Data access for the 1,000 Plants (1KP) project

Naim Matasci(University of Arizona), Ling‐Hong Hung(University of Washington), Zhixiang Yan, Eric Carpenter(University of Alberta), Norman J. Wickett(Northwestern University), Siavash Mirarab(Northwestern University), Nam Nguyen(The University of Texas at Austin), Tandy Warnow(The University of Texas at Austin), Saravanaraj Ayyampalayam(University of Georgia), Michael S. Barker(University of Arizona), J. Gordon Burleigh(University of Florida), Matthew A. Gitzendanner(University of Florida), Eric Wafula(Pennsylvania State University), Joshua P. Der(Pennsylvania State University), Claude W. dePamphilis(Pennsylvania State University), Béatrice Roure(Université de Montréal), Hervé Philippe(Centre National de la Recherche Scientifique), Brad R. Ruhfel(Eastern Kentucky University), Nicholas W. Miles(Florida Museum of Natural History), Sean W. Graham(University of British Columbia), Sarah Mathews(Harvard University), Barbara Surek(University of Cologne), Michael Melkonian(University of Cologne), Pamela S. Soltis(Florida Museum of Natural History), Pamela S. Soltis(Florida Museum of Natural History), Carl J. Rothfels(University of British Columbia), Lisa Pokorny(Duke University), Jonathan Shaw(Duke University), Lisa DeGironimo(New York Botanical Garden), Dennis Wm. Stevenson(New York Botanical Garden), Juan Carlos Villarreal(Ludwig-Maximilians-Universität München), Tao Chen(Chinese Academy of Sciences), Toni M. Kutchan(Donald Danforth Plant Science Center), Megan Rolf(Donald Danforth Plant Science Center), Regina S. Baucom(University of Michigan), Michael K. Deyholos(University of Alberta), Ram Samudrala(University of Washington), Zhijian Tian, Xiaolei Wu, Xiao Sun, Yong Zhang, Jun Wang, Jim Leebens‐Mack(University of Georgia), Gane Ka‐Shu Wong(University of Alberta)
GigaScience
October 27, 2014
10.1186/2047-217x-3-17
Cited by 606Open Access
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Abstract

The 1,000 plants (1KP) project is an international multi-disciplinary consortium that has generated transcriptome data from over 1,000 plant species, with exemplars for all of the major lineages across the Viridiplantae (green plants) clade. Here, we describe how to access the data used in a phylogenomics analysis of the first 85 species, and how to visualize our gene and species trees. Users can develop computational pipelines to analyse these data, in conjunction with data of their own that they can upload. Computationally estimated protein-protein interactions and biochemical pathways can be visualized at another site. Finally, we comment on our future plans and how they fit within this scalable system for the dissemination, visualization, and analysis of large multi-species data sets.

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