Introduction to Bioinformatics
Objectives
Formation of informed users with light theoretical footprint, and mostly hands-on approach.
General characterization
Code
12028
Credits
6.0
Responsible teacher
João Manuel Gonçalves Couceiro Feio de Almeida
Hours
Weekly - 4
Total - 63
Teaching language
Português
Prerequisites
Basic knowledge on Molecular Biology, and user-oriented informatics.
Bibliography
Pevsner, Jonathan. Bioinformatics and Functional Genomics. 2nd ed. Wiley-Blackwell, 2009.
Burkowski, F. J. Structural bioinformatics: an algorithmic approach CRC Press, 2008
Lesk A. Introduction to Bioinformatics (2nd Ed.).OxfordUniversity Press, 2005, Oxford. (ISBN 0 19 927787 7)
Orengo C., Jones D., Thornton J. Bioinformatics: Genes, Proteins and Computers. Advanced Text. BIOS Scientific Publishers Limited, 2003, Oxford. (ISBN 1 85996 054 5)
Almeida et al 2015. Comparative Genomics Suggests Primary Homothallism of Pneumocystis Species. MBio, 6(1), e02250-14. https://doi.org/10.1128/mBio.02250-14 (materiais e métodos)
Relevant content accessed through the WWW.
Teaching method
Topics are lectured in Portuguese, materials, and contents in English.
Evaluation method
3 assessments or a final exam.
Subject matter
1. Sequence versus the underlying reality
2. Sequences as data to be stored, indexed, and retrieved. Databases from the data structure standpoint.
3. Basic algorithms for sequence feature extraction.
4. Homology inferred from similarity: the alignment operation.
5. Identity versus similarity, and the role of substitution matrices.
6. Functional annotation: models, databases, and tools. A bridge to the structure.
7. The main public databases, and their providers: the world-class bioinformatics centres.
8. Genomic annotation databaseservers, an integrative view of the data corpus.