Proteomics Data Analysis
Proteomikdataanalys

KIM065F, 3 högskolepoäng

Gäller från och med: Autumn 2016
Beslutad av: Mats Ohlin
Datum för fastställande: 2016-11-30

Allmänna uppgifter

Avdelning: Immunotechnology
Kurstyp: Ren forskarutbildningskurs
Undervisningsspråk: English

Syfte

Mass spectrometry-based proteomics is showing great potential for giving new biological insight and for discovery of biomarkers. However, the utility of results from proteomics experiments is highly dependent on data analysis and experimental design. The aim of the course is to give the attendants insight into the different steps of data analysis associated with mass spectrometry-based quantitative proteomics experiments, to allow for selection of workflow and to perform basic data analysis.

Mål

Kunskap och förståelse

För godkänd kurs skall doktoranden

• be able to describe basic principles of mass spectrometry-based identification of peptides and proteins.
• be able to describe advantages and disadvantages of different quantitative mass spectrometry-based workflows for proteomics.

Färdighet och förmåga

För godkänd kurs skall doktoranden

• be able to handle mass spectrometry files in different formats.
• be able to perform protein identification from MS/MS data.
• be able to generate quantitative peptide reports from LC-MS/MS data.
• be able to select mass spectrometry-based workflows for protein measurements in different biological contexts

Värderingsförmåga och förhållningssätt

För godkänd kurs skall doktoranden

• be able to critically evaluate quantitative proteomics studies.
• evaluate consequences of small or large sample groups, as well as of multiple hypothesis testing.

Kursinnehåll

In this post-graduate course, properties of data from quantitative mass spectrometry-based proteomics will be discussed, based on hands-on examples with practical data analysis. The course attendants will get an overview of existing solutions for analysis of proteomics data. Lectures in the course will cover 1) proteomics experimental planning, encompassing selection of workflow and sample selection, 2) raw data handling and analysis using informatic tools, including validation of peptide and protein identifications, 3) formatting of data for publication and deposition in public repositories, and 4) basic statistical analysis of results, and functional annotation. The exercises will encompass planning of experiments and evaluation of data from two different quantitative proteomics workflows, and discussion of significance and interpretation of the results.

Kurslitteratur

Slides and articles will be distributed

Kursens undervisningsformer

Undervisningsformer: Föreläsningar, seminarier, övningar

Kursens examination

Examinationsformer: Inlämningsuppgifter, seminarieföredrag av deltagarna. Active participation in lectures, exercises and discussion seminar.
Betygsskala: Underkänd, godkänd
Examinator:

Antagningsuppgifter

Övrig information

The course is given each autumn through the Postgraduate Courses in the Life Sciences (http://www.cmps.lu.se/life_sciences) if at least 6 students are accepted.

Kurstillfällesinformation

Kontaktinformation och övrigt

Kursansvariga: