Mestrado Universitario en Bioloxía Molecular , Celular e Xenética
Descriptors
Cycle
Period
Year
Type
Credits
Official Master's Degree
2nd four-month period
First
Optional
3
Language
Spanish
Galician
English
Teaching method
Face-to-face
Prerequisites
Department
Bioloxía
Coordinador
Vila Taboada, Marta
E-mail
marta.vila.taboada@udc.es
Lecturers
Becerra Fernandez, Manuel
Vila Taboada, Marta
E-mail
manuel.becerra@udc.es
marta.vila.taboada@udc.es
Web
General description
Denomínase xenómica ao estudo integral do funcionamento, evolución e orixe dos xenomas. A xenómica utiliza coñecementos derivados de distintas disciplinas como xenética, bioloxía molecular, bioquímica, informática, estatística, matemáticas e física.
A diferenza da xenética clásica que a partires dun fenotipo (xeralmente mutante) procura o xene ou xenes responsables dese fenotipo, a xenómica ten como obxectivo predicir a función dos xenes a partir da súa secuencia ou das súas interaccións con outros xenes.
As denominadas ciencias ómicas están na vangarda da ciencia, feito debido ás posibilidades abertas polas novas tecnoloxías de secuenciación masiva, aos avances en bioinformática e aos algoritmos cada vez máis sofisticados para análise de xenomas completos.
Contingency plan
En caso dun novo confinamento por mor da covid19:
1. Non haberá modificacións nos contidos.
2. Todas as clases (teóricas e prácticas) pasarán a realizarse mediante videoconferencia por TEAMS.
3. Os mecanismos de atención personalizada ao alumnado serán vía email, videoconferencia ou chat implementado en TEAMS.
4. A única modificación da avaliación será que todo o alumnado será avaliado de xeito remoto.
5. Non haberá modificacións da bibliografía ou webgrafía. De ser preciso, o profesorado facilitará os recursos necesarios ao alumnado.
Study programme competencies
Code
Study programme competences / results
A3
Skills of understanding the functioning of cells through the structural organization, biochemistry, gene expression and genetic variability.
A11
Skills of understanding the structure, dynamics and evolution of genomes and to apply tools necessary to his study.
B1
Analysis skills to understand biological problems in connection with the Molecular and Cellular Biology and Genetics.
B5
Correct oral and written communication on scientific topics in the native language and at least in another International diffusion language.
B9
Skills of preparation, show and defense of a work.
C2
Mastering oral and written expression in a foreign language.
C3
Using ICT in working contexts and lifelong learning.
C8
Valuing the importance of research, innovation and technological development for the socioeconomic and cultural progress of society.
Learning aims
Learning outcomes
Study programme competences / results
To learn the basics of the different molecular techniques used in genomics, with particular emphasis in NGS
AR3 AR11
CC3
To acquire an updated view about the current scope and future perspectives of structural, functional and evolutionary genomics
AR3 AR11
BR1 BR5 BR9
CC2 CC8
To understand how genomes evolve and how molecular and bioinformatic tools are used for that purpose
AR3 AR11
BR1 BR5 BR9
CC2 CC8
DNA microarrays: experimental set up and data analysis.
Platforms
Paired-end libraries
Introduction to data analysis
Metagenomics
Metabarcoding
Clinical genomics
Amplicon-seq
Panel-seq
Exome-seq
Pharmacogenomics
Single Nucleotide Polymorphisms (SNPs)
Genome wide association studies (GWAS)
Digital genetic testing
Functional genomics
Transcriptome analysis: microarrays and NGS (RNA-seq)
Computer lab
1. Using GALAXY for analysis of NGS data.
2. Gene expression analysis using BABELOMICS.
3. Farmacogenomic analysis using PHARMKGB.
4. Introduction to the Intregative Genomics Viewer (IGV).
Planning
Methodologies / tests
Competencies / Results
Teaching hours (in-person & virtual)
Student’s personal work hours
Total hours
ICT practicals
A3 A11 B1 B5 B9 C2 C3
7
21
28
Guest lecture / keynote speech
A3 A11 B1 C8
14
28
42
Objective test
A3 A11 B1 C8
2
0
2
Personalized attention
3
0
3
(*)The information in the planning table is for guidance only and does not take into account the heterogeneity of the students.
