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Proteomics and Metabolomics

Title
Proteomics and Metabolomics
Semester
E2022
Master programme in
Chemistry * / Environmental Biology * / Chemical Biology / Molecular Health Science
Type of activity

Laboratory Course

Teaching language
English
Study regulation

Read about the Master Programme and find the Study Regulations at ruc.dk

Læs mere om uddannelsen og find din studieordning på ruc.dk

REGISTRATION AND STUDY ADMINISTRATIVE
Registration

Sign up for study activities at stads selvbetjeningwithin the announced registration period, as you can see on the Studyadministration homepage.

When signing up for study activities, please be aware of potential conflicts between study activities or exam dates.

The planning of activities at Roskilde University is based on the recommended study programs which do not overlap. However, if you choose optional courses and/or study plans that goes beyond the recommended study programs, an overlap of lectures or exam dates may occur depending on which courses you choose.

Number of participants

The Master Programme/Institute reserves the right to cancel the course if fewer than 8 studentes are registered for the course.

ECTS
5
Responsible for the activity
Biljana Mojsoska (biljana@ruc.dk)
Anders Malmendal (amalm@ruc.dk)
Head of study
Anders Malmendal (amalm@ruc.dk)
Teachers
Study administration
INM Studieadministration (inm-studieadministration@ruc.dk)
Exam code(s)
U60046
ACADEMIC CONTENT
Overall objective

Proteomics and metabolomics are used to profile large numbers of proteins and small molecule metabolites, respectively, within a cell, tissue, organ, or organism. This provides an overview of which biochemical processes that are affected and can provide new biological insights and unravel new hypotheses. These methods represent a shift in paradigm from hypothesis-driven studies where only one or a few compounds are measured. The aim of this course is to teach the students the principles of proteomics and metabolomics by mass spectrometry (MS) and NMR, and to make them acquainted with the practical steps involved in both types of analyses.

Detailed description of content

The overall content of the course covers principles of proteomics and metabolomics by mass spectrometry and NMR.

The students will be introduced to the following topics:

  • 1) MS applications and introduction to proteomics

  • 2) Sample preparation and LC-MS theory

  • 3) Fragmentation + Exercises

  • 4) Introduction to proteomic data analysis

  • 5) Analyze your own data

  • 6) NMR applications and introduction to Metabolomics

  • 7) Introduction to metabolomic data analysis

  • 8) Analyze your own data

Course material and Reading list

Pensum in this course are lecture notes and articles provided during the course.

Overall plan and expected work effort
  • Lectures: 14 hours

  • Preparation: 28 hours

  • Experiments sessions: 28 hours

  • Experimental evaluation and report writing: 40 hours

  • Exam: 25 hours

- Total for this 5 ECTS course is 135 hours

Format
Evaluation and feedback

The course includes formative evaluation based on dialogue between the students and the teacher(s).

Students are expected to provide constructive critique, feedback and viewpoints during the course if it is needed for the course to have better quality. Every other year at the end of the course, there will also be an evaluation through a questionnaire in SurveyXact. The Study Board will handle all evaluations along with any comments from the course responsible teacher.

Furthermore, students can, in accordance with RUCs ‘feel free to state your views’ strategy through their representatives at the study board, send evaluations, comments or insights form the course to the study board during or after the course.

Programme

During the course there will be a series of lectures describing theoretical and practical aspects of proteomics and metabolomics.

In parallel with this there will be a number of experimental sessions where samples will be prepared, experiments carried out and analysed, and biological conclusions being made.

At the end of the course, groups of students will write manuscript-like reports based on experiments carried out during the course.

ASSESSMENT
Overall learning outcomes

After completing the course the student will be able to:

  • account for essential aspects of the techniques used in proteomics and metabolomics

  • perform simple metabolomic and proteomic experiments

  • prepare samples for preparation metabolomics and proteomics

  • analyse and interpret metabolomic and proteomic data

  • apply those methods to solve unfamiliar problems.

Form of examination

Individual oral exam based on a portfolio.

