Literature DB >> 33816800

The Modern Research Data Portal: a design pattern for networked, data-intensive science.

Kyle Chard1,2, Eli Dart3, Ian Foster1,2, David Shifflett1,2, Steven Tuecke1,2, Jason Williams1,2.   

Abstract

We describe best practices for providing convenient, high-speed, secure access to large data via research data portals. We capture these best practices in a new design pattern, the Modern Research Data Portal, that disaggregates the traditional monolithic web-based data portal to achieve orders-of-magnitude increases in data transfer performance, support new deployment architectures that decouple control logic from data storage, and reduce development and operations costs. We introduce the design pattern; explain how it leverages high-performance data enclaves and cloud-based data management services; review representative examples at research laboratories and universities, including both experimental facilities and supercomputer sites; describe how to leverage Python APIs for authentication, authorization, data transfer, and data sharing; and use coding examples to demonstrate how these APIs can be used to implement a range of research data portal capabilities. Sample code at a companion web site, https://docs.globus.org/mrdp, provides application skeletons that readers can adapt to realize their own research data portals. ©2018 Chard et al.

Entities:  

Keywords:  Data transfer node; Globus; High-speed network; Portal; Science DMZ

Year:  2018        PMID: 33816800      PMCID: PMC7924693          DOI: 10.7717/peerj-cs.144

Source DB:  PubMed          Journal:  PeerJ Comput Sci        ISSN: 2376-5992


  6 in total

1.  Globus Nexus: A Platform-as-a-Service Provider of Research Identity, Profile, and Group Management.

Authors:  Kyle Chard; Mattias Lidman; Brendan McCollam; Josh Bryan; Rachana Ananthakrishnan; Steven Tuecke; Ian Foster
Journal:  Future Gener Comput Syst       Date:  2016-03-01       Impact factor: 7.187

2.  Data sharing by scientists: practices and perceptions.

Authors:  Carol Tenopir; Suzie Allard; Kimberly Douglass; Arsev Umur Aydinoglu; Lei Wu; Eleanor Read; Maribeth Manoff; Mike Frame
Journal:  PLoS One       Date:  2011-06-29       Impact factor: 3.240

3.  The iPlant Collaborative: Cyberinfrastructure for Plant Biology.

Authors:  Stephen A Goff; Matthew Vaughn; Sheldon McKay; Eric Lyons; Ann E Stapleton; Damian Gessler; Naim Matasci; Liya Wang; Matthew Hanlon; Andrew Lenards; Andy Muir; Nirav Merchant; Sonya Lowry; Stephen Mock; Matthew Helmke; Adam Kubach; Martha Narro; Nicole Hopkins; David Micklos; Uwe Hilgert; Michael Gonzales; Chris Jordan; Edwin Skidmore; Rion Dooley; John Cazes; Robert McLay; Zhenyuan Lu; Shiran Pasternak; Lars Koesterke; William H Piel; Ruth Grene; Christos Noutsos; Karla Gendler; Xin Feng; Chunlao Tang; Monica Lent; Seung-Jin Kim; Kristian Kvilekval; B S Manjunath; Val Tannen; Alexandros Stamatakis; Michael Sanderson; Stephen M Welch; Karen A Cranston; Pamela Soltis; Doug Soltis; Brian O'Meara; Cecile Ane; Tom Brutnell; Daniel J Kleibenstein; Jeffery W White; James Leebens-Mack; Michael J Donoghue; Edgar P Spalding; Todd J Vision; Christopher R Myers; David Lowenthal; Brian J Enquist; Brad Boyle; Ali Akoglu; Greg Andrews; Sudha Ram; Doreen Ware; Lincoln Stein; Dan Stanzione
Journal:  Front Plant Sci       Date:  2011-07-25       Impact factor: 5.753

4.  Collaboration gets the most out of software.

Authors:  Andrew Morin; Ben Eisenbraun; Jason Key; Paul C Sanschagrin; Michael A Timony; Michelle Ottaviano; Piotr Sliz
Journal:  Elife       Date:  2013-09-10       Impact factor: 8.140