Methodologies
Methodologies
Description
ICT practicals
OUr 7-hour, computer lab curriculum was developed to accompany the lecture course in Genomics. The students work on their own web-based investigations and present their results to each other (active learnning).
Guest lecture / keynote speech
The instructors explain the main contents of each topic interacting as much as possible with the students.
Objective test
Written exam.
Personalized attention
Methodologies
ICT practicals
Description
Instructors will typically be available via email/MS TEAMS. Students can arrange for in-person tutoring sessions.
Assessment
Methodologies
Competencies / Results
Description
Qualification
Objective test
A3 A11 B1 C8
In order to pass the subject, all students will have to take a multiple choice test and/or short-answer questionnaire.
70
ICT practicals
A3 A11 B1 B5 B9 C2 C3
Attendance to computer labs is mandatory.
Distance learners will have to check how to proceed.
All students will have to submit two reports following the guidelines provided by each instructor. In these reports, students will answer questions and/or solve exercises using their own computer and the software introduced during the computer labs.
30
Assessment comments
Students scoring at least 50 (out of 100) points but not reaching the aforementioned thresholds (ICT practicals: 15 out of 30 points; Objective test; 28 out of 70 points) will be awarded a 4.5 (out of 10) score. When resitting, they can choose to take both exams or only the failed one.
Mark "A with distinction" will only be awarded to outstanding students passing the subject in May.
Students will be scored as "ABSENT" (Non presentado) only when not involved in any of the assessed activities.
In the case of exceptional circumstances, lecturers may assist the student to improve his/her learning process and/or catch up on missed work/assessments. The student is responsible for liaising with his/her lecturer to organise this assistance by e.g. applying for: an extended deadline to present his/her work or taking an exam in a different date. The coordinator can request evidence about the reason for such an application.
Sources of information
Basic
McLachlan, G. J., Do, K-A., Ambroise, C (2004). Analyzing Microarray Gene Expression Data. Wiley-Interscience. John Wiley & Sons
Pevsner, J. (2015). Bioinformatics and Functional Genomics. Wiley Blackwell
Kulkarni, S., Pfeifer, J. (2015). Clinical Genomics. A guide to Clinical NGS. Academic Press, Elsevier
Robison, P.N., Piro, R.M., Jäger, M. (2018). Computational Exome and Genome Analysis. CRC Press, Taylor & Francis Group
Bowtell, D., Sambrook, J. (2003). DNA Microarrays. Cold Spring Harbor Laboratory Press.
Allison, David B., et al (2006). DNA microarrays and related genomics techniques design, analysis, and interpretation of experiments. Chapman & Hall/CRC
E. Rinaldis, A. Lahm. (2007). DNA microarrays: current applications. Wymondham: Horizon Bioscience
Brown, T. A. (2018). Genomes4. Garland Science
Complementary
(). .
Zhanjiang, Liu (2007). Aquaculture genome techonologies. Blackwell
Dale Jeremy (2008). From genes to genomes: concepst and applications of DNA technology. John Wiley & Sons
Sensen, Christoph W. (2005). Handbook of genome research genomics, proteomics, metabolism, bioinformatics, ethical & legal issues . Wiley-VCH
RECURSOS EN INTERNET:
Biological database compilation at NAR: http://nar.oupjournals.org/content/vol29/issue1
DOE Joint Genome Institut. Why sequence them? http://www.jgi.doe.gov/sequencing/why/index.html
Subjects that it is recommended to have taken before
Cellular Techniques/610441001
Molecular Techniques/610441002
Genetic Variation Mechanisms/610441005
Regulation of gene expression/610441006
Bioinformatics and Biomolecular models /610441020
Subjects that are recommended to be taken simultaneously
Proteomics/610441013
Chromosomes. structure. function and evolution /610441015
Human Genetics/610441016
Genetic Toxicology /610441017
Subjects that continue the syllabus
Project/610441022
Other comments
Do not take this subject if your level of English is lower than B1.
(*)The teaching guide is the document in which the URV publishes the information about all its courses. It is a public document and cannot be modified. Only in exceptional cases can it be revised by the competent agent or duly revised so that it is in line with current legislation.