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
Teaching method
Face-to-face
Prerequisites
Department
Bioloxía Computación
Coordinador
Dorado de la Calle, Julian
E-mail
julian.dorado@udc.es
Lecturers
Becerra Fernandez, Manuel
Dorado de la Calle, Julian
Fernández Lozano, Carlos
E-mail
manuel.becerra@udc.es
julian.dorado@udc.es
carlos.fernandez@udc.es
Web
General description
La gestión del conocimiento en biología es el terreno de la bioinformática, e incluye tanto la formalización de la información obtenida como su organización en bases de datos adecuadas, la extracción de relaciones entre la información dispersa, el modelado de los procesos biológicos y la generación de hipótesis para sustentar nuevas aproximaciones experimentales. Desde un punto de vista técnico, la bioinformática utiliza métodos computacionales (el propio desarrollo de métodos en esta área se suele denominar biología computacional) y recibe aportaciones de las matemáticas, la física y la ingeniería informática. Sin embargo, desde el punto de vista de los objetivos, la bioinformática es una rama de la biología, como pueden serlo la bioquímica o la microbiología. En este carácter claramente interdisciplinario de la bioinformática reside tanto su fuerza como su debilidad: por una parte, la aplicación de ideas traídas de otros campos produce constantemente avances espectaculares; pero, por otra parte, es difícil desarrollar los programas de formación adecuados.
Para darse cuenta de la importancia de la bioinformática en la biología actual, quizás sea suficiente decir que el método más citado en las publicaciones de esta área es Blast, un método computacional que busca e identifica secuencias de proteínas y ácidos nucleicos en bases de datos: es decir, la operación técnica más realizada por biólogos es computacional, y no experimental. De hecho, la interpretación de cualquier experimento complejo en biología requiere, casi ineludiblemente, el análisis bioinformático, algo especialmente obvio si se trata de experimentos masivos.
Study programme competencies
Code
Study programme competences
A3
Skills of understanding the functioning of cells through the structural organization, biochemistry, gene expression and genetic variability.
A9
Skills of understanding the structure and dynamics of proteins to individual and proteomic level, as well as the techniques that are necessary to analyze them and to study their interactions with other biomolecules.
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.
B2
Skills of decision making for the problem solving: that are able to apply theoretical knowledges and practical acquired in the formulation of biological problems and the looking for solutions.
B3
Skills of management of the information: that are able to gather and to understand relevant information and results, obtaining conclusions and to prepare reasoned reports on scientific and biotechnological questions
B9
Skills of preparation, show and defense of a work.
C3
Skills of Using basic tools of the information technologies and communications (ICT) necessary to the exercise of his profession and for the apprenticeship over his life.
C6
Considering critically the knowledge, technologies and the available information to solve problems with which should face.
C8
Considering the importance that the investigation has, the innovation and the technological development in the socioeconomic advance and cultural of the society.
Learning aims
Learning outcomes
Study programme competences
Know access to Channels Bioinformatics Web Resources
AR3
BR3 BR9
CC3
Understand and manage properly the area of Bioinformatics
AR3
BR3 BR9
CC3 CC6
Being able to function independently to find information about the different programs and their changeable parameters and understand the impact on the results of the analysis
AR3
BR2 BR3 BR9
CC3
To have bioinformatics knowledge of how to make a prediction of the onedimensional characteristics of a protein
AR3 AR9 AR11
BR1 BR2 BR3
CC3 CC6 CC8
To be able to perform a simple prediction of the three dimensional structure of a protein based on available data and programs on the Web
AR3
BR1 BR2 BR3
CC3 CC6 CC8
Learn the basic methods of molecular simulation and how they are used for the study of proteins
AR3
BR1 BR2 BR3
CC3 CC6 CC8
Contents
Topic
Sub-topic
Bioinformatics
Web Resources and Databases in molecular biology. Analysis and comparison of sequences.
Sequence alignment. Location of motives. Search of genes. annotation of
genes. Browsers genome project. Examples of applications. Data analysis.
Modeling of Biomolecules
Prediction of the characteristics of the protein structure. Obtaining three-dimensional models.
Homology modeling. Modeling by threading or by remote homology design.
Ab initio methods. Evaluation of the prediction methods.
Planning
Methodologies / tests
Competencies
Ordinary class hours
Student’s personal work hours
Total hours
Guest lecture / keynote speech
A3 A9 A11
10
20
30
Seminar
B3 B9 C6 C8
2
7
9
Laboratory practice
B1 B2 C3
9
22.5
31.5
Personalized attention
4.5
0
4.5
(*)The information in the planning table is for guidance only and does not take into account the heterogeneity of the students.
Methodologies
Methodologies
Description
Guest lecture / keynote speech
Oral presentation complemented by the use of audiovisual media for the purpose of transmitting knowledge and facilitate learning.
