Authors
Naim Matasci, Ling-Hong Hung, Zhixiang Yan, Eric J Carpenter, Norman J Wickett, Siavash Mirarab, Nam Nguyen, Tandy Warnow, Saravanaraj Ayyampalayam, Michael Barker, J Gordon Burleigh, Matthew A Gitzendanner, Eric Wafula, Joshua P Der, Claude W dePamphilis, Béatrice Roure, Hervé Philippe, Brad R Ruhfel, Nicholas W Miles, Sean W Graham, Sarah Mathews, Barbara Surek, Michael Melkonian, Douglas E Soltis, Pamela S Soltis, Carl Rothfels, Lisa Pokorny, Jonathan A Shaw, Lisa DeGironimo, Dennis W Stevenson, Juan Carlos Villarreal, Tao Chen, Toni M Kutchan, Megan Rolf, Regina S Baucom, Michael K Deyholos, Ram Samudrala, Zhijian Tian, Xiaolei Wu, Xiao Sun, Yong Zhang, Jun Wang, Jim Leebens-Mack, Gane Ka-Shu Wong
Publication date
2014/12/1
Source
Gigascience
Volume
3
Issue
1
Pages
2047-217X-3-17
Publisher
Oxford University Press
Description
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.
Scholar articles
N Matasci, LH Hung, Z Yan, EJ Carpenter, NJ Wickett… - Gigascience, 2014