Introduction Week

An introduction to the IBT course logistics and to the field of bioinformatics.

Session 1 – Welcome to the course! Outline:  Introduction week – session 1 outline

Session 2 – What is bioinformatics? Day plan: IBT day plan – What is Bioinformatics

Resources

SessionLecture RecordingsLecture SlidesActivity
1
1. IBT_introduction_part1
2. IBT_introduction_part2
3. IBT_introduction_part3
4. IBT_introduction_part4
5. IBT_introduction_part5
6. IBT_introduction_part6
7. IBT_introduction_part7
8. IBT_introduction_part8
9. IBT_introduction_part9
1. IBT_introduction_part1
2. IBT_introduction_part2
3. NA
4. IBT_introduction_part4
5. IBT_introduction_part5
6. IBT_introduction_part6
7. IBT_introduction_part7
8. IBT_introduction_part8
9. IBT_introduction_part9
Classroom bio - written:
written bio

Classroom bio - video:
video instructions
slide template
2*0. Intro videos:
Pedro - Pedro_Fernandes_intro
David - David_Judge_intro
1. What.is.Bioinformatics.part1
2. What.is.Bioinformatics.part2
3. What.is.Bioinformatics.part3
4. What.is.Bioinformatics.part4
5. What.is_.Bioinformatics.part5
0. Intro transcripts:
Pedro - Pedro_Fernandes-intro
David - David_Judge-intro
1. What.is.Bioinformatics.part1
2. What.is.Bioinformatics.part2
3. What.is.Bioinformatics.part3
4. What.is.Bioinformatics.part4
5. What.is.Bioinformatics.part5
what_is_bioinformatics

*for additional information and interesting links, be sure to click on the hyperlinks embedded in the lecture slides for session 2

Trainers

 

Kim Gurwitz

Session 1

Affiliation: University of Cape Town; H3ABioNet

Kim is a Training and Communication Officer at the University of Cape Town (UCT) branch of H3ABioNet. She graduated from UCT with a Masters degree in Medical Biochemistry in 2016 under the supervision of Professor Jonathan Blackburn.  Her thesis was an in vitro analysis of ‘how HIV affects the brain’ using neuronal stem cell culture and mass spectrometry-based proteomics techniques. During her postgraduate study, Kim was selected to a 3-month programme for emerging leaders in science at Novartis Pharmaceuticals in Switzerland, where she worked on a Bioinformatics research project and obtained leadership and communication training. In addition, she interned at the Weizmann institute for Science in Israel on a 3-month scientific fellowship in Bioinformatics. Kim is passionate about science education. To this end, she has been involved in various education projects, in her work for H3ABioNet, and in communicating science to the public, such as through her involvement in the organisation of the ‘Pint of Science’ South Africa festival.

 

 

Pedro L Fernandes

Session 2

Affiliation: Instituto Gulbenkian de Ciência

Pedro Fernandes graduated in Electronics and Telecommunications Engineering at IST (U.T. Lisboa). He worked in Biomedical Engineering, Biophysics and Physiology and changed to Bioinformatics in 1990. He established the first user community in Portugal around the national service provided by the Portuguese node of the EMBnet. In 1998 he created the Gulbenkian Training Programme in Bioinformatics. The GTPB has provided user skills to more than 4800 course attendees throughout its seventeen years of existence. The GTPB has also been used to systematically introduce and test improvements in training techniques. In 2002, in cooperation with Mario Silva from FCUL, he designed a pioneering graduate Programme in Bioinformatics, PGBIOINF. He currently teaches Bioinformatics both in graduate and undergraduate programmes. He is a founding member of the Global Organisation for Bioinformatics Education and Training – GOBLET. He is the Head of the Education and Training SIG in EMBnet and serves as Training Coordinator for Portugal in ELIXIR, the organisation that is developing a distributed infrastructure for life-science information in Europe. He is an invited researcher of the Medical School of the University of Porto, FMUP, where he supports distance learning in post-graduate courses for physicians and nurses. Researcher ID: A-9618-2010 | ORCID ID: 0000-0003-2124-0241

 

 

David P Judge

Session 2

Affiliation: Freelance independent Bioinformatics instructor. Formerly, Bioinformatics Training Programme coordinator, University of Cambridge, Department of Genetics, Cambridge

David P Judge is a Computer Scientist that teaches Bioinformatics since 1985. He has run the Bioinformatics Training Facility housed at the Department of Genetics in the University of Cambridge until 2015, providing the necessary environment for graduate and undergraduate courses, on top of a comprehensive training programme in cooperation with the European Bioinformatics Institute, the Wellcome Trust Sanger Institute. He teaches Bioinformatics in several international training programmes and is regularly invited to teach in many places in Europe, Asia, Africa and America. His course notes and exercises are well known in the international community of Bioinformatics professionals and users, many of which (difficult to count) have had their first contact with Bioinformatics through him. David pioneered Bioinformatics Training at the Instituto Gulbenkian de Ciência, in Portugal, in 1986, in the scope of a MSc course. He collaborates in Gulbenkian Training Programme in Bioinformatics regularly since its inception in 1999, several times per year.