Projects

 

 

 

Citation

 

Editorships

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Frontiers Section Editor (Bioinformatics and Biophysics) for the Current Drug Targets ISSN: 1873-5592

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Section Editor (Bioinformatics in Drug Design and Discovery) for the Current Medicinal Chemistry ISSN: 1875-533X

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Member of the Editorial Board for the PeerJ ISSN: 2167-8359

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Member of the Editorial Board for the Current Bioinformatics ISSN: 2212-392X (Online) ISSN: 1574-8936 (Print)

 

Research

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Protein-Ligand Interacions

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Molecular Docking

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Bioinspired Computing

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Computational Systems Biology

 

Recent Publications

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Volkart PA et al. Cyclin-Dependent Kinase 2 in Cellular Senescence and Cancer. A Structural and Functional Review. Curr Drug Targets. 2018.

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de Ávila MB et al.. Structural Basis for Inhibition of Enoyl-[Acyl Carrier Protein] Reductase (InhA) from Mycobacterium tuberculosis. Curr Med Chem 2018.





This page brings material for the courses that I teach in post-graduate  and undergraduate courses. The material is in Portuguese except for Drug Design course. For most of the courses that I teach, I have adopted the project-based learning approach. In project-based courses, it is proposed for the students a list of potential projects to be developed during the course. These projects are focused on proteins, as the ones described in the video on the left.

Prof. Walter F. de Azevedo Jr., PhD.

Crystallization of protein in a microgravity environment (video in Portuguese). Experiments carried out on the Discovery space shuttle STS-95 on October 29, 1998.

Project-Based Learning   

The project-based learning allows the students to apply the basic knowledge of a course to develop research projects where they can exercise their creativity and become more interested in the content of a discipline. As an example, let's consider the Drug Design course, I propose a list of research projects focused on the protein targets listed below. The students choose one of the protein targets and carry out docking simulations to identify potential new inhibitors for these enzymes. The same list of enzymes is used for Bioinformatics and Machine Learning courses. In the Machine Learning course, the students are asked to develop machine learning models to predict ligand-binding affinity for a specific enzyme. In the Bioinformatics courses, the students are invited to create Python codes to analyze protein-ligand interactions, using the protein targets as study cases. For those interested in the project-based learning and project-driven learning, I have included a list of sites below.   

Research Projects          

     -Acetylcholinesterase (EC 3.1.1.7)   PubMed   MOTM                   
     -Beta-Lactamase (EC 3.5.2.6)   PubMed   MOTM            
     -Beta-Secretase 1 (EC 3.4.23.46)   PubMed   MOTM          
     -Carbonic Anhydrase II (EC 4.2.1.1)   PubMed   MOTM                    
     -Caspase-3 (or Apopain) (EC 3.4.22.56)   PubMed     MOTM   
     -Chorismate Synthase (EC 4.2.3.5)   PubMed   
     -Cyclin-Dependent Kinase 1 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 2 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 4 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 5 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 6 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 7 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 8 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 9 (EC 2.7.11.22)   PubMed       
     -Cyclin-Dependent Kinase 12 (EC 2.7.11.22)   PubMed      
     -Cyclin-Dependent Kinase 13 (EC 2.7.11.22)   PubMed      
     -Cyclin-Dependent Kinase 16 (EC 2.7.11.22)   PubMed       
     -Cyclooxygenase-1 and 2 (EC 1.14.99.1)   PubMed   MOTM   
     -Cytochrome P450 2C9 (EC 1.14.13.-)   PubMed   MOTM   
     -Dihydrofolate Reductase (EC 1.5.1.3)   PubMed   MOTM   
     -Enoyl-ACP Reductase (EC 1.3.1.9)   PubMed   
     -EPSP synthase (EC 2.5.1.19)   PubMed     
     -Epidermal Growth Factor Receptor ErbB1 (EC 2.7.10.1)   PubMed   MOTM     
     -HIV-1 Integrase (EC 2.7.7.-)   PubMed   MOTM   
     -HIV-1 Protease (EC 3.4.23.16)   PubMed   MOTM   
     -HIV-1 Reverse Transcriptase (EC 2.7.7.49)   PubMed  MOTM   
     -Muscle Glycogen Phosphorylase (EC 2.4.1.1)   PubMed   MOTM   
     -Nitric-Oxide Synthase, Brain (EC 1.14.13.39)   PubMed   MOTM   
     -Neuraminidase (EC 3.2.1.18)   PubMed   MOTM   
     -Phospholipase A(2) Group IIA (EC 3.1.1.4)   PubMed   
     -Purine Nucleoside Phophorylase (EC 2.4.2.1)   PubMed   
     -RAF Protein Kinases (EC 2.7.11.1)   PubMed   MOTM      
     -Serotonin Receptor   PubMed   MOTM    
     -Shikimate Kinase (EC 2.7.1.71)   PubMed   
     -Tyrosine-Protein Kinase SRC (EC 2.7.10.2)   PubMed  MOTM   
     -Zinc Fingers   PubMed  MOTM   

Links Related to Project-Based Learning   

     -ASCD          
     -Buck Institute for Education (BIE)          
     -edglossary.org           
     -George Lucas Education Foundation (Edutopia)          
     -Learn NC                   
     -Thinkful