|
Type A
|
Code |
Competences Specific | | | A7 |
Be able to search, obtain, analyse and interpret information from the main biological databases: genomic, transcriptomic, proteomic, metabolomics, taxonomic and other, as well as bibliographic data, and use basic bioinformatics tools. |
|
Type B
|
Code |
Competences Transversal | | | CT1 |
Use information in a foreign language effectively. |
| | CT2 |
Managing information and knowledge through the efficient use of IT. |
|
Type C
|
Code |
Competences Nuclear |
|
Type A
|
Code |
Learning outcomes |
| | A7 |
Use bioinformatic tools to: a) analyse the structures and sequences of proteins and nucleic acids and b) search for information in the main biological and bibliographic databases.
|
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Type B
|
Code |
Learning outcomes |
| | CT1 |
Use information in a foreign language effectively.
| | | CT2 |
Master the tools for managing their own identity and activities in a digital environment. (Be digital)
Search for and find information autonomously with criteria of reliability and relevance. (Search)
Organize information with appropriate tools (online and face-to-face) so that they can carry out their academic activities. (Organize)
Produce information with tools and formats appropriate to the communicative situation and with complete honesty. (Create)
Use IT to share and exchange information. (Share)
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Type C
|
Code |
Learning outcomes |
| Topic |
Sub-topic |
| 1) Introduction |
Definition and field of study.
Bioinformatics Web sites (EBI-EMBL, NCBI, Expasy).
|
| 2) Introduction to the Linux operating system |
Introduction to the operating systems. Installing packages. Terminal for simple tasks. |
| 3) Bioinformatics databases |
Bibliographic databases (PubMed, ISI Web of Knowledge), sequences databases (UniProt, GenBank). Other databases. |
| 4) Search and sequence analysis |
Concept of homology. Pair-wise alignments (Needelman-Wunsch and Smith-Waterman algorithms). Dotplot. Substitution matrices (PAM, BLOSUM). Search for similar sequences (BLAST). |
| 5) Multiple alignments and construction of phylogenetic trees |
Multiple sequence alignment programs (CLUSTAL). Databases derived from multialineaments (PROSITE). Methods of phylogenetic reconstruction. Visualization of phylogenetic trees. |
| Methodologies :: Tests |
| |
Competences |
(*) Class hours
|
Hours outside the classroom
|
(**) Total hours |
| Introductory activities |
|
2 |
2 |
4 |
| Lecture |
|
28 |
28 |
56 |
| IT-based practicals |
|
30 |
30 |
60 |
| Assignments |
|
2 |
15 |
17 |
| Personal attention |
|
4 |
0 |
4 |
| |
| Mixed tests |
|
3 |
0 |
3 |
| Practical tests |
|
6 |
0 |
6 |
| |
(*) On e-learning, hours of virtual attendance of the teacher.
(**) The information in the planning table is for guidance only and does not take into account the heterogeneity of the students. |
Methodologies
| |
Description |
| Introductory activities |
Activities designed to make contact with students, collect information from them and introduce the subject. |
| Lecture |
Description of the contents of the subject. Students' participation will be stimulated by asking questions during the class related to what is being explained and what makes them think. |
| IT-based practicals |
Practices in the computer classroom. Exercises will also be carried out using databases and internet servers. |
| Assignments |
Treball: Cerca bibliogràfica d'un tema triat per l'estudiant |
| Personal attention |
Resolution of doubts by emailing or face-to-face. |
|
Description |
|
Through the forum of the subject through Moodle, or face-to-face with the teacher. |
|
Methodologies |
Competences
|
Description |
Weight |
|
|
|
|
| IT-based practicals |
|
Individual resolution of a questionnaire for each topic. |
10% |
| Assignments |
|
Cerca bibliogràfica d'un tema triat per l'estudiant |
20% |
| Mixed tests |
|
Theoretical-practical examination of topics 1, 3-5. |
45% |
| Practical tests |
|
Practical exam of Topic 2 (linux). |
25% |
| Others |
|
|
|
| |
|
Other comments and second exam session |
|
The evaluation of the second chance consists in an exam, questionnaires, bibliographic search and the practical exam (linux) with the same value as in the first chance. The essential requirement to pass the subject is the presentation of the bibliographic search and the practical linux test. It is necessary a minimum of 4.0 of the exam of topics 1, 3, 4 i 5 (both first and second call), to count the grade of the questionnaires. It is forbidden the use or the provision of communication and transmission facilities during the realisation of tests, except for the express consent of the teacher. During evaluation tests, mobile phones, tablets and other devices that are not expressly authorized by the test must be switched off and out of sight. The demonstration of fraudulent conduct of some evaluative activity of a subject in both material: virtual and electronic support, leads to the student the fail of this evaluation activity. Regardless of this, in view of the seriousness of the facts, the centre may propose the initiation of a disciplinary file, which will be initiated by resolution of the rector. |
| Basic |
Lesk, Arthur M., Introduction to bioinformatics, Oxford: Oxford University Press, 2008
Attwood, Teresa K.; Parry-Smith, David J., Introducción a la bioinformática, Madrid: Prentice Hall, DL, 2002
Claverie, Jean-Michel; Notredame, Cedric, Bioinformatics for dummies, New York: Wiley Pub., cop., 2007
Gibas, Cynthia; Jambeck, Per, Developing bioinformatics computer skills, Beijing: O'Reilly, 2001
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|
| Complementary |
|
Garcia-Vallve S & Puigbo P. Ciento cincuenta años tras el árbol de la vida. Nuevos retos sobre el origen de las especies. Revista de la SEBBM. Junio 2009. Num. 160:18-21 |
| Subjects that it is recommended to have taken before |
| STRUCTURE AND FUNCTION OF BIOMOLECULES/19204107 |
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(*)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. |
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