Literature DB >> 23640570

Teaching the bioinformatics of signaling networks: an integrated approach to facilitate multi-disciplinary learning.

Tamas Korcsmaros1, Zsuzsanna A Dunai, Tibor Vellai, Peter Csermely.   

Abstract

The number of bioinformatics tools and resources that support molecular and cell biology approaches is continuously expanding. Moreover, systems and network biology analyses are accompanied more and more by integrated bioinformatics methods. Traditional information-centered university teaching methods often fail, as (1) it is impossible to cover all existing approaches in the frame of a single course, and (2) a large segment of the current bioinformation can become obsolete in a few years. Signaling network offers an excellent example for teaching bioinformatics resources and tools, as it is both focused and complex at the same time. Here, we present an outline of a university bioinformatics course with four sample practices to demonstrate how signaling network studies can integrate biochemistry, genetics, cell biology and network sciences. We show that several bioinformatics resources and tools, as well as important concepts and current trends, can also be integrated to signaling network studies. The research-type hands-on experiences we show enable the students to improve key competences such as teamworking, creative and critical thinking and problem solving. Our classroom course curriculum can be re-formulated as an e-learning material or applied as a part of a specific training course. The multi-disciplinary approach and the mosaic setup of the course have the additional benefit to support the advanced teaching of talented students.

Entities:  

Keywords:  domain; epistasis; network; protein–protein interaction; signaling; university teaching

Mesh:

Year:  2013        PMID: 23640570     DOI: 10.1093/bib/bbt024

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN: 1467-5463            Impact factor:   11.622


  8 in total

1.  The application of project-based learning in bioinformatics training.

Authors:  Laura R Emery; Sarah L Morgan
Journal:  PLoS Comput Biol       Date:  2017-08-17       Impact factor: 4.475

2.  Training for translation between disciplines: a philosophy for life and data sciences curricula.

Authors:  K Anton Feenstra; Sanne Abeln; Johan A Westerhuis; Filipe Brancos Dos Santos; Douwe Molenaar; Bas Teusink; Huub C J Hoefsloot; Jaap Heringa
Journal:  Bioinformatics       Date:  2018-07-01       Impact factor: 6.937

3.  MicrobioLink: An Integrated Computational Pipeline to Infer Functional Effects of Microbiome-Host Interactions.

Authors:  Tahila Andrighetti; Balazs Bohar; Ney Lemke; Padhmanand Sudhakar; Tamas Korcsmaros
Journal:  Cells       Date:  2020-05-21       Impact factor: 6.600

4.  Integrative analysis of Paneth cell proteomic and transcriptomic data from intestinal organoids reveals functional processes dependent on autophagy.

Authors:  Emily J Jones; Zoe J Matthews; Lejla Gul; Padhmanand Sudhakar; Agatha Treveil; Devina Divekar; Jasmine Buck; Tomasz Wrzesinski; Matthew Jefferson; Stuart D Armstrong; Lindsay J Hall; Alastair J M Watson; Simon R Carding; Wilfried Haerty; Federica Di Palma; Ulrike Mayer; Penny P Powell; Isabelle Hautefort; Tom Wileman; Tamas Korcsmaros
Journal:  Dis Model Mech       Date:  2019-03-18       Impact factor: 5.758

5.  Targeted interplay between bacterial pathogens and host autophagy.

Authors:  Padhmanand Sudhakar; Anne-Claire Jacomin; Isabelle Hautefort; Siva Samavedam; Koorosh Fatemian; Eszter Ari; Leila Gul; Amanda Demeter; Emily Jones; Tamas Korcsmaros; Ioannis P Nezis
Journal:  Autophagy       Date:  2019-03-25       Impact factor: 16.016

6.  The why, when, and how of computing in biology classrooms.

Authors:  April M Wright; Rachel S Schwartz; Jamie R Oaks; Catherine E Newman; Sarah P Flanagan
Journal:  F1000Res       Date:  2019-11-05

7.  A constructivist-based proposal for bioinformatics teaching practices during lockdown.

Authors:  Cristóbal Gallardo-Alba; Björn Grüning; Beatriz Serrano-Solano
Journal:  PLoS Comput Biol       Date:  2021-05-13       Impact factor: 4.475

8.  Bioinformatics tools for marine biotechnology: a practical tutorial with a metagenomic approach.

Authors:  Ludovica Liguori; Maria Monticelli; Mariateresa Allocca; Maria Vittoria Cubellis; Bruno Hay Mele
Journal:  BMC Bioinformatics       Date:  2020-08-21       Impact factor: 3.169

  8 in total

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