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Bioengineering en -omicsMinor
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Modulecode 

LLS345 

Minorname NL 

Bioengineering en -omics 

Minorname EN 

Bioengineering and -omics 

Study programme

Biotechnology and Biology and Medical Laboratory Research 

Competence(s) 

 

Experimenting, level II; Researching, level II 

Learning outcomes

 

- Students will be able to orientate in the field of biomolecular engineering and genomic research. 

- Students will be able to set up a cloning strategy and execute it in the laboratory. 

- Students will be able to generate and process “big data”. 

- Students will be able to use various genomic software and online tools to investigate functional regions of genetic elements and analyse amino acid sequence regarding composition, properties, homology, structure and function. 

- Students will be able to interpret and report data obtained from molecular cloning and genomic software tools.  

- Students will be able to interpret and report data obtained from research articles. 

- Students will be able to link the use of several genomic techniques to the practical aspects of laboratory experiments.         

Content 

 

Bioengineering is a broad area of activities. It is a discipline that combines many aspects of traditional engineering fields such as chemical, electrical and mechanical engineering. Within the spectrum of activities of bioengineering CRISPR CAS9 (genome editing technique) takes the lead in e.g. CRISPR edited immune cells for cancer therapy, improving IVF (in vitro fertilization), creating seedless tomatoes or creating biofuel. Genetic manipulation of microorganisms, plants and mammalian cells can be used to let these cells produce new molecules and/or knocking out genes encoding for proteins and allowing thus to obtain knowledge about these proteins and consequent metabolic pathways. Targeted knock-outs can be also used to manipulate biological processes in so called metabolic engineering. Manipulating the cell genome brings along changes in transcriptome and metabolome. The holistic approach of -omics (genomics, transcriptomics and metabolomics) allows to shed a light on the consequences of such genetic changes. 

This minor focuses on learning and applying the techniques of CRISPR CAS9 and exploring the consequences of genome editing in silico using -omics approach. Depending on the student choice, students will experience the use of CRISPR CAS9 technology to: 

-  knock-out genes in yeast genome with the aim to prepare genetically modified yeast producing more bioethanol and thus offer sustainable biotechnology method to reduce greenhouse gases, 

- knock-out genes in mammalian cells in order to study and develop the therapy for the diseases caused by mutated genes, 

- engineer immune cells for cancer immunotherapeutic applications. 

To obtain desired result, cloning strategy will be first designed and further carried out in the laboratory. Students will analyse the consequences of the genetic manipulation with respect to the genome, transcriptome and metabolome using various software tools during computer practicums 

This course is intended to mimic the practice of a research group. Students are responsible for their own research and reporting the results by weekly meetings/presentations to the rest of the research groups (students) and their group leaders (lecturers). Additionally, students are motivated to discuss with their the class mates current findings in the bioengineering and -omics field via presenting selected research articles. 

Target groups* 

This course is suitable for motivated students having an interest in learning latest techniques of molecular cloning (CRISPR CAS9) and in learning holistic approach of molecular cloning involving the use of various software for genome/transcriptome and metabolome analysis. 

Students have to have successfully completed basic courses either in Molecular Biology, Molecular Detection, Molecular Medicine or similar courses involving topics of cell, biochemistry, molecular biology and basic cloning techniques. 

Added value* 

Following this course students will enrich their portfolio with the expertise of independent design and execution of molecular cloning experiments, big data interpretation and reporting. Knowledge and skills obtained during this course can improve the student’s chances during job interviews. Especially when requests are focused on molecular cloning techniques using CRISPR CAS9 technology and working in the research group as biotechnology analysts. 

Following this course gives students exceptional opportunity to experience the newest techniques of molecular cloning and to integrate system biology and applied bioinformatics in experimental setup. Holistic approach of investigating the challenges of molecular cloning and its influence on the metabolism of the cell and expression profile will deepen the student’s knowledge in molecular biology. 

