Biomolecules Folding and Disease

The course Laboratory of Bioinformatics 1 (66563) includes in the second semester a 60-hours module given by Emidio Capriotti. The course director is Prof. Rita Casadio. The module is running from March 12 to April 17, 2019 in the Laboratory of Bioinformatics at the ground floor of Via San Giacomo 9/2 (back entrance). This page will include all the slides and materials of the lectures.

• Materials
  

  Course Schedule
  Introduction and Basic Concepts	12 March, 2019.
  Protein and RNA Structure Alignment	14 and 15 March, 2019.
  Multiple Alignments	19 and 21 March, 2019.
  Hidden Markov Models	22 March, 2019.
  HMM Alignments	26 March, 2019.
  HMMER	28 March, 2019.
  Introduction to the Project	29 March and 1 April, 2019.
  Project Implementation	2-11 April, 2019.
  Protein Structure Prediction	12 April, 2019.
  Protein Structure Analysis	15 April, 2019.
  Analysis and Prediction of Protein Complex	16 April, 2019.
  Predicting the Effect of Protein Variants	17 April, 2019.




• 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
  

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

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

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

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




• 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 14 participants which rated the course with an average score of 3.5 over 4. The received positive and negative comments will be published soon. Data




• Previous Editions
  

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.