Bioinformatics Profile

Introduction

Today’s life sciences scientist needs to be able to deal with large amounts of biological data that come from high-throughput experimental techniques. Therefore a solid understanding of biological processes combined with bioinformatic and statistical knowledge on how to handle and analyze such large datasets is an essential skill. The Bioinformatics profile provides them with a much needed essential set of bioinformatics skills for future life science research.

The Bioinformatics profile consist of multiple bioinformatics courses that introduce life science students into techniques and algorithms that are used in bioinformatics. Those topics include an overview of the bioinformatics field, and introduction into programming/scripting and analysis of large datasets using the [R] statistical programming language. Also, students will learn hands-on more advanced bioinformatics techniques embedded in research groups by doing an internship


I want to start with this bioinformatics profile

Great, and welcome to the Bioinformatics Profile!

This profile is a research-oriented profile, which means, we like you to do a minor research internship. Why? Well, the most optimal route for a scientist to be able to find a job in research is the route that gives you the most experience in doing actual research. An internship is aimed to do just that. What this profile does is adding in a flavour of bioinformatics to your research experience.

Bioinformatics nowadays has become just as an important tool as was PCR 15-20 years ago; you cannot do without when analysing data from large (BIG) data sets that are often generated in the life sciences. Therefore the internship or project, preferably a minor ‘stage’, is central in this profile. However, to be able to add a significant bioinformatics part to your internship or project you need to have some basic bioinformatics skills, such as Programming (in Python) and how to perform an analysis in a relevant (statistical) environment such as the [R] language. These are offered as core courses. Also, a good idea about the bioinformatics field, as given in the introduction to bioinformatics is required.

We recommend to follow these courses already during the first year of your masters or as early as possible, as without at least programming and [R] knowledge an internship or research project is not possible.

When sufficient prior knowledge is present, you can also choose to take one of the more advanced bioinformatics courses that we offer.

Before you start with this profile, you need to make sure you have approval from your master’s programme coordinator. To be admitted to the profile, please contact our profile coordinator (b.vanbreukelen@uu.nl) and discuss your ideas and plans. Also at that time, we can plan the courses you like to attend so that we can make the proper arrangements for you to ensure a place in those courses (as they are often oversubscribed).

Than: Download the General Application Form from the GSLS website, have it signed by the profile coordinator AND your master’s programme coordinator!

NextProvide the required information about you and your background. You can do this using the form below!! (or send an email directly to the coordinator).

Once you are enrolled:

You will get an account on our elearning.ubc.uu.nl environment on which we have a Bioinformatics Profile section, where we would like you to update your progress into the profile. Moreover, it has an option to provide feedback to courses (anonymous), and you can submit your internship or project proposal. Keeping this part up-to-date is mandatory.

FinallySigning up for the bioinformatics profile is optional, starting means finishing it.

 

VERY IMPORTANT: As a profile student you have priority in the courses. However, you still need to register for each course in time! When you are too late, even the coordinator of the profile cannot guarantee a seat in the courses.
The three core courses are heavily oversubscribed. To ensure a spot for you in this course, you need to, (when signing up), provide in the CSnD registration form the following information: When asked for your masters (e.g. MCLS, CSnD etc., also write down Bioinformatics.. like so: MCLS-Bioinformatics, CSnD-Bioinformatics etc…) If you fail to do so, you might not be able to attend these courses!!!”

Information on Internship (33 EC) or Project 18 (EC)

An essential step into learning bioinformatics is actually to use (apply) it in a research setting. Therefore doing an internship (or project) is one of the most critical parts of the Bioinformatics Profile.

In case you are doing the 45 EC extended profile you have opted for a 33 EC minor research internship. This internship can be done anywhere in the world and can be in a company, institute or university. There are a few rules; however, at this company, there needs to be a bioinformatician that is your, daily, supervisor. Also, you need to have at least finished with a positive grade the core courses or equivalent which are an introduction to bioinformatics, introduction to R and introduction to Python. Furthermore, you will have to provide the profile coordinator with the project description of this internship so that he can estimate the level and amount of bioinformatics. Please note: You are allowed to combine wet lab work with bioinformatics, as long as the amount of bioinformatics is the significant part of the internship. When you have finished your internship, you will send your report to the bioinformatics profile coordinator for the final check of the bioinformatics in this project. (P.S. in case you cannot find a UU examiner for this internship you may contact the Bioinformatics Profile coordinator he/she can be an examiner as well.

In case of the 33 EC profileyou have opted for the 18 EC minor project. This project is not an actual internship, however, we have almost the same rules as for the minor-internship (see above). The only difference is that the Bioinformatics Profile Coordinator has to be one of the examiners and that you fill out the GSLS form with the  B-MBIPR Osiris code.  Secondly, this minor project has to be within the Utrecht University.

Finally: You have to submit all requests and final reports to the elearning.ubc.uu.nl environment. 

Components

The Bioinformatics-profile is offered as a standard (core) profile (33 EC) or an extended profile for those students with available electives (extra 12 EC).

–          Core Bioinformatics Profile (33 EC): this profile comprises three core (bold) courses of 6 EC total,  a selection of bioinformatics courses totaling another 9 EC and a bioinformatics project of (18 EC)

–          Extended Bioinformatics Profile (45 EC): this profile  comprises three core (bold) courses of 6 EC total,  a selection of bioinformatics courses totaling another 6 EC and an Internship Bioinformatics  (equal to a minor project of 33 EC). The extended profile is our preferred way of offering this profile.

Bioinformatics Courses

Course Name Osiris-code  EC Date # students
Introduction to Bioinformatics for Life Sciences B-MINBI08 3 Period

15-10-2018

and

25-02-2019

30(20 masters)
Introduction to Python for Life Sciences BMB465014 1.5 Period

01-10-2018

11-02-2019

30(20 masters)
Introduction to R for Life Sciences BMB502214 1.5 Period

08-10-2018

18-02-2019

30(20 masters)
Bioinformatics and evolutionary genomics B-MBIEG06 3 11-03-2019
Structural Bioinformatics & Modelling SK-MSTBIMO 3 21-01-2018 20
Advanced R for Life Sciences B-MADR 1.5 01-04-2019 30
Advanced Omics for Life Science BMB502316 1,5  06-05-2019  20
Introduction to Research Data Management B-MINRDM  3  e-learning
Analytics Algorithms for Omics for the Life Sciences  BMB.. 3 03-06 2019  20
Microbial Genomics B-MCMIGE  3 8-04-2019  tbd
Choose either a Project (Core Profile) or Internship (extended Profile) CLICK HERE TO SEE A LIST OF PROJECT and INTERNSHIPS in our community  B-MBIPR 18  project
Internship Bioinformatics (RUBRICS PDF) 33