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Article
The Bioinformatics Virtual Coordination Network: An Open-Source and Interactive Learning Environment
Frontiers in Education
  • Benjamin J Tully, University of Southern California
  • Joy Buongiorno, Maryville College
  • Ashley B Cohen, Stony Brook University
  • Jacob A Cram, University of Maryland Center for Environmental Science
  • Arkadiy I Garber, Arizona State University at the Tempe Campus
  • Sarah K Hu, Woods Hole Oceanographic Institution
  • Arianna I Krinos, MIT-WHOI Joint Program in Oceanography/Applied Ocean Science and Engineering
  • Philip T Leftwich, University of East Anglia
  • Alexis J Marshall, Te Aka Matuatua School of Science
  • Ella T Sieradzki, University of California - Berkeley
  • Daan R Speth, California Institute of Technology
  • Elizabeth A Suter, Molloy College
  • Christopher B Trivedi, GFZ Research Centre for Geosciences
  • Luis E Valentin-Alvarado, University of California - Berkeley
  • Jake L Weissman, University of Southern California
  • BVCN Instructor Consortium, BVCN Instructor Consortium
Document Type
Peer-Reviewed Article
Publication Date
10-14-2021
Version
Publisher's PDF
Publisher's Statement
Open Access funder and institutional mandates: Frontiers is fully compliant with open access mandates, by publishing its articles under the Creative Commons Attribution licence (CC-BY). Funder mandates such as those by the Wellcome Trust (UK), National Institutes of Health (USA) and the Australian Research Council (Australia) are fully compatible with publishing in Frontiers. Authors retain copyright of their work and can deposit their publication in any repository. The work can be freely shared and adapted provided that appropriate credit is given and any changes specified.
DOI
10.3389/feduc.2021.711618
Abstract

Lockdowns and “stay-at-home” orders, starting in March 2020, shuttered bench and field dependent research across the world as a consequence of the global COVID-19 pandemic. The pandemic continues to have an impact on research progress and career development, especially for graduate students and early career researchers, as strict social distance limitations stifle ongoing research and impede in-person educational programs. The goal of the Bioinformatics Virtual Coordination Network (BVCN) was to reduce some of these impacts by helping research biologists learn new skills and initiate computational projects as alternative ways to carry out their research. The BVCN was founded in April 2020, at the peak of initial shutdowns, by an international group of early-career microbiology researchers with expertise in bioinformatics and computational biology. The BVCN instructors identified several foundational bioinformatic topics and organized hands-on tutorials through cloud-based platforms that had minimal hardware requirements (in order to maximize accessibility) such as RStudio Cloud and MyBinder. The major topics included the Unix terminal interface, R and Python programming languages, amplicon analysis, metagenomics, functional protein annotation, transcriptome analysis, network science, and population genetics and comparative genomics. The BVCN was structured as an open-access resource with a central hub providing access to all lesson content and hands-on tutorials (https://biovcnet.github.io/). As laboratories reopened and participants returned to previous commitments, the BVCN evolved: while the platform continues to enable “a la carte” lessons for learning computational skills, new and ongoing collaborative projects were initiated among instructors and participants, including a virtual, open-access bioinformatics conference in June 2021. In this manuscript we discuss the history, successes, and challenges of the BVCN initiative, highlighting how the lessons learned and strategies implemented may be applicable to the development and planning of future courses, workshops, and training programs.

Creative Commons License
Creative Commons Attribution 4.0 International
Citation Information
Benjamin J Tully, Joy Buongiorno, Ashley B Cohen, Jacob A Cram, et al.. "The Bioinformatics Virtual Coordination Network: An Open-Source and Interactive Learning Environment" Frontiers in Education Vol. 6 (2021)
Available at: http://works.bepress.com/elizabeth-suter/16/