Università degli Studi di Urbino Carlo Bo / Portale Web di Ateneo


PROTEOMICS
PROTEOMICA

A.Y. Credits
2016/2017 8
Lecturer Email Office hours for students
Michele Menotta
Teaching in foreign languages
Course with optional materials in a foreign language English
This course is entirely taught in Italian. Study materials can be provided in the foreign language and the final exam can be taken in the foreign language.

Assigned to the Degree Course

Sanitary Nutritional and Environmental Biology (LM-6)
Curriculum: BIOTECNOLOGIE MOLECOLARI
Date Time Classroom / Location

Learning Objectives

The aim of the course is to provide knowledge about the proteomics disciplines. Methods and techniques will be exemplified in order to lead the students able to solve proteomics and protein biochemistry problems.

Program

Protein biochemistry. Protein hydrodynamic, amino acid reactivity, post-translational modification (PTM) and reactivity.

Protein extraction methods and sample preparation. Protein extraction methods, protein quantification, cellular and protein fractionation.

Chromatography. Principles, Molecular exclusion chromatography, Hydrophobic interaction chromatography, Reversed-phase chromatography, ion exchange chromatography, affinity chromatography. HPLC, FPLC. Gas chromatography.

Electrophoretic and proteomics. Principles. polyacrylamide gel electrophoresis (PAGE). Native and denaturing PAGE.  Isoelectric focusing (IEF). Two-dimensional gel electrophoresis (2D PAGE). Gel staining and analysis. Western Blotting. Spot picking and post-processing.

Mass spectrometry. Introduction to MS. Ionization techniques, MS analyzer. Device coupling and instrumental configurations.

Protein identification. Edman degradation, Tandem MS, CID – Collision induced dissociation. ETD and  ECD. Protein sequencing by MS. Peptide Mass Fingerprinting

Bio-informatics tools for protein identification.

Topographic protein distribution. MALDI imaging

PTM analysis methods. Techniques and methods for PTM analysis. Red-ox proteomics

“Gel free” or “shot gun” Proteomics. Quantitative proteomics. Multi-dimensional chromatography.  MuDPIT. 18O, SILAC, ICAT, iTRAQ.

Proteomics and protein interaction Co-IP, TAP. Protein Array Analysis. Surface Plasmon Resonance. BRET and FRET. F/D AFM e nano-sensors. Y2H e three-component systems . EMSA. TF array. Chip and Chip-Seq. Membrane extraction. Proximity ligation assay. Complementation assay.

Recombinant proteins and their characterization.

Intro to metabolomics.

Functional networks.

Bridging Courses

none

Learning Achievements (Dublin Descriptors)

The student must demonstrate the understanding of the concepts and theories provided by the course. Not only is required the knowledge of the described methods, but also the chemical and physical principles behind the methods (provided during the course). Students have to demonstrate their ability to reason by the discipline logic, and have  to independently solve proteomics problems

Teaching Material

The teaching material prepared by the lecturer in addition to recommended textbooks (such as for instance slides, lecture notes, exercises, bibliography) and communications from the lecturer specific to the course can be found inside the Moodle platform › blended.uniurb.it

Supporting Activities

n/a


Didactics, Attendance, Course Books and Assessment

Didactics

Frontal lessons. 

Attendance

Attendance is strongly suggested 

Course books
  • Principles of Proteomics by Richard M. Twyman 
  • Introducing Proteomics: From Concepts to Sample Separation, Mass Spectrometry and Data Analysis by Josip Lovric 
  • Introduction to Proteomics: Tools for the New Biology by Daniel C. Liebler 
  • Principles and Techniques of Practical Biochemistry  by Keith Wilson and John Walker 
  • Assessment

    Oral examination and/or written test. 

    Additional Information for Non-Attending Students

    Didactics

    Frontal lessons. 

    Attendance

    Attendance is strongly suggested 

    Course books
  • Principles of Proteomics by Richard M. Twyman
  • Introducing Proteomics: From Concepts to Sample Separation, Mass Spectrometry and Data Analysis by Josip Lovric
  • Introduction to Proteomics: Tools for the New Biology by Daniel C. Liebler
  • Principles and Techniques of Practical Biochemistry  by Keith Wilson and John Walker
  • Assessment

    Oral examination and/or written test. 

    « back Last update: 31/08/16

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