CyVerse: Cyberinfrastructure for open science.

Journal: PLoS computational biology
PMID: 38324613

Abstract

CyVerse, the largest publicly-funded open-source research cyberinfrastructure for life sciences, has played a crucial role in advancing data-driven research since the 2010s. As the technology landscape evolved with the emergence of cloud computing platforms, machine learning and artificial intelligence (AI) applications, CyVerse has enabled access by providing interfaces, Software as a Service (SaaS), and cloud-native Infrastructure as Code (IaC) to leverage new technologies. CyVerse services enable researchers to integrate institutional and private computational resources, custom software, perform analyses, and publish data in accordance with open science principles. Over the past 13 years, CyVerse has registered more than 124,000 verified accounts from 160 countries and was used for over 1,600 peer-reviewed publications. Since 2011, 45,000 students and researchers have been trained to use CyVerse. The platform has been replicated and deployed in three countries outside the US, with additional private deployments on commercial clouds for US government agencies and multinational corporations. In this manuscript, we present a strategic blueprint for creating and managing SaaS cyberinfrastructure and IaC as free and open-source software.

Authors

  • Tyson L Swetnam
    The University of Arizona, Tucson, Arizona, United States of America.
  • Parker B Antin
    The University of Arizona, Tucson, Arizona, United States of America.
  • Ryan Bartelme
    The University of Arizona, Tucson, Arizona, United States of America.
  • Alexander Bucksch
    The University of Arizona, Tucson, Arizona, United States of America.
  • David Camhy
    Graz University of Technology, Graz, Austria.
  • Greg Chism
    The University of Arizona, Tucson, Arizona, United States of America.
  • Illyoung Choi
    The University of Arizona, Tucson, Arizona, United States of America.
  • Amanda M Cooksey
    The University of Arizona, Tucson, Arizona, United States of America.
  • Michele Cosi
    The University of Arizona, Tucson, Arizona, United States of America.
  • Cindy Cowen
    The University of Arizona, Tucson, Arizona, United States of America.
  • Michael Culshaw-Maurer
    The University of Arizona, Tucson, Arizona, United States of America.
  • Robert Davey
    The Carpentries, Oakland, California, United States of America.
  • Sean Davey
    The University of Arizona, Tucson, Arizona, United States of America.
  • Upendra Devisetty
    The University of Arizona, Tucson, Arizona, United States of America.
  • Tony Edgin
    The University of Arizona, Tucson, Arizona, United States of America.
  • Andy Edmonds
    The University of Arizona, Tucson, Arizona, United States of America.
  • Dmitry Fedorov
    ViQI Inc. Santa Barbara, California, United States of America.
  • Jeremy Frady
    The University of Arizona, Tucson, Arizona, United States of America.
  • John Fonner
    Life Sciences and Computing, Texas Advanced Computing Center, Austin, TX 78758, USA.
  • Jeffrey K Gillan
    The University of Arizona, Tucson, Arizona, United States of America.
  • Iqbal Hossain
    The University of Arizona, Tucson, Arizona, United States of America.
  • Blake Joyce
    The University of Arizona, Tucson, Arizona, United States of America.
  • Konrad Lang
    Know Center GmbH, Graz, Austria.
  • Tina Lee
    The University of Arizona, Tucson, Arizona, United States of America.
  • Shelley Littin
    The University of Arizona, Tucson, Arizona, United States of America.
  • Ian McEwen
    The University of Arizona, Tucson, Arizona, United States of America.
  • Nirav Merchant
    Data Science Institute, University of Arizona, 1230 North Cherry Avenue, Tucson, AZ 85721, USA.
  • David Micklos
    DNA Learning Center, Cold Spring Harbor Laboratory, Long Island New York, United States of America.
  • Andrew Nelson
    Boyce Thompson Institute, Ithaca, New York, United States of America.
  • Ashley Ramsey
    The University of Arizona, Tucson, Arizona, United States of America.
  • Sarah Roberts
    The University of Arizona, Tucson, Arizona, United States of America.
  • Paul Sarando
    The University of Arizona, Tucson, Arizona, United States of America.
  • Edwin Skidmore
    The University of Arizona, Tucson, Arizona, United States of America.
  • Jawon Song
    Texas Advanced Computing Center, Austin Texas, United States of America.
  • Mary Margaret Sprinkle
    The University of Arizona, Tucson, Arizona, United States of America.
  • Sriram Srinivasan
    The University of Arizona, Tucson, Arizona, United States of America.
  • Dan Stanzione
    Texas Advanced Computing Center, Austin Texas, United States of America.
  • Jonathan D Strootman
    The University of Arizona, Tucson, Arizona, United States of America.
  • Sarah Stryeck
    Graz University of Technology, Graz, Austria.
  • Reetu Tuteja
    The University of Arizona, Tucson, Arizona, United States of America.
  • Matthew Vaughn
    Texas Advanced Computing Center, Austin, Texas, United States of America.
  • Mojib Wali
    Graz University of Technology, Graz, Austria.
  • Mariah Wall
    The University of Arizona, Tucson, Arizona, United States of America.
  • Ramona Walls
    Critical Path Institute, 1730 E River Road, Tucson, AZ 85718, USA.
  • Liya Wang
    Big Data Research Center, University of Electronic Science and Technology of China, Chengdu, China.
  • Todd Wickizer
    The University of Arizona, Tucson, Arizona, United States of America.
  • Jason Williams
    DNA Learning Center, Cold Spring Harbor Laboratory, Long Island New York, United States of America.
  • John Wregglesworth
    The University of Arizona, Tucson, Arizona, United States of America.
  • Eric Lyons
    The University of Arizona, Tucson, Arizona, United States of America.

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