Metabolism and Regulation

Code:

BINF024

Sigla:

Áreas Científicas
Classificação	Área Científica
OFICIAL	Biotecnologia

Ocorrência: 2019/2020 - 2S

Ativa?	Yes
Unidade Responsável:	Biotecnologia
Curso/CE Responsável:	Undergraduate in Bioinformatics

Ciclos de Estudo/Cursos

Sigla	Nº de Estudantes	Plano de Estudos	Anos Curriculares	Créditos UCN	Créditos ECTS	Horas de Contacto	Horas Totais
BINF	15	Study Plan	2	-	5	67,5	135

Docência - Responsabilidades

Docente	Responsabilidade
Sónia Alexandra Paiva dos Santos

Docência - Horas

Theorethical and Practical :

3,00

Type	Docente	Turmas	Horas
Theorethical and Practical	Totais	1	3,00
Theorethical and Practical	Rafael Sousa Costa		3,00

Língua de trabalho

Portuguese

Objetivos

The students will be able to recognize and understand that the various cellular processes are organized and use recurring motifs, and that metabolism has evolved various processes in order to maintain homeostasis. Building on the Bioquímica UC, metabolic pathways will be studied and an introduction to their mathematical description is included. An introduction to drug action and metabolism is also included in order to show that drugs can be looked at as metabolic modulators. Identification of the organizing motifs allows students to develop an analysis of metabolism that can be easily transferred between systems; this is strengthened by the mathematical analysis of metabolism, that builds on the previous Mathematics UCs.

Resultados de aprendizagem e competências

Modo de trabalho

Presencial

Programa

1. Metabolism, the metabolic map and recurring motifs.

2. Fundamental pathways of the cell – the example of glycolysis and its associated and parallel pathways.

3. Regulation as a tool to maintain homeostasis.

4. Fundamental mechanisms of regulation –enzyme activity; gene expression.

5. Recurring motifs in regulation – feed-back and feed-forward; enzyme covalent modification; channeling; futile cycles; switches; signaling; cascading.

6. Metabolic networks – mass action and power laws; mass balance; steady state.

7. Xenobiotic metabolism – biotransformation of xenobiotics; introduction to pharmacokinetics – LADME scheme vs. normal intracellular processes; non-compartmental and compartmental models; conserved mechanisms of drug action –targets and mode of action. Drugs as metabolic regulators.

8. Metabolic Control Analysis – Flux and response coefficients; sensitivity and elasticity.

9. Intracellular vs. Extracellular communication – first and second messengers; receptors.

Bibliografia Obrigatória

Fell, D.; Understanding the Control of Metabolism (Frontiers in Metabolism). ISBN: 978-1- 855-78047-7
Heinrich, R., Schuster, S.,; The Regulation of Cellular Systems. ISBN: 978-0-412-03261-5
Nelson, D.L., Cox, M.M.; Lehninger Principles of Biochemistry. ISBN: 978-1-429-23414-6
Salway, J. G; Metabolism at a Glance. ISBN: 978-1-405-10716-7
Rosenbaum, S.E.; Basic Pharmacokinetics and Pharmacodynamics: An Integrated Textbook and Computer Simulations, Wiley. ISBN: 978-0-470-56906-1
Hardie, D.G.; Biochemical Messengers: Hormones, Neurotransmitters and Growth Factors, Springer. ISBN: 978-9-401-05376-1

Métodos de ensino e atividades de aprendizagem

Topics will be presented in lectures and exercise classes are organized so that students can, when appropriate, practice introductory exercises approaching metabolic network topics.

In the academic year 19/20, due to the COVID 19 pandemic, classes were held remotely, via ZOOM. The slides, support texts, case studies, explanatory videos and worksheets were made available on a weekly basis. Contact by videoconference were used during class time or in a period of clarification of doubts and use of the forum in Moodle.

Software

ESCHER - web-based tool for building, viewing, and sharing visualizations of biological pathway
MetaCyc: curated database that contains metabolic pathways, enzymes, metabolites, and reactions from all domains of lif
BRENDA - The Comprehensive Enzyme Information System.
KEGG: database resource for understanding high-level functions and utilities of the biological system
eQuilibrator - web interface designed to enable easy thermodynamic analysis of biochemical systems

Palavras Chave

Technological sciences > Technology > Biotecnology
Natural sciences > Biological sciences > Biology > Computational biology

Tipo de avaliação

Distributed evaluation with final exam

Componentes de Avaliação

Designation	Peso (%)
Apresentação/discussão de um trabalho científico	20,00
Teste	60,00
Trabalho escrito	20,00
Total:	100,00

Componentes de Ocupação

Designation	Tempo (Horas)
Apresentação/discussão de um trabalho científico	3,00
Estudo autónomo	59,50
Frequência das aulas	52,50
Trabalho de investigação	12,00
Trabalho escrito	8,00
Total:	135,00

Obtenção de frequência

Not applicable.

Fórmula de cálculo da classificação final

Continuous Assessment Score = (Average of the Tests * 0.6) + (Work 1 * 0.2) + (Work 1 * 0.2)
- Test 1 - performed individually (by videoconference), minimum score of 5 values - 30%
- Test 2 - performed individually (by videoconference), minimum score of 5 points - 30%
- Work 1 (group seminar) - 20%
- Work 2 (Group poster) - 20%

Exam Score (all seasons) = 60% exam + 20% assignment 1 + 20% assignment 2 or 100% exam

Melhoria de classificação

It is possible to improve the classification following what is stipulated in the Academic Activities Regulation

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