Proteomics, 6 credits
Proteomik, 6 hp
TFKE57
Main field of study
Chemical BiologyCourse level
Second cycleCourse type
Programme courseExaminer
Karin EnanderDirector of studies or equivalent
Magdalena SvenssonEducation components
Preliminary scheduled hours: 36 hRecommended self-study hours: 124 h
Available for exchange students
YesCourse offered for | Semester | Period | Timetable module | Language | Campus | ECV | |
---|---|---|---|---|---|---|---|
6CKEB | Chemical Biology, M Sc in Engineering (Protein Science and Technology) | 7 (Autumn 2018) | 1 | 3 | English | Linköping, Valla | C |
6MPRO | Protein Science, Master's Programme (External) | 3 (Autumn 2018) | 1 | 3 | English | Linköping, Valla | C |
6MPRO | Protein Science, Master's Programme (Internal) | 1 (Autumn 2018) | 1 | 3 | English | Linköping, Valla | C |
Main field of study
Chemical BiologyCourse level
Second cycleAdvancement level
A1XCourse offered for
- Master's Programme in Protein Science
- Protein Science, Master's Programme
- Chemical Biology, M Sc in Engineering
Entry requirements
Note: Admission requirements for non-programme students usually also include admission requirements for the programme and threshold requirements for progression within the programme, or corresponding.
Prerequisites
Admission to advanced level studies in Chemical Biology. Protein chemistry, gene technology and biological measurements. Basic knowledge of analytical chemistry and bioinformatics is also recommended.Intended learning outcomes
The aim of the course is to provide a broad knowledge of methods and applications within proteomics. Many of the basic methodological principles (genetic, biochemical, analytical chemical and bioinformatic) have been introduced in earlier courses, but here the student learns how these principles are used within a currently very expansive research area: Global characterisation of the proteome with regard to protein abundance, function, regulation, interactions and localisation in different cell types. Transcriptomics is also discussed. To pass the course, the student should be able to
- describe the relevance and distinctive character of proteomics
- describe and discuss principles and applications of modern methods and strategies to analyse the transcriptome and the proteome
- identify proteins and peptides using mass spectra and genome databases
- summarise the contents of selected original proteomics literature, interpret its message and review it critically
Course content
Quantitative mRNA-analysis with DNA microarrays and other methods. Multi-dimensional protein separation methods (2DGE, 2DLC). Identification of cellular protein contents using enzymatic cleavage, MS- and MS/MS-analysis and genome databases. Protein quantification based on isotope labelling and MS. Analysis of post-translational modifications. Analysis of protein interactions using affinity chromatography, Y2H methodology and protein microarrays. Characterisation of changes of the cellular protein contents following changes in the environment, for e. g. identification of disease biomarkers. Metaproteomics. Human Proteome Atlas.
Teaching and working methods
The course consists of lectures, seminars, demonstrations, and two home assignments.
Examination
UPG2 | Presentation | 1 credits | U, G |
UPG1 | Hand-in assignments | 1 credits | U, G |
TEN1 | Written examination | 4 credits | U, 3, 4, 5 |
Grades
Four-grade scale, LiU, U, 3, 4, 5Department
Institutionen för fysik, kemi och biologiDirector of Studies or equivalent
Magdalena SvenssonExaminer
Karin EnanderEducation components
Preliminary scheduled hours: 36 hRecommended self-study hours: 124 h
Course literature
Twyman, R. M.; ”Principles of Proteomics” 2nd edition. Originalartiklar.Code | Name | Scope | Grading scale |
---|---|---|---|
UPG2 | Presentation | 1 credits | U, G |
UPG1 | Hand-in assignments | 1 credits | U, G |
TEN1 | Written examination | 4 credits | U, 3, 4, 5 |
Course syllabus
A syllabus has been established for each course. The syllabus specifies the aim and contents of the course, and the prior knowledge that a student must have in order to be able to benefit from the course.
Timetabling
Courses are timetabled after a decision has been made for this course concerning its assignment to a timetable module. A central timetable is not drawn up for courses with fewer than five participants. Most project courses do not have a central timetable.
