Biomolecules Folding and Disease

The course Laboratory of Bioinformatics 1 (66563) includes in the second semester a 58-hour module given by Emidio Capriotti. The course director is Prof. Rita Casadio. The module is running from March 10 to April 30, 2020 and the lectures will be given online through the URL https://bit.ly/335F5S8. This page will include all the slides and materials of the course.

• Materials
  

  Course Schedule
  Introduction and Basic Concepts	10 March, 2020.
  Protein and RNA Structure Alignment	13 and 17 March, 2020.
  Multiple Alignments	20, 24 and 26 March, 2020.
  Probabilistic Models for Biological Sequences	27 and 31 March, 2020.
  Hidden Markov Models	2 April, 2020.
  HMM for Sequence Alignment	3 April, 2020.
  HMMER	7 April, 2020.
  Introduction to the Project	8 and 15 April, 2020.
  Project Implementation	15-24 April, 2020.
  Protein Structure Prediction	28 April, 2020.
  Protein Structure Analysis	30 April, 2020.
  Hands-On Programming Sessions




• Requirements
  

This is a theoretical and hands-on module which requires the use of PC. Students need to use their own laptop. Practical session of the course will be performed on a Linux OS.




• References
  

Marti-Renom et al. Structural Bioinformatics II Edition: Structural Comparison and Alignment.

Thompson et al. A Comprehensive Benchmark Study of Multiple Sequence Alignment Methods: Current Challenges and Future Perspectives. PLOS ONE, 2011.

El-Gebali et al. The Pfam protein families database in 2019. Nucleic Acids Research, 2019.

Loewenstein et al. Protein function annotation by homology-based inference. Genome Biology, 2009.

Xu and Dunbrack. Assignment of protein sequences to existing domain and family classification systems: Pfam and the PDB. Bioinformatics, 2012.




• Evaluation
  

In this page we included the evaluation form anonymously compiled by the participants to evaluate the quality of our course. Answers submitted with numbers from 1 (No) to 4 (Yes) have been included in the following statistics calculated by R. The evaluation form was compiled by 24 participants which rated the course with an average score of 3.1 over 4 (77.5%). Data




• Previous Editions
  

March 2019:	The Module 2 of the Laboratory of Bioinformatics 1 was held from 12 March to 17 April, 2019. More information is available at this link.
March 2018:	The Module 2 of the Laboratory of Bioinformatics 1 was held from 13 March to 3 May, 2018. More information is available at this link.
March 2017:	The Module 2 of the Laboratory of Bioinformatics 1 was held from 13 March to 4 May, 2017. More information is available at this link.