Course catalogue doctoral education - VT24
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Title | Mass spectrometry-based proteomics: When and How. |
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Course number | 2522 |
Programme | 1-Ingår i flera program |
Language | English |
Credits | 3.0 |
Date | 2016-10-10 -- 2016-10-21 | Responsible KI department | Institutionen för onkologi-patologi |
Specific entry requirements | |
Intended learning outcomes | After completed the course, the student will be able to -Define and apply common proteomics terminology -Recognize the principles of the most common proteomics techniques -Understand the mass spectrometry based proteomics workflow: Experimental design, sample preparation and selection of techniques -Understand proteomics to such an extent that he/she will be able to utilize proteomics core facilities or collaborate with proteomics researchers. -Evaluate the quality of protein and peptide identifications. -Demonstrate how modern proteomics is applied to clinical research and to evaluate when proteomics research could be beneficial to incorporate in research projects. -Design their own research project by mass spectrometry based proteomics. |
Contents of the course | The aim of this course is to give an overview of mass spectrometry based proteomics for researchers that will apply these techniques in their own research. Lectures and workshops on -Overview of proteomics -The proteomics workflow -Basic of separation sciences: Protein and peptides -Introduction to Mass spectrometry -Experimental design -Sample preparation, immunoprecipitation and enrichment strategy -Quantitative and qualitative proteomics by mass spectrometry -Global and targeted proteomics -Human protein atlas and Biological validation -Clinical applications A practical laboratory exercise using mass spectrometry based proteomics This course is focusing on proteomics technologies and applications, for proteomics data analysis we recommend our KI doctoral course ""Omics data analysis: From quantitative data to biological information"" |
Teaching and learning activities | The course contains lectures, seminars, and a practical laboratory exercise using proteomics techniques. The students will plan their own project as a case study as well make an oral laboratory report. |
Compulsory elements | -Attendance at lectures and the practical laboratory exercise. -Attendance at examination seminar and hand in the written examination assignment. -Extra written assignments can be used to compensate absence. The students are recommended to read literatures listed below in advance of the course. |
Examination | -Students shall describe a proteomics project (beneficially related to their research) including different aspects from the proteomics workflow. This is handed in as a written exam. -The students shall perform an oral laboratory report |
Literature and other teaching material | The students are recommended to read in advance of the course. (Will be listed on Course website: PingPong) * Matthias Mann, Nils A. Kulak, Nagarjuna Nagaraj, and Jurgen Cox. The Coming Age of Complete, Accurate, and Ubiquitous Proteomes. Molecular Cell 2013 49; 583-590. * F. Maarten Altelaar, Javier Munoz and Albert J. R. Heck. Next-generation proteomics: towards an integrative view of proteome dynamics. Nat Rev Genetics. 2013. 14; 35-48 * Cox J. and Mann M. Quantitative, High-Resolution Proteomics for Data-Driven Systems Biology. Annu. Rev. Biochem. 2011. 80; 273-99 * Domon B. and Aebersold R. Options and considerations when selecting a quantitative proteomics strategy. Nat Biotechnol. 2010 28(7); 710-721. * Gstaiger M. and Aebersold R. Applying mass spectrometry-based proteomics to genetics, genomics and network biology. Nat Rev Genetics. 2009. 10; 617-627 Supplementary literatures will help to understand lectures and design of your project: Will be listed on PingPong. |
Number of students | 15 - 20 |
Selection of students | Selection will be based on 1) the relevance of the course syllabus for the applicant's doctoral project (according to written motivation), 2) date for registration as a doctoral student (priority given to earlier registration date) |
More information | This is a full-time course, please note that both lectures and practical exercises are mandatory. For more information please refer to the course website in pingpong (http://pingpong.ki.se/public/courseId/9160/lang-sv/publicPage.do) This course is included in the doctoral programmes Allergy, immunology and inflammation (Aii) and Programme in Biology of Infections and Global Health Programme (BIGH). See https://internwebben.ki.se/en/doctoral-programmes-0. For proteomics data analysis we also recommend course 2523. |
Additional course leader | |
Latest course evaluation | Course evaluation report |
Course responsible |
Rozbeh Jafari Institutionen för onkologi-patologi rozbeh.jafari@ki.se |
Contact person |
Rozbeh Jafari Institutionen för onkologi-patologi rozbeh.jafari@ki.se Mattias Vesterlund Institutionen för onkologi-patologi Mattias.Vesterlund@ki.se |