Following what is happening around the world, in Portugal, Bioinformatics has experienced an outstanding growth over the past few years.
This is reflected academically through the development of prestigious post-graduations and in the economical/business sector with the establishment of new startup companies with international connections.
Bioinformatics Open Days is a student-led initiative, first held at University do Minho, Braga, in 2012. It aims to promote the exchange of knowledge between students, teachers and researchers from the Bioinformatics and Computational Biology fields.
This year we will be celebrating the 10th Edition of Bioinformatics Open Days and the 5th Anniversary of ELIXIR Portugal. This event will be ONLINE, with the stream being held in the University of Minho, from May 5th to 8th.
The organizing committee of BOD is glad to announce that the registrations for this year’s edition are now OPEN!
In order to register to one of our workshops please use the following link [Workshop Registration].
The overview program for this event.
Here’s the selection of this edition’s speakers.
Niklas Blomberg is ELIXIR’s Executive Director. Before joining ELIXIR in 2013, he worked as a Principal Scientist and Team Leader in Computational Chemistry and Computational Biology at AstraZeneca (1999-2013). Niklas has a lot of experience in coordinating EU H2020 projects. In the past, he has coordinated ELIXIR-EXCELERATE, a project to develop the ELIXIR infrastructure, and CORBEL. Currently, he is coordinating EOSC-Life, which aims to build a collaborative digital space for European life science research, and ELIXIR-CONVERGE, a project to help standardize life science data management across Europe.
Arlindo Oliveira is a Distinguished Professor at Instituto Superior Técnico (IST). Arlindo is the former president of IST and current president of INESC. His research focuses mainly in algorithms and complexity, machine learning, bioinformatics and digital circuit design having contributed hugely to the progress of the collaboration between life sciences and computation, crucial in the time being.
Celia van Gelder is a Training Programme Manager at the Dutch Techcentre for Life Sciences (DTL). Celia is a manager, coordinator and trainer with extensive experience in initiating and managing bioinformatics education & training projects at institute, national and international level. She also co-leads the ELIXIR Training Platform, which intends to build a sustainable training infrastructure in Europe.
Miguel Rocha is an Associate Professor at the Universidade do Minho. Miguel leads the Bioinformatics and Systems Biology research group at the Centro de Engenharia Biológica (CEB) and teaches subjects related to bioinformatics, natural computation, data mining / machine learning at the Informatics Department of Universidade do Minho being also the director of the MSc in Bioinformatics, a degree he co-founded in 2007.
Pedro Beltrão is the leader of the Evolution of Cellular Networks group at EMBL-EBI. In the scope of his Biology PhD at the University of Aveiro, he researched at EMBL-Heidelberg and further conducted postdoctoral research at the University of California, San Francisco. His studies concentrated on the divergence of cellular functions during evolution and how these divergences steer differently in pathogenic pathways, and assistance in data analysis on the SARS-CoV-2 virus. Pedro’s research group is developing a general propose framework to predict the molecular consequences of DNA changes and using these to guide genotype-phenotype associations.
Christopher Henry is a computational biologist at the mathematics and computer science division of Argonne National Laboratory (ANL). He obtained his PhD studying Biochemical Thermodynamics and E. coli metabolism at Northwestern University. His primary research focuses on the prediction of phenotype from genome through the use of comparative genomics, metabolic modeling, and dynamic cellular community models, and his team is involved in several projects with the University of Chicago.
Núria Lopez-Bigas is an ICREA Researcher Professor at the Institute for Research and Biomedicine (IRB) in Barcelona where she also leads the Biomedical Genomics Research Group. Besides her PhD in Biology, Núria has expertise in Medical Genetics, Computational Biology, and Bioinformatics. Her research concentrates on the study of cancer from a genomics perspective. Particularly, her research group attempts to understand mutational processes finding cancer drivers (such as mutations, genes, and pathways) and contributing to precision cancer medicine. Her lab had important achievements such as the development of IntOGen, which is a discovery tool for cancer research, and pioneer methods to identify driver genes (Oncodrive methods).
The companies present in this edition’s network session.
João Capela | João Correia | Tiago Sousa
Chemoinformatics (often referred to as chemical informatics or cheminformatics) is a field of study that combines chemistry, computer, and information sciences. In addition to inferring simple information like systematic names and chemical formulas, primary applications of this field include the storage, indexation, and mining of information related to chemical structures such as molecular functional groups, docking sites, chemical, and physical properties. In this workshop, introductory topics related to the field of chemoinformatics will be explored using python. Firstly, various molecule computational representations will be approached, being followed by similarity and substructure matching techniques using molecular fingerprints, SMARTS notations, and Scaffolds. The workshop will also focus on analyzing large datasets of compounds resorting to unsupervised exploration and Machine and Deep Learning techniques.
Data-driven Molecular Design: importance of data interpretation and pipeline interpretability on artificial intelligence targeting biological problems.
Carlos H. Cruz | Diana Lousa
Designing proteins with optimal properties for a given objective is a long scientific quest, which has seen great advances in recent years. As examples, protein scientists have been able to design fluorescent proteins with specific properties from scratch and develop potent protein inhibitors to fight COVID-19 and other diseases. For this, they used sophisticated algorithms that are able to design and/or engineer protein sequences to achieve the desired goal. This workshop presents the basic concepts of structure-based computational protein design methods and provides a hands-on tutorial for designing proteins by motif-driven design techniques using the Rosetta software. The method consists in grafting a target motif (e.g. a domain that interacts with a partner protein) onto a scaffold protein (i.e. a protein with a stable structure). A scaffold library is used to select appropriate scaffold proteins, which are then used to graft the motif of interest. The next step is to redesign the interface and evaluate the best candidates by structural and thermodynamics metrics. The aim of the workshop is to introduce beginners to computational protein design methods using the Rosetta software.
The FIRST BOD challenge!
Cheers to the ones who helped us in this journey!