The iPlant collaborative

Cyberinfrastructure for plant biology

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 & 45 others 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

Research output: Contribution to journalArticle

241 Citations (Scopus)

Abstract

The iPlant Collaborative (iPlant) is a United States National Science Foundation (NSF) funded project that aims to create an innovative, comprehensive, and foundational cyberinfrastructure in support of plant biology research (PSCIC, 2006). iPlant is developing cyberinfrastructure that uniquely enables scientists throughout the diverse fields that comprise plant biology to address Grand Challenges in new ways, to stimulate and facilitate cross-disciplinary research, to promote biology and computer science research interactions, and to train the next generation of scientists on the use of cyberinfrastructure in research and education. Meeting humanity's projected demands for agricultural and forest products and the expectation that natural ecosystems be managed sustainably will require synergies from the application of information technologies. The iPlant cyberinfrastructure design is based on an unprecedented period of research community input, and leverages developments in high-performance computing, data storage, and cyberinfrastructure for the physical sciences. iPlant is an open-source project with application programming interfaces that allow the community to extend the infrastructure to meet its needs. iPlant is sponsoring community-driven workshops addressing specific scientific questions via analysis tool integration and hypothesis testing. These workshops teach researchers how to add bioinformatics tools and/or datasets into the iPlant cyberinfrastructure enabling plant scientists to perform complex analyses on large datasets without the need to master the command-line or high-performance computational services.

Original languageEnglish (US)
Article number34
JournalFrontiers in Plant Science
Volume2
Issue numberJUL
DOIs
StatePublished - Jul 25 2011

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plant biology
computer science
application technology
information technology
forest products
agricultural products
bioinformatics
infrastructure
education
researchers
Biological Sciences
ecosystems
testing

Keywords

  • Bioinformatics
  • Computational biology
  • Cyberinfrastructure
  • Plant biology

ASJC Scopus subject areas

  • Plant Science

Cite this

Goff, S. A., Vaughn, M., McKay, S., Lyons, E., Stapleton, A. E., Gessler, D., ... Stanzione, D. (2011). The iPlant collaborative: Cyberinfrastructure for plant biology. Frontiers in Plant Science, 2(JUL), [34]. https://doi.org/10.3389/fpls.2011.00034

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

In: Frontiers in Plant Science, Vol. 2, No. JUL, 34, 25.07.2011.

Research output: Contribution to journalArticle

Goff, SA, Vaughn, M, McKay, S, Lyons, E, Stapleton, AE, Gessler, D, Matasci, N, Wang, L, Hanlon, M, Lenards, A, Muir, A, Merchant, N, Lowry, S, Mock, S, Helmke, M, Kubach, A, Narro, M, Hopkins, N, Micklos, D, Hilgert, U, Gonzales, M, Jordan, C, Skidmore, E, Dooley, R, Cazes, J, McLay, R, Lu, Z, Pasternak, S, Koesterke, L, Piel, WH, Grene, R, Noutsos, C, Gendler, K, Feng, X, Tang, C, Lent, M, Kim, SJ, Kvilekval, K, Manjunath, BS, Tannen, V, Stamatakis, A, Sanderson, M, Welch, SM, Cranston, KA, Soltis, P, Soltis, D, O'Meara, B, Ane, C, Brutnell, T, Kleibenstein, DJ, White, JW, Leebens-Mack, J, Donoghue, MJ, Spalding, EP, Vision, TJ, Myers, CR, Lowenthal, D, Enquist, BJ, Boyle, B, Akoglu, A, Andrews, G, Ram, S, Ware, D, Stein, L & Stanzione, D 2011, 'The iPlant collaborative: Cyberinfrastructure for plant biology', Frontiers in Plant Science, vol. 2, no. JUL, 34. https://doi.org/10.3389/fpls.2011.00034
Goff SA, Vaughn M, McKay S, Lyons E, Stapleton AE, Gessler D et al. The iPlant collaborative: Cyberinfrastructure for plant biology. Frontiers in Plant Science. 2011 Jul 25;2(JUL). 34. https://doi.org/10.3389/fpls.2011.00034
Goff, Stephen A. ; Vaughn, Matthew ; McKay, Sheldon ; Lyons, Eric ; Stapleton, Ann E. ; Gessler, Damian ; Matasci, Naim ; Wang, Liya ; Hanlon, Matthew ; Lenards, Andrew ; Muir, Andy ; Merchant, Nirav ; Lowry, Sonya ; Mock, Stephen ; Helmke, Matthew ; Kubach, Adam ; Narro, Martha ; Hopkins, Nicole ; Micklos, David ; Hilgert, Uwe ; Gonzales, Michael ; Jordan, Chris ; Skidmore, Edwin ; Dooley, Rion ; Cazes, John ; McLay, Robert ; Lu, Zhenyuan ; Pasternak, Shiran ; Koesterke, Lars ; Piel, William H. ; Grene, Ruth ; Noutsos, Christos ; Gendler, Karla ; Feng, Xin ; Tang, Chunlao ; Lent, Monica ; Kim, Seung Jin ; Kvilekval, Kristian ; Manjunath, B. S. ; Tannen, Val ; Stamatakis, Alexandros ; Sanderson, Michael ; Welch, Stephen M. ; Cranston, Karen A. ; Soltis, Pamela ; Soltis, Doug ; O'Meara, Brian ; Ane, Cecile ; Brutnell, Tom ; Kleibenstein, Daniel J. ; White, Jeffery W. ; Leebens-Mack, James ; Donoghue, Michael J. ; Spalding, Edgar P. ; Vision, Todd J. ; Myers, Christopher R. ; Lowenthal, David ; Enquist, Brian J. ; Boyle, Brad ; Akoglu, Ali ; Andrews, Greg ; Ram, Sudha ; Ware, Doreen ; Stein, Lincoln ; Stanzione, Dan. / The iPlant collaborative : Cyberinfrastructure for plant biology. In: Frontiers in Plant Science. 2011 ; Vol. 2, No. JUL.
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