4-5 April 2019
RSBI (@RoBioinfo) and Faculty of Biology, Alexandru Ioan Cuza University of Iași
Aim: The workshop is aimed at master and PhD students as well as young researchers working with protein sequences and structures. Several core bioinformatics techniques of sequence similarity searching as well as the UniProt database will be discussed. The workshop will also provide hands-on experience of exploring and analyzing the 3D macromolecular structure data available in the Protein Data Bank (PDB).
Applicants will be asked to write a 200-word motivational letter, in which they explain 1. why the course is important for their career development 2. why they should be the ones selected to participate in the training, and not others.
In the past, we have received three times more applications than the number of available spots in the trainings. To avoid disappointment, please make sure that you do your best to convince us that you are the best person to participate in the training.
Requirements: Basic (undergrad level) understanding of Molecular Biology and Protein structure is a must. No prior experience of bioinformatics is required.
Schedule: TBD, as a draft:
|9:00 – 9:30||Welcome note and coffee||Organisers|
|9:30 – 11:00||(hands on) Introduction to programming. Useful commands in Unix shell and Python||Claudiu Mihăilă|
|11:00 – 11:30||Coffee break|
|11:30 – 12:30||Sequence searching and alignments. Basic introduction in sequence similarity searching and sequence homology (DNA/RNA vs proteins sequences) (Part I)||TBD|
|12:30 – 13:30||Lunch|
|13:30 – 15:00||Sequence searching and alignments. Basic introduction in sequence similarity searching and sequence homology (DNA/RNA vs proteins sequences)(Part II)||TBD|
|15:00 – 15:30||Talk||TBD|
|15:30 – 16:00||Coffee Break|
|16:00 – 18:00||Protein sequence and Function (UniProt, Gene Ontology) – UniProt database to identify information about all aspects of a protein of interest.||TBD|
|9:30 – 10:30||(hands on) Introduction to programming. Programmatic access to public databases and data retrieval||Claudiu Mihăilă|
|10:30 – 11:00||Coffee Break|
|11:00 – 12:30||Introduction to macromolecular structure at the PDBe. Retrieve and assess the quality of structural data from the PDB, Visualise and analyse structures||TBD|
|12:030 – 13:30||Lunch|
|13:30 – 15:00||Analysing macromolecular structures at the PDBe. Assess protein-ligand interactions and analyse binding sites (I)||TBD|
|15:00 – 15:30||Coffee break|
|15:30 – 15:55||Analysing macromolecular structures at the PDBe. Assess protein-ligand interactions and analyse binding sites (II)||TBD|
|15:55 – 16:20||Talk||TBD|
|16:20 – 17:00||Panel Discussion: AI’s contribution to construct predictions of protein structures.||All speakers and trainers|
|16:45 – 17:00||Farewell|
|18:30||Beer and science event|
Monica Abrudan (Cambridge, UK)
Claudiu Mihăilă (London, UK)
Marius Mihășan (Iași, Romania)
Bogdan Mirăuță (Cambridge, UK)