5.  A reference panel of 64,976 haplotypes for genotype imputation.

Authors:  Shane McCarthy; Sayantan Das; Warren Kretzschmar; Olivier Delaneau; Andrew R Wood; Alexander Teumer; Hyun Min Kang; Christian Fuchsberger; Petr Danecek; Kevin Sharp; Yang Luo; Carlo Sidore; Alan Kwong; Nicholas Timpson; Seppo Koskinen; Scott Vrieze; Laura J Scott; He Zhang; Anubha Mahajan; Jan Veldink; Ulrike Peters; Carlos Pato; Cornelia M van Duijn; Christopher E Gillies; Ilaria Gandin; Massimo Mezzavilla; Arthur Gilly; Massimiliano Cocca; Michela Traglia; Andrea Angius; Jeffrey C Barrett; Dorrett Boomsma; Kari Branham; Gerome Breen; Chad M Brummett; Fabio Busonero; Harry Campbell; Andrew Chan; Sai Chen; Emily Chew; Francis S Collins; Laura J Corbin; George Davey Smith; George Dedoussis; Marcus Dorr; Aliki-Eleni Farmaki; Luigi Ferrucci; Lukas Forer; Ross M Fraser; Stacey Gabriel; Shawn Levy; Leif Groop; Tabitha Harrison; Andrew Hattersley; Oddgeir L Holmen; Kristian Hveem; Matthias Kretzler; James C Lee; Matt McGue; Thomas Meitinger; David Melzer; Josine L Min; Karen L Mohlke; John B Vincent; Matthias Nauck; Deborah Nickerson; Aarno Palotie; Michele Pato; Nicola Pirastu; Melvin McInnis; J Brent Richards; Cinzia Sala; Veikko Salomaa; David Schlessinger; Sebastian Schoenherr; P Eline Slagboom; Kerrin Small; Timothy Spector; Dwight Stambolian; Marcus Tuke; Jaakko Tuomilehto; Leonard H Van den Berg; Wouter Van Rheenen; Uwe Volker; Cisca Wijmenga; Daniela Toniolo; Eleftheria Zeggini; Paolo Gasparini; Matthew G Sampson; James F Wilson; Timothy Frayling; Paul I W de Bakker; Morris A Swertz; Steven McCarroll; Charles Kooperberg; Annelot Dekker; David Altshuler; Cristen Willer; William Iacono; Samuli Ripatti; Nicole Soranzo; Klaudia Walter; Anand Swaroop; Francesco Cucca; Carl A Anderson; Richard M Myers; Michael Boehnke; Mark I McCarthy; Richard Durbin
Journal:  Nat Genet       Date:  2016-08-22       Impact factor: 38.330

6.  Data publication with the structural biology data grid supports live analysis.

Authors:  Peter A Meyer; Stephanie Socias; Jason Key; Elizabeth Ransey; Emily C Tjon; Alejandro Buschiazzo; Ming Lei; Chris Botka; James Withrow; David Neau; Kanagalaghatta Rajashankar; Karen S Anderson; Richard H Baxter; Stephen C Blacklow; Titus J Boggon; Alexandre M J J Bonvin; Dominika Borek; Tom J Brett; Amedeo Caflisch; Chung-I Chang; Walter J Chazin; Kevin D Corbett; Michael S Cosgrove; Sean Crosson; Sirano Dhe-Paganon; Enrico Di Cera; Catherine L Drennan; Michael J Eck; Brandt F Eichman; Qing R Fan; Adrian R Ferré-D'Amaré; J Christopher Fromme; K Christopher Garcia; Rachelle Gaudet; Peng Gong; Stephen C Harrison; Ekaterina E Heldwein; Zongchao Jia; Robert J Keenan; Andrew C Kruse; Marc Kvansakul; Jason S McLellan; Yorgo Modis; Yunsun Nam; Zbyszek Otwinowski; Emil F Pai; Pedro José Barbosa Pereira; Carlo Petosa; C S Raman; Tom A Rapoport; Antonina Roll-Mecak; Michael K Rosen; Gabby Rudenko; Joseph Schlessinger; Thomas U Schwartz; Yousif Shamoo; Holger Sondermann; Yizhi J Tao; Niraj H Tolia; Oleg V Tsodikov; Kenneth D Westover; Hao Wu; Ian Foster; James S Fraser; Filipe R N C Maia; Tamir Gonen; Tom Kirchhausen; Kay Diederichs; Mercè Crosas; Piotr Sliz
Journal:  Nat Commun       Date:  2016-03-07       Impact factor: 14.919

  6 in total

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