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Upgrading in Toxicology (Biochemistry) -Methodology
Person in charge : A-C CAMPROUX
Program :
- Main data types (integers, floats, lists, strings, dictionaries, tuples)
- Loops, comparisons, tests
- Modules
- Input/output management with files
- Functions
- Regular expressions
- Notion of classes in Python
Necessary in Toxicology and Biochemistry (J. Dairou, V Arluison, F. Rodrigues)
The drug designer must have an initiation to certain biophysical methods frequently used in drug design projects. There is a wide range of biophysical methods that allow the study of protein/protein or protein/ligand interactions by defining the contact zone or characterizing the thermodynamic and/or kinetic constants that govern the interaction.
Methods to understand the basic principles of thermodynamics, scattering, and optical methods will be covered. In particular, some physico-chemical techniques such as light scattering, optical methods, linear and circular dichroism, fluorescence and UV-visible spectroscopies. In addition, the course will introduce three other experimental methods for the identification and characterization of biomolecule interactions in vitro: Nuclear Magnetic Resonance, Isothermal Titration Calorimetry (ITC), FRET, acronym of "Fluorescence Resonance Energy Transfer", and BRET, acronym of "Bioluminescence Resonance Energy Transfer Papers using other fundamental approaches for drug design such as Surface Plasmon Resonance (SPR) and immunological methods (ELISA, GST pulldown assays) will be analyzed and presented by the students. The course will include enzymology lessons focusing on the study of interactions between enzymes and ligands (substrates, inhibitors, allosteric effectors...).
Reminder of Biostatistics, R and basic biostatistics (A. Badel, A-C Camproux)
Training in R and Biostatistics for students to manipulate and analyze data. At the end of the training, the goal is that students are able to determine the statistical analysis that can answer the biological question posed and implement that analysis. Interpret and conclude on the statistical and biological results of their study.
Reminder of probability, introduction to biostatistics
- Estimation and statistical inference
- Classical tests, Student's t test, Chi2 test
- Pearson correlation coefficient test and simple linear regression
Fundamentals+of+Biostatistics (Chapters [1,13]) in English (available on the internet) is a suitable medium: https://collegelearners.com/ebooks/fundamentals-of-biostatistics-8th-edition-pdf-free/
Chemistry kit for drug design: (N. Triballeau)
The aim of the course is to introduce students to different tools in chemistry, necessary for the understanding of drug design methods and the characterization of molecular interactions.
The drug designer is generally at the interface between the biologist, the clinician and the chemist.
He/she must therefore have an introduction to biophysical methods and chemical chemistry concepts used in drug design projects.
Pharmacophore, Chemical chemistry toolbox,
"Atoms useful for drugs, hybridization, chemical functions, heteroaromatics, families of drugs IUPAC names & nomenclatures Isomers, Tautomers Stereochemistry, pseudo stereochemistry pKa of common groups, Most reactive groupsPreferred
conformations of important groups (3, 4, 5 and 6 saturated rings, amide, sulphonamide, biphenyls)- Introduction to matched molecular pair analysis - Elements of IP (Intellectual Property), SciFinder (CAS database query software)"
- Main data types (integers, floats, lists, strings, dictionaries, tuples)
- Loops, comparisons, tests
- Modules
- Input/output management with files
- Functions
- Regular expressions
- Notion of classes in Python
Necessary in Toxicology and Biochemistry (J. Dairou, V Arluison, F. Rodrigues)
The drug designer must have an initiation to certain biophysical methods frequently used in drug design projects. There is a wide range of biophysical methods that allow the study of protein/protein or protein/ligand interactions by defining the contact zone or characterizing the thermodynamic and/or kinetic constants that govern the interaction.
Methods to understand the basic principles of thermodynamics, scattering, and optical methods will be covered. In particular, some physico-chemical techniques such as light scattering, optical methods, linear and circular dichroism, fluorescence and UV-visible spectroscopies. In addition, the course will introduce three other experimental methods for the identification and characterization of biomolecule interactions in vitro: Nuclear Magnetic Resonance, Isothermal Titration Calorimetry (ITC), FRET, acronym of "Fluorescence Resonance Energy Transfer", and BRET, acronym of "Bioluminescence Resonance Energy Transfer Papers using other fundamental approaches for drug design such as Surface Plasmon Resonance (SPR) and immunological methods (ELISA, GST pulldown assays) will be analyzed and presented by the students. The course will include enzymology lessons focusing on the study of interactions between enzymes and ligands (substrates, inhibitors, allosteric effectors...).
Reminder of Biostatistics, R and basic biostatistics (A. Badel, A-C Camproux)
Training in R and Biostatistics for students to manipulate and analyze data. At the end of the training, the goal is that students are able to determine the statistical analysis that can answer the biological question posed and implement that analysis. Interpret and conclude on the statistical and biological results of their study.
Reminder of probability, introduction to biostatistics
- Estimation and statistical inference
- Classical tests, Student's t test, Chi2 test
- Pearson correlation coefficient test and simple linear regression
Fundamentals+of+Biostatistics (Chapters [1,13]) in English (available on the internet) is a suitable medium: https://collegelearners.com/ebooks/fundamentals-of-biostatistics-8th-edition-pdf-free/
Chemistry kit for drug design: (N. Triballeau)
The aim of the course is to introduce students to different tools in chemistry, necessary for the understanding of drug design methods and the characterization of molecular interactions.
The drug designer is generally at the interface between the biologist, the clinician and the chemist.
He/she must therefore have an introduction to biophysical methods and chemical chemistry concepts used in drug design projects.
Pharmacophore, Chemical chemistry toolbox,
"Atoms useful for drugs, hybridization, chemical functions, heteroaromatics, families of drugs IUPAC names & nomenclatures Isomers, Tautomers Stereochemistry, pseudo stereochemistry pKa of common groups, Most reactive groupsPreferred
conformations of important groups (3, 4, 5 and 6 saturated rings, amide, sulphonamide, biphenyls)- Introduction to matched molecular pair analysis - Elements of IP (Intellectual Property), SciFinder (CAS database query software)"