Bioinformatics Bootcamp for Engineers

Date:
18/09/2017 09:00 - 19/09/2017 18:00
Institution:
BIB i COEINF (Col·legi d'Enginyeria en Informàtica de Catalunya) en representació d'Enginyers de Catalunya
Venue:
COEIC - Via Laietana, 37 2n (Barcelona, Spain)
Type of Event:
Course
Language:
English
Registration website:
Please register at "inscripció general" at COEIC

Summary

Why a course on bioinformatics for engineers?

Bioinformatics is by definition an interdisciplinary field, but transitioning from an engineering background into bioinformatics requires more than a mere introduction to biology. Bioinformatics deals with algorithms and computer systems dedicated to the analysis of large datasets of biological information. From an engineering point of view, therefore, biologists are the clients and, as a result, biology itself informs many of the decisions that can and must be made when designing bioinformatics algorithms, pipelines and their deployment on hardware resources.

Why a boot camp course?

Biology and the biomedical sciences comprise a very large domain of science that encompasses many subfields with myriad bioinformatics applications. It is hence impossible to cover a significant part of this broad expanse in any short introductory course, and when attempted, such courses readily induce information overload. This course focuses on two more immediate endeavors: showing participants what the field has to offer and breaking down the perceived barriers to entrance.

What to get out of it?

This boot camp course has been designed to give you the three most essential elements in approaching bioinformatics:

  1. the conceptual basis for the most common lexicon in modern biology
  2. a hands-on view of the nature, scope and format of the problems
  3. data wrangling and interactive insight into the methods, practices and operational framesets of modern biology.

Armed with these, you should be able to approach collaborative projects in bioinformatics, interact with biologists to establish partnerships, approach primary literature in biomedicine and identify areas on which to seek further training in bioinformatics.

How will I learn?

The course will combine traditional lecturing with hands-on practice. The hands-on component will comprise team-based literature reading, discussion and hands-on data anlysis. Working in small groups, participants will try to digest articles in different areas of experimental biology that make use of bioinformatics solutions, focusing on the experimental methods while analyzing how the two approaches can be effectively combined to probe further into open problems in current biology.

Description / Information

What will I learn?

Monday, 18th September:

  1. Biology as a compunting paradigm: Introduction to molecular biology with a focus on information processing, essential concepts in molecular biology, central dogma, evolution and information processing.
  2. Experimental methods in biomedial research: Experimenting design, controls and replicantes, molecular biology and high-throughput methods. Critical reading of molecular biology manuscripts anb team-based discussion; hypothesis, evidence and methods.
  3. Essential bioinformatics: Genome assembly, alignment and sequence search; dynamic programming, computacional issues and search strategies, multiple sequence alignment, parallelization. Guided exercices on main bioinformatics repositories, BLAST flavors
  4. Microbiome research: Microbiome and hologenome, bacteria in human health and the environment

Tuesday, 19th September:

  1. Microbiome research: Metagenomics, concepts and approaches, 16S and deep-sequencing, environmental human microbiome analysis, computacional challenges critital reading of microbiome analysis manuscripts; team-based discussion
  2. Cancer biology: Guided exercices on microbiome data analysis. Cancer as a disease, tumor stages, critical pathways, chemo-, radio-, and immunotherapy, metastasis and resistance. Bioinformatics approaches to cancer and therapy. Critial reading of experimental cancer manuscripts using bioinformatics approaches; team-based discussion. guided exercices on cancer data analysis.

You can find attached the COURSE PROGRAMME.

Faculty

  • Ivan Erill. Bootcamp coordinator and teacher. Associate Professor of Bioinformatics at the University of Maryland Baltimore County. B.S. and Ph.D. in Computer Sciences from the Universitat Autònoma de Barcelona. His professional experience spans the development of bioinformatics algorithms, biomedical microdevices and biological databases, as well as research in biological information processing, comparative genomics and transcriptional regulation. He leads a research group working on comparative genomics and metagenomics of transcriptional regulatory systems in bacteria, bacteriophage genomics and the development of ontology-assisted text-mining tools.
  • Julia Ponomarenko. Unit Leader, Bioinformatics Unit, Centre for Genomic Regulation (CRG)
  • David Torrents. Computational Genomics Group Manager, Life Sciences Department, Barcelona Supercomputing Center (BSC)
  • Miguel Angel Peinado. Group Leader Mechanisms of Tumor Progression Group, Institut de Medicina Predictiva i Personalitzada del Càncer (IMPPC)
  • Eduard Monsó. Director, Pneumology Unit, Hospital de Sabadell. Parc Taulí
  • Gemma Marfany. Professor, Department of Genetics, Universitat de Barcelona (UB)
  • Cédric Notredame. Group Leader, Comparative Bioinformatics, Centre for Genomic Regulation (CRG)

Fees

Places: 20 places offered

Prices: prices include the course plus the coffee breaks and lunch:

  • BIB members and associated members of Enginyers de Catalunya (*): 310 €
  • Adhered companies to Enginyers de Catalunya: 405 €
  • Others: 480 €

Registration: "inscripció general" at COEIC

(*) Enginyers de Catalunya: is a Working Group that brings together institutions representing professionals from engineering fields in Catalonia: Industrial, Civil, Agriculture, Telecommunications, Computer and Software engineers.

Requirements

You do not need to bring your own laptop as the classroom will have computers ready-to-use with the software needed.

Contact

For further information drop us an email to comunicacio(ELIMINAR)@bioinformaticsbarcelona.eu