integrative project that involves the different areas of bioinformatics and computational biology through the application of the knowledge acquired during the frequency of the remaining courses from the Master in Bioinformatics and Computational Biology.

Learning outcomes and competences

By the end of this course the students should be able to acquire new and existing knowledge on bioinformatics and computational biology. They should to integrate the skills acquired during the Masters. By the end of the semester, the students should be able to communicate, present and defend their ideas and results.

Working method

Presencial

Pre-requirements (prior knowledge) and co-requirements (common knowledge)

Knowledge of the most commonly used programming languages for Bioinformatics (R, Python, Perl, among others).

Knowledge of the most widely used algorithms and methods in bioinformatics (BLAST, Dynamic Programming, Multiple Sequence Alignment,...)

Knowledge of the main databases and web portal for retrieving biological data (NCBI, Ensembl, UCSC Genome Browser, Uniprot, ...)

Program

• Regular meetings.


• Discussion of the strategy, projects and results.


• Presentation and discussion of a pre-report.


• Final presentation and report on the project.

Mandatory literature

Miguel Rocha and Pedro G. Ferreira; Bioinformatics Algorithms(1st Edition): Design and Implementation in Python., 9780128125205, 2018. ISBN: 9780128125205
Neil C. Jones and Pavel A. Pevzner; An Introduction to Bioinformatics Algorithms (Computational Molecular Biology) 1st Edition. ISBN: 0262101068
Sebastian Bassi; Python for Bioinformatics, CRC Press, 2016

Complementary Bibliography

R. Durbin, S. Eddy, A. Krogh, G. Mitchison; Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids, Cambridge University Press, 1998
Dan Gusfield; Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology, Cambridge University Press, 1997

Teaching methods and learning activities

Regular meetings.
Regular results presentation.
Final project presentation and defense.
Report writing.

Evaluation Type

Distributed evaluation without final exam

Assessment Components

designation	Weight (%)
Participação presencial	20,00
Defesa pública de dissertação, de relatório de projeto ou estágio, ou de tese	20,00
Trabalho prático ou de projeto	60,00
Total:	100,00

Amount of time allocated to each course unit

designation	Time (hours)
Apresentação/discussão de um trabalho científico	6,00
Elaboração de projeto	158,00
Total:	164,00

Eligibility for exams

The mandatory minimum requirements are:

• Presencial meetings with the tutor.


• Final presentation of the project.


• Final report delivery.

Calculation formula of final grade

A nota final será calculada usando as seguintes componentes de avaliação:
- PP: Presential Participation (Discussion and regular meetings);
- DP: Project Presentation and defense (Final presentation);
- TP: Project (quality of the project);

These three components will be weighted as follows:

Final grade = 0.2*PP + 0.2 * DP + 0.6*TP

Special assessment (TE, DA, ...)

Any special need must be communicated to the teacher in order to define an adequate plan.