Interrupting a course
The vice-chancellor’s decision concerning regulations for registration, deregistration and reporting results (Dnr LiU-2015-01241) states that interruptions in study are to be recorded in Ladok. Thus, all students who do not participate in a course for which they have registered must record the interruption, such that the registration on the course can be removed. Deregistration from a course is carried out using a web-based form: www.lith.liu.se/for-studenter/kurskomplettering?l=sv.
Cancelled courses
Courses with few participants (fewer than 10) may be cancelled or organised in a manner that differs from that stated in the course syllabus. The board of studies is to deliberate and decide whether a course is to be cancelled or changed from the course syllabus.
Regulations relating to examinations and examiners
Details are given in a decision in the university’s rule book: http://styrdokument.liu.se/Regelsamling/VisaBeslut/622678.
Forms of examination
Examination
Written and oral examinations are held at least three times a year: once immediately after the end of the course, once in August, and once (usually) in one of the re-examination periods. Examinations held at other times are to follow a decision of the board of studies.
Principles for examination scheduling for courses that follow the study periods:
- courses given in VT1 are examined for the first time in March, with re-examination in June and August
- courses given in VT2 are examined for the first time in May, with re-examination in August and October
- courses given in HT1 are examined for the first time in October, with re-examination in January and August
- courses given in HT2 are examined for the first time in January, with re-examination at Easter and in August.
The examination schedule is based on the structure of timetable modules, but there may be deviations from this, mainly in the case of courses that are studied and examined for several programmes and in lower grades (i.e. 1 and 2).
- Examinations for courses that the board of studies has decided are to be held in alternate years are held only three times during the year in which the course is given.
- Examinations for courses that are cancelled or rescheduled such that they are not given in one or several years are held three times during the year that immediately follows the course, with examination scheduling that corresponds to the scheduling that was in force before the course was cancelled or rescheduled.
- If teaching is no longer given for a course, three examination occurrences are held during the immediately subsequent year, while examinations are at the same time held for any replacement course that is given, or alternatively in association with other re-examination opportunities. Furthermore, an examination is held on one further occasion during the next subsequent year, unless the board of studies determines otherwise.
- If a course is given during several periods of the year (for programmes, or on different occasions for different programmes) the board or boards of studies determine together the scheduling and frequency of re-examination occasions.
Registration for examination
In order to take an examination, a student must register in advance at the Student Portal during the registration period, which opens 30 days before the date of the examination and closes 10 days before it. Candidates are informed of the location of the examination by email, four days in advance. Students who have not registered for an examination run the risk of being refused admittance to the examination, if space is not available.
Symbols used in the examination registration system:
** denotes that the examination is being given for the penultimate time.
* denotes that the examination is being given for the last time.
Code of conduct for students during examinations
Details are given in a decision in the university’s rule book: http://styrdokument.liu.se/Regelsamling/VisaBeslut/622682.
Retakes for higher grade
Students at the Institute of Technology at LiU have the right to retake written examinations and computer-based examinations in an attempt to achieve a higher grade. This is valid for all examination components with code “TEN” and "DAT". The same right may not be exercised for other examination components, unless otherwise specified in the course syllabus.
Retakes of other forms of examination
Regulations concerning retakes of other forms of examination than written examinations and computer-based examinations are given in the LiU regulations for examinations and examiners, http://styrdokument.liu.se/Regelsamling/VisaBeslut/622678.
Plagiarism
For examinations that involve the writing of reports, in cases in which it can be assumed that the student has had access to other sources (such as during project work, writing essays, etc.), the material submitted must be prepared in accordance with principles for acceptable practice when referring to sources (references or quotations for which the source is specified) when the text, images, ideas, data, etc. of other people are used. It is also to be made clear whether the author has reused his or her own text, images, ideas, data, etc. from previous examinations.
A failure to specify such sources may be regarded as attempted deception during examination.
Attempts to cheat
In the event of a suspected attempt by a student to cheat during an examination, or when study performance is to be assessed as specified in Chapter 10 of the Higher Education Ordinance, the examiner is to report this to the disciplinary board of the university. Possible consequences for the student are suspension from study and a formal warning. More information is available at https://www.student.liu.se/studenttjanster/lagar-regler-rattigheter?l=sv.