Teaching methods and student workload 

 

Students get 30 EC when successfully finalizing the course.  Course consists of six parts (A, B, C, D, E, F): 

 

Part A (Theory): 160 hours 

Lectures 46 hours  

Self-study 110 hours   

Exams 4 hours 

 

Part B (Practical instructions in the laboratory): 64 hours 

Preparation/self-study 16 hours   

Practical instruction 32 hours   

Report 16 hours 

 

Part C (Research design): 66 hours 

Literature study 40 hours   

Tutor meetings 6 hours 

Plan of approach 20 hours   

 

Part D (Laboratory assignment): 262 hours 

Self-study/preparation 97 hours 

Tutor meetings 15 hours 

Practical work in the lab 96 hours 

Work discussions/presentations 46 hours  

Poster presentation 8  

 

Part E (Computer practicums): 260 hours 

Self-study/implementation 143 hours   

Practical instructions 28 hours 

Work discussions/presentations 66 hours 

Report 22 hours 

 

Part F (Self-reflection): 28 hours 

Preparation 22 hours 

Report 6 hours 

Rating scale  

Grade between: 0.1 – 10 

To pass, the results of each examination part must be ≥ 5.5 and/or “sufficient”. 

Assessments 

 

Students are graded based on six assessments. 

 

Assessment A: Theory knowledge is assessed by written exam (open and multiple choice questions) – individual grading. Grading 0.1 – 10. 

  

Assessment B: The practical instruction in the laboratory are assessed by the attendance (mandatory), commitment, lab journal and a report (grade 0.1 - 10) – group grading. 

 

Assessment C: The research design for cloning experiment (for laboratory assignment) is assessed by written plan of approach (Go/NoGo moment) and attendance and active participation during realization of the plan of approachgroup grading. 

 

Assessment D: The practical performance of the course assignment is assessed by the attendance and active participation in the laboratory, at tutor meetings and work discussions (minimum 80%). Data interpretation is assessed by the poster presentation (grade 0.1 – 10) – individual grading. 

 

Assessment E: The computer practicums are assessed by the attendance at computer practicums and presentations (mandatory), commitment and a report (grade 0.1 - 10) – individual grading. 

 

Assessment F: An important feature of an HBO-skilled biotechnology analyst is the ability of self-reflection, even more when we work as a team. The student writes a reflection on his/her function/role in the minor Bioengineering and  -omics. Individual grading, assessed as sufficient/insufficient. 

  

Mandatory literature

No mandatory literature 

Recommended literature:  

Thomas A., Thrive in Genetics, Oxford University Press, 2013, ISBN: 9780199694624  

Primrose S.B. and Twyman R.M., Principles in Gene Manipulation and Genomics, John Wiley And Sons Ltd, 2006, seventh edition, ISBN: 9781405135443 

Modulecategory

STD standard module 

Minorcoördinator 

Martina Sura de Jong, martina.sura@hvhl.nl 

Contactperson information request* 

martina.sura@hvhl.nl 

Language 

English 

Credits 

30 

Type of education* 

Full time 

Offered in terms 

Terms 3 and 4 

Start period* 

 

 

End period* 

 

Mandatory contact hours* 

12 hours per week 

Entry requirements VHL-students

To start the minor student has to have minimum of 75 EC related to Life Sciences & Technology and successfully completed courses LLS105 (Molecular Detection 1), LLS207 (Molecular Detection 2) and LLS121 (Molecular Medicine) 

Entry requirements external students* 

To start the minor student has to have minimum of 75 EC related to Life Sciences & Technology and successfully completed courses of Molecular Biology, including the basic skills in molecular cloning. 

Documents to be submitted before entry* 

Following documents must be send to email martina.sura@hvhl.nl in electronical version: 

  • Overview of current status of obtained ECs together with the list of courses from which the ECs were obtained.  

Capacity  

Maximum: 32 students 

VoertaalEngels
Startmoment
03-02-2020Duur 1 semester
Contactpersoon M Sura (tel: 0582846328, email: martina.sura@hvhl.nl)
Coordinerend onderdeelVan Hall Larenstein
WachtlijstNee
VoorinschrijvingNee
FaculteitAlgemeen
Examenprogramma
Bioengineering en - omics 2018
Bioengineering en - omics 2019
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