Module 1: Databases and Resources

Module topics

  • Biological databases and resources (NCBI, EBI)
  • Advanced literature searching – PubMed
  • DNA analysis – e.g. sequence features, start site, restriction sites etc.
  • Protein function classification

Resources

SessionLecture RecordingsLecture SlidesPractical Assignments
11. Module1_Session1_part1
2. Module1_Session1_part2
3. Module 1_Session1_part3
4. Module1_Session1_part4
5. Module1_Session1_part5
6. Module1_session1_part6
7. Module1_Session1_Practical_Assign
IBT_Databases_and_ResourcesModule1_session1_assignment
21. Module1_Session2_part1
2. Module1_Session2_part2
3. Module1_Session2_part3
4. Module1_Session2_part4
5. Module1_Session2_Practical_Assign
IBT_Literature_SearchingModule1_session2_assignment
31. Module1_Session3_part1
2. Module1_Session3_part 2
IBT_DNA_seq_analysisModule1_Session3_assignment
41. Module1_Session4_part1
2. Module1_Session4_part2
3. Module1_Session4_part3
IBT_Protein_Databases_ResourcesModule1_Session4_assignment

Trainers

 

Shaun Aron

Affiliation: University of Witwatersrand; H3ABioNet

Shaun Aron has been a member of Wits Bioinformatics since 2007 when he joined as an MSc student in Human Genetics/Bioinformatics. After completing an Honours degree in Human Genetics, he was intrigued by the computational approaches being developed to address complex biological questions and decided to hang up the pipette and pick up a computer instead. His MSc aimed to apply relevant bioinformatic techniques to characterise and possible identify the molecular cause for a rare genetic skin disorder called Keratolytic Winter Erythema. While completing his MSc he joined Wits Bioinformatics as an Associate Lecturer/Consultant in 2009 and has been involved in various teaching, training and consulting activities within the university. In 2013 he took up the position of H3ABioNet Bioinformatics Consultant/Trainer at the Wits Node of H3ABioNet. Shaun has a keen interest in the genetic basis of rare genetic disorders, population genetics and the practical application of bioinformatics for biologists. He is also actively involved in the education and training endeavours of the H3ABioNet and H3Africa AWIGEN project.

 

Nicola Mulder

Affiliation: University of Cape Town; H3ABioNet

Professor Mulder heads the Computational Biology Division (CBIO) at the University of Cape Town (UCT). She graduated with a BSc degree (cum laude) in Chemistry and Microbiology, and a first class Honours degree in Microbiology, followed by a PhD in Medical Microbiology. She then spent over 8 years at the European Bioinformatics Institute (EBI) in Cambridge, moving into the area of bioinformatics. At the EBI she was a Team Leader, responsible for the development of InterPro and the Gene Ontology Annotation Project. InterPro was one of the most heavily used Bioinformatics resources at the Institute. At UCT, Prof Mulder works in the area of bioinformatics of infectious diseases, including pathogen and host genomics and biological networks, human variation and disease association studies. She heads the CBIO group, which consists of over 30 staff and students. The group provides bioinformatics support and education and training for postgraduate students and local researchers. Prof Mulder convenes an Honours programme in Bioinformatics, and organises a South African national bioinformatics training course for postgraduate students. Internationally, she is involved in capacity development in Africa, as leader of a large NIH-funded consortium, H3ABioNet, to build a Pan-African Bioinformatics network for H3Africa. Prof Mulder is also a member of several Scientific Advisory Boards, including ELIXIR, which forms part of a major EU funded European initiative involving all the bioinformatics stakeholders in Europe and many others world-wide. She is a founding member of the Global Organisation for Bioinformatics Learning, Education & Training (GOBLET), and is on the executive committee of the African Institute for Mathematical Sciences, as well as a number of review boards.