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Type A
|
Code |
Competences Specific | | | CE7 |
Know how to search for, find, analyze and interpret information in the main biological databases concerning genomics, transcriptomics, proteomics, metabolomics, taxanomics among others, and to know how to use bibliographic databases and basic bioinformatic tools. |
| | CE11 |
Appreciate the speed of potential changes in Biochemistry. |
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Type B
|
Code |
Competences Transversal | | | CT1 |
Use information in a foreign language effectively |
| | CT2 |
Managing information and knowledge through the efficient use of IT |
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Type C
|
Code |
Competences Nuclear |
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Type A
|
Code |
Learning outcomes |
| | CE7 |
Training in the use of bioinformatic tools to: a) analyze structures and sequences of proteins and nucleic acids b) search for information in the main biological and bibliographic databases.
| | | CE11 |
Training in the use of bioinformatic tools to: a) analyze structures and sequences of proteins and nucleic acids b) search for information in the main biological and bibliographic databases.
|
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Type B
|
Code |
Learning outcomes |
| | CT1 |
Utilitzar informació en llengua estrangera d’una manera eficaç
| | | 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 |
0 |
2 |
| Lecture |
|
28 |
17 |
45 |
| IT-based practicals |
|
30 |
25 |
55 |
| Assignments |
|
4 |
10 |
14 |
| Personal attention |
|
4 |
0 |
4 |
| |
| Short-answer objective tests |
|
2 |
16 |
18 |
| Practical tests |
|
2 |
10 |
12 |
| |
(*) 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 |
Bibliographic search |
| 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 |
|
Bibliographic search |
20 |
| Short-answer objective tests |
|
Theoretical-practical exam |
45 |
| Practical tests |
|
Linux Exam |
25 |
| Others |
|
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|
| |
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Other comments and second exam session |
|
It is an essential requirement to present the assignment (bibliographic search) and the linux exam to pass the subject. A minimum of 4.0 will be necessary in the examination of topics 1,3, 4 and 5 (in the first and second call) will be necessary to count the score of the questionnaires. The second-chance will consist of an exam, keeping the note of the questionnaires, bibliographic search and linux exam, with the same weights as in the first chance. No notes from a previous course are saved. |
| 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 |
(*)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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