Genome, Transcriptome, and Proteome in Silico Analysis

Code:

B4002

Acronym:

B4002

Keywords
Classification	Keyword
OFICIAL	Biology

Instance: 2021/2022 - 2S

Active?	Yes
Responsible unit:	Department of Biology
Course/CS Responsible:	Master in Cell and Molecular Biology

Cycles of Study/Courses

Acronym	No. of Students	Study Plan	Curricular Years	Credits UCN	Credits ECTS	Contact hours	Total Time
E:BBC	4	PE_Bioinformatics and Computational Biology	1	-	6	42	162
M:BBC	4	The study plan since 2018	1	-	6	42	162
M:BCM	23	Official Study Plan until 2023/2024	1	-	6	42	162

Teaching language

Suitable for English-speaking students

Objectives

Introduction and training in bioinformatics tools focusing on the user's standpoint. Case-studies in the context of ongoing research projects.

Learning outcomes and competences

Using diverse bioinformatics applications and resources in the context of specific problems. Training in data-mining, retriving of significant data from specific databases, integrating diverse bioinformatic tools in response to specific problems.

Working method

Presencial

Program

Introduction to in silico analyses of genomes. General considerations about bioinformatics applications user-friendly.

From basic in silico resources to more advanced bioinformatics applications.  Data-mining, Blast on NCBI, Multiple sequence alingment (Clustal on EBI), ORF finding, DNA sequences analysis and editing (MEGA), phylogenetic analysis.

Comparative genomics platforms: EDGAR; MaGe; CoGE. Potential and limitations. Exercises.

Introduction to Geneious. Exercises.
Genome-analysis applied tools.

Mandatory literature

Albuquerque et al. ; DNA signature-based approaches for bacterial detection and identification, Elsevier, 2009

Teaching methods and learning activities

Presentation of Case studies in the context of ongoing research projects and practical training sessions in the computer lab.

Oral presentations and written reports. Final exam.

Evaluation Type

Distributed evaluation with final exam

Assessment Components

designation	Weight (%)
Exame	50,00
Trabalho escrito	25,00
Trabalho prático ou de projeto	25,00
Total:	100,00

Amount of time allocated to each course unit

designation	Time (hours)
Estudo autónomo	60,00
Frequência das aulas	42,00
Trabalho escrito	60,00
Total:	162,00

Eligibility for exams

Attence of classes minimum 75 %

Calculation formula of final grade

Final examination - 50%

Lab exercise - 25%

Written assay - 25%