Seminar
Working technique that aims to make powerpoint and word documents on a topic proposed by the teacher.
Laboratory practice
Methodology that allows students to learn effectively through practical activities (demonstrations, simulations, etc.) the theory of a field of knowledge through the use of information technology and communications.
Personalized attention
Methodologies
Seminar
Laboratory practice
Description
The personal attention that is described in relation to these methodologies are conceived as moments of classroom student work with teacher, this involve mandatory participation for the student.
The manner and time in which it was held is indicated in relation to each activity along the course according to the work plan of the course
Assessment
Methodologies
Competencies
Description
Qualification
Guest lecture / keynote speech
A3 A9 A11
A test will be realized to assess the knowledge acquired in the course of lectures.
With this methodology the A5, B2 skillls will be assessed
45
Seminar
B3 B9 C6 C8
The seminar will be evaluated by taking into account the ability to extract the most relevant information obtained for the student, the capacity for teamwork and the ability to expose in public.
Whit this methodology B1, B3 and B9 competencies will be evaluated
25
Laboratory practice
B1 B2 C3
Regular attendance and active participation in the lab, as well as the bulletin responses made by students will be assessed. They also perform a test to assess the knowledge acquired.
With this methodology the A5 and B2 competencies will be assessed
30
Assessment comments
Students presented in the first opportunity of June will be eligible to get honours.
Students with a part-time assistance or exemption may agree with teachers specific methods for evalaution early in the course .
Also students engaged as "SEMIPRESENCIALES" should contact the teachers in the first weeks.
Sources of information
Basic
BIOINFORMATICS • Attwood, T.K. & D.J. Parry-Smith. 1999. Introduction to Bioinformatics. Addison Wesley Longman Limited, Edimburgo. • Baxevanis, A.D. & B.F. Francis Oullette (Eds.). 2002. Bioinformatics. A practical guide to the analysis of genes and proteins. 2nd Ed. Wiley-Interscience. • Bishop, M. 1999. Bioinformatics. Taylor & Francis, UK. • Claverie, J.M. and C. Notredame. 2003. Bioinformatics for dummies. Wiley Publishing, Inc. • Gibas, C. y P. Jambeck. 2001. Developing Bioinformatics Computer Skills. O'Reilly • Higgins, D. y W. Taylor. 2000. Bioinformatics: Sequence, structure and databanks. Oxford University Press. • Higgs, P. & T.K. Attwood 2005. Bioinformatics and molecular evolution. Blackwell Publishing. • Kanehisa, M. 2000. Post-genome informatics. Oxford University Press • Li, W-H. 1999. Molecular evolution. Sinauer Associates Inc., Massachusetts, 2nd. Ed. • Mount, David W. 2001. Bioinformatics. Sequence and Genome Analysis. Cold Spring Harbor Laboratory Press. • Nei, M. y S. Kumar. 2000. Molecular Evolution and Phylogenetics. Oxford University Press. • Pevsner, J. 2003. Bioinformatics and Functional Genomics. John Wiley & Sons, Inc. • Rashidi, H.H. and L.K. Buehler. 2000. Bioinformatics Basics. Applications in Biological Science and Medicine. CRC Press, Boca Raton. • Salzberg, S., D. Searls, and S. Kasif (Eds). 1998. Computational Methods in Molecular Biology. Elsevier Science. • Swindell, S.R., R.R. Miller y G.S.A. Myers. 1997. Internet for the Molecular Biologist. Horizon Scientific Press, Norfolk, UK. • Tisdall, J. 2001. Beginning Perl for Bioinformatics. O'Reilly MODELING OF BIOMOLECULES • Bnaszak,L. J. 2000. Foundations of structural biology. Academic Press. • Bourne, P. E., Weissig,H. 2003. Structural Bioinformatics. John Wiley & Sons. • Branden,C. & Tooze, J. 1998. INTRODUCTION TO PROTEIN STRUCTURE. 2nd editionGarland Publishing, Inc, New York . • Creighton,T. E. 1993. PROTEINS: STRUCTURES AND MOLECULAR PROPERTIES, 2nd edition. W.H.Freeman & Company, New York . • Gómez-Moreno,C. & Sancho, J. (Coords). 2003. ESTRUCTURA DE PROTEÍNAS. Ariel Ciencia, Barcelona . • Lesk, A.M. 2000. INTRODUCTION TO PROTEIN ARCHITECTURE. THE STRUCTURAL BIOLOGY OFPROTEINS. Oxford University Press, Oxford . • Tramontano,A. 2006. Protein Structure Prediction. Wiley-Vch.
Subjects that it is recommended to have taken before
Molecular Techniques/610441002
Subjects that are recommended to be taken simultaneously
Protein Structure and Dynamics/610441011
Proteomics/610441013
Genomics /610441014
Subjects that continue the syllabus
Project/610441022
Other comments
(*)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.