Public Data Sets¶

Below are publicly available datasets from researchers at the Donald Danforth Plant Science Center.

A Versatile Phenotyping System and Analytics Platform Reveals Diverse Temporal Responses to Water Availability in Setaria¶

Dataset: A Versatile Phenotyping System and Analytics Platform Reveals Diverse Temporal Responses to Water Availability in Setaria by Noah Fahlgren, Maximillian Feldman, Malia A. Gehan, Melinda S. Wilson, Christine Shyu, Douglas W. Bryant, Steven T. Hill, Colton J. McEntee, Sankalpi N. Warnasooriya, Indrajit Kumar, Tracy Ficor, Stephanie Turnipseed, Kerrigan B. Gilbert, Thomas P. Brutnell, James, C. Carrington, Todd C. Mockler, Ivan Baxter is licensed under a Creative Commons Attribution 4.0 International License.
Based on a work at https://doi.org/10.1016/j.molp.2015.06.005.

Dataset 1: 118 GB (79,200 PNG images) fahlgren_et_al_2015_bellwether.tar.gz

Dataset 2: 4.4 GB (79,200 JPG images) fahlgren_et_al_2015_bellwether_jpeg.tar.gz

Dataset 3: Manual tiller count, tiller angle, and leaf angle measurements. 58 PNG images, 1 TXT file.

Dataset 4: Manual height and tiller count measurements. 200 PNG images, 1 TXT file, 1 CSV file.

Dataset 5: Manual tiller count measurements. 646 PNG images, 1 TXT file.

Dataset 6: Manual biomass measurements. 205 PNG images, 1 CSV file.

Other files Camera zoom calibration data: Figshare, Soil weight and volumetric water content: Figshare, Water treatment data: Figshare, PlantCV output data: Figshare, Plant trait data: Figshare.

Time dependent genetic analysis links field and controlled environment phenotypes in the model C4 grass Setaria¶

Dataset: Time dependent genetic analysis links field and controlled environment phenotypes in the model C4 grass Setaria by Max J. Feldman, Rachel E. Paul, Darshi Banan, Jennifer F. Barrett, Jose Sebastian, Muh-Ching Yee, Hui Jiang, Alexander E. Lipka, Thomas P. Brutnell, José R. Dinneny, Andrew D.B. Leakey, Ivan Baxter is licensed under a Creative Commons Attribution 4.0 International License.
Based on a work at https://doi.org/10.1371/journal.pgen.1006841.

Dataset: 151,000 PNG images. CyVerse Data Commons

High-throughput profiling identifies resource use efficient and abiotic stress tolerant sorghum varieties¶

Dataset: High-throughput profiling identifies resource use efficient and abiotic stress tolerant sorghum varieties by Kira M. Veley, Jeffrey C. Berry, Sarah J. Fentress, Daniel P. Schachtman, Ivan Baxter, Rebecca Bart is licensed under a Creative Commons Attribution 4.0 International License.
Based on a work at https://doi.org/10.1002/pld3.23.

Dataset 1: 178 GB (96,867 PNG images) bart_sorghum_nitrogen_image_data.tar.gz

Dataset 2: 231 MB bart_nitrogen_data_and_scripts.tar.gz

An automated, high-throughput method for standardizing image color profiles to improve image-based plant phenotyping¶

To the extent possible under law, Jeffrey C Berry, Noah Fahlgren, Alexandria A Pokorny, Rebecca Bart, Kira M Veley has waived all copyright and related or neighboring rights to Dataset: An automated, high-throughput method for standardizing image color profiles to improve image-based plant phenotyping. This work is published from: United States.
Based on work at https://doi.org/10.7717/peerj.5727.

Dataset 1: 143 GB (24,000 PNG images) bart_homography_images.zip

Dataset 2: 8 MB bart_homography_data_and_scripts.zip

European hazelnut (Corylus avellana L.) genomic data¶

Download FASTA files of the 'Jefferson' genome and transcriptome assemblies and their associated annotations, variant call format (.vcf) files of polymorphisms between 7 re-sequenced hazelnut accessions and 'Jefferson, and the improved genetic linkage map derived from GBS markers among a 136 individual F1 mapping population.

For more information, visit http://www.cavellanagenomeportal.com/.

Dataset: 108MB mockler-hazelnut-genome-data.tar.gz

Citations¶

Rowley, E.R., Vanburen, R., Bryant, E.R., Priest, H.D., Mehlenbacher, S.A., and Mockler, T.C. 2018. A Draft Genome and High-Density Genetic Map of European Hazelnut (Corylus avellana L.). bioRxiv. doi: https://doi.org/10.1101/469015.

Rowley, E.R., Fox, S.A, Bryant, D.W, Sullivan, C., Givan, S. A., Mehlenbacher, S.A., and Mockler, T.C. 2012. Assembly and characterization of the European Hazelnut (Corylus avellana L.) ‘Jefferson’ transcriptome. Crop Science. 52: 2679-2686