The character limit of the portfolio is 12,000-36,000 characters, including spaces. Examples of written products are exercise responses, talking points for presentations, written feedback, reflections, written assignments. The preparation of the products may be subject to time limits.
The character limits include the cover, table of contents, bibliography, figures and other illustrations, but exclude any appendices.

Time allowed for exam including time used for assessment: 30 minutes.
The assessment is an overall assessment of the written product(s) and the subsequent oral examination.

Permitted support and preparation materials for the oral exam: Personal notes, own reports and assignments.

Assessment: 7-point grading scale.
Moderation: Internal co-assessor
Form of Re-examination
Same form as the ordinary exam
Type of examination in special cases
Examination and assessment criteria

Groups of students will write manuscript-like reports based on experiments carried out during the course. The individual oral exam will start with a presentation of the results described in the report.

The assessment criteria regarding the written part:

  • Account for essential aspects of the techniques used in proteomics and metabolomics

  • Describe simple metabolomic and proteomic experiments

  • Describe samples for preparation metabolomics and proteomics

  • Analyse and interpret metabolomic and proteomic data • Apply those methods to solve unfamiliar problems

The assessment of the oral exam is based on the student’s ability to meet the criteria mentioned above and their ability to

  • clearly present and communicate the scientific content of the report

  • engage in a scientific dialogue and discussion with the assesors

Furthermore, whether the performance meets all formal requirements

The character limit of the portfolio is 12,000-36,000 characters, including spaces. The preparation of the products may be subject to time limits.

The character limits include the cover, table of contents, bibliography, figures and other illustrations, but exclude any appendices.

Exam code(s)
Exam code(s) : U60046
Last changed 19/05/2022

lecture list:

Show lessons for Subclass: 1 Find calendar (1) PDF for print (1)

Thursday 08-09-2022 14:15 - 08-09-2022 16:00 in week 36
Proteomics and Metabolomics (CB)

Tuesday 13-09-2022 12:15 - 13-09-2022 16:00 in week 37
Proteomics and Metabolomics (CB)

Thursday 22-09-2022 14:15 - 22-09-2022 16:00 in week 38
Proteomics and Metabolomics (CB)

Tuesday 27-09-2022 12:15 - 27-09-2022 16:00 in week 39
Proteomics and Metabolomics (CB)

Thursday 06-10-2022 14:15 - 06-10-2022 16:00 in week 40
Proteomics and Metabolomics (CB)

Tuesday 11-10-2022 12:15 - 11-10-2022 16:00 in week 41
Proteomics and Metabolomics (CB)

Tuesday 18-10-2022 12:15 - 18-10-2022 16:00 in week 42
Proteomics and Metabolomics (CB)

Thursday 20-10-2022 14:15 - 20-10-2022 16:00 in week 42
Proteomics and Metabolomics (CB)

Thursday 03-11-2022 14:15 - 03-11-2022 16:00 in week 44
Proteomics and Metabolomics (CB)

Tuesday 08-11-2022 12:15 - 08-11-2022 16:00 in week 45
Proteomics and Metabolomics (CB)

Thursday 17-11-2022 14:15 - 17-11-2022 16:00 in week 46
Proteomics and Metabolomics (CB)

Tuesday 22-11-2022 12:15 - 22-11-2022 16:00 in week 47
Proteomics and Metabolomics (CB)

Thursday 01-12-2022 14:15 - 01-12-2022 16:00 in week 48
Proteomics and Metabolomics (CB)

Tuesday 06-12-2022 12:15 - 06-12-2022 16:00 in week 49
Proteomics and Metabolomics (CB)

Thursday 15-12-2022 14:15 - 15-12-2022 16:00 in week 50
Proteomics and Metabolomics (CB)

Wednesday 21-12-2022 12:15 - 21-12-2022 16:00 in week 51
Proteomics and Metabolomics - Exam (CB)

Thursday 16-02-2023 08:15 - 16-02-2023 16:00 in week 07
Proteomics and Metabolomics - Reexam (CB)