Grades
The grades that are preferably to be used are Fail (U), Pass (3), Pass not without distinction (4) and Pass with distinction (5). Courses under the auspices of the faculty board of the Faculty of Science and Engineering (Institute of Technology) are to be given special attention in this regard.
- Grades U, 3, 4, 5 are to be awarded for courses that have written examinations.
- Grades Fail (U) and Pass (G) may be awarded for courses with a large degree of practical components such as laboratory work, project work and group work.
Examination components
- Grades U, 3, 4, 5 are to be awarded for written examinations (TEN).
- Grades Fail (U) and Pass (G) are to be used for undergraduate projects and other independent work.
- Examination components for which the grades Fail (U) and Pass (G) may be awarded are laboratory work (LAB), project work (PRA), preparatory written examination (KTR), oral examination (MUN), computer-based examination (DAT), home assignment (HEM), and assignment (UPG).
- Students receive grades either Fail (U) or Pass (G) for other examination components in which the examination criteria are satisfied principally through active attendance such as other examination (ANN), tutorial group (BAS) or examination item (MOM).
The examination results for a student are reported at the relevant department.
Regulations (apply to LiU in its entirety)
The university is a government agency whose operations are regulated by legislation and ordinances, which include the Higher Education Act and the Higher Education Ordinance. In addition to legislation and ordinances, operations are subject to several policy documents. The Linköping University rule book collects currently valid decisions of a regulatory nature taken by the university board, the vice-chancellor and faculty/department boards.
LiU’s rule book for education at first-cycle and second-cycle levels is available at http://styrdokument.liu.se/Regelsamling/Innehall/Utbildning_pa_grund-_och_avancerad_niva.
Note: The course matrix might contain more information in Swedish.
I | U | A | Modules | Comment | ||
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1. DISCIPLINARY KNOWLEDGE AND REASONING | ||||||
1.1 Knowledge of underlying mathematics and science (G1X level) |
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X
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1.2 Fundamental engineering knowledge (G1X level) |
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X
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1.3 Further knowledge, methods, and tools in one or several subjects in engineering or natural science (G2X level) |
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X
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TEN1
UPG1
UPG2
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1.4 Advanced knowledge, methods, and tools in one or several subjects in engineering or natural sciences (A1X level) |
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1.5 Insight into current research and development work |
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2. PERSONAL AND PROFESSIONAL SKILLS AND ATTRIBUTES | ||||||
2.1 Analytical reasoning and problem solving |
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X
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TEN1
UPG1
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2.2 Experimentation, investigation, and knowledge discovery |
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2.3 System thinking |
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2.4 Attitudes, thought, and learning |
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X
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X
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TEN1
UPG1
UPG2
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2.5 Ethics, equity, and other responsibilities |
X
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X
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UPG2
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3. INTERPERSONAL SKILLS: TEAMWORK AND COMMUNICATION | ||||||
3.1 Teamwork |
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X
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X
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UPG1
UPG2
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3.2 Communications |
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X
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X
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TEN1
UPG1
UPG2
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3.3 Communication in foreign languages |
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X
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X
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UPG2
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4. CONCEIVING, DESIGNING, IMPLEMENTING AND OPERATING SYSTEMS IN THE ENTERPRISE, SOCIETAL AND ENVIRONMENTAL CONTEXT | ||||||
4.1 External, societal, and environmental context |
X
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4.2 Enterprise and business context |
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4.3 Conceiving, system engineering and management |
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4.4 Designing |
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4.5 Implementing |
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4.6 Operating |
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5. PLANNING, EXECUTION AND PRESENTATION OF RESEARCH DEVELOPMENT PROJECTS WITH RESPECT TO SCIENTIFIC AND SOCIETAL NEEDS AND REQUIREMENTS | ||||||
5.1 Societal conditions, including economic, social, and ecological aspects of sustainable development for knowledge development |
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5.2 Economic conditions for knowledge development |
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5.3 Identification of needs, structuring and planning of research or development projects |
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5.4 Execution of research or development projects |
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5.5 Presentation and evaluation of research or development projects |
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