Metabolism and Regulation

Code:

BINF024

Sigla:

Áreas Científicas
Classificação	Área Científica
OFICIAL	Biotecnologia

Ocorrência: 2023/2024 - 2S

Ativa?	Yes
Página Web:	https://moodle.ips.pt/2324/course/view.php?id=505
Unidade Responsável:	Departamento de Engenharia Química e Biológica
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	25	Study Plan	2	-	5	67,5	135

Docência - Responsabilidades

Docente	Responsabilidade
Marta Sofia Guedes de Campos Justino

Docência - Horas

Theorethical and Practical :

3,00

Type	Docente	Turmas	Horas
Theorethical and Practical	Totais	1	3,00
Theorethical and Practical	Célia Maria Valente Romão		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.

Learning activities include two works delivered in groups, with oral presentation and regular exercises throughout the semester to train and monitor learning.

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 (%)
Teste	80,00
Trabalho escrito	15,00
Participação presencial	5,00
Total:	100,00

Componentes de Ocupação

Designation	Tempo (Horas)
Apresentação/discussão de um trabalho científico	0,50
Estudo autónomo	59,50
Frequência das aulas	52,50
Trabalho escrito	22,50
Total:	135,00

Obtenção de frequência

Not applicable.

Fórmula de cálculo da classificação final

Continuous Assessment Score

CF = 40% * Test 1 + 40% * Test 2 + 7,5% * Work 1 + 7,5% * Work 2 + 7% class participation

Exam Score (all seasons)

CF = 80% exam + 7,5% Work 1 + 7,5% Work 2 + 7% class participation
or
CF = 100% exam

Tests 1 and 2 and Works 1 and 2 are mandatory delivery elements.
The tests are carried out individually.
Both works are carried out in groups of up to 4 elements, with oral presentação.
Class participation includes the individual performance of regular exercises throughout the semester. The exercises are optional and the student will have 0 in the undelivered exercises.

Melhoria de classificação

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

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