Illinois Data Bank - Dataset

A newer version of this dataset is available. View the latest version.
Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction
Cite this dataset:
Clark, Lindsay V.; Dwiyanti, Maria Stefanie; Anzoua, Kossonou G.; Brummer, Joe E.; Ghimire, Bimal Kumar; Głowacka, Katarzyna; Hall, Megan; Heo, Kweon; Jin, Xiaoli; Lipka, Alexander E.; Peng, Junhua; Yamada, Toshihiko; Yoo, Ji Hye; Yu, Chang Yeon; Zhao, Hua; Long, Stephen P.; Sacks, Erik J. (2018): Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-0790815_V2
Dataset Description

This dataset contains genotypic and phenotypic data, R scripts, and the results of analysis pertaining to a multi-location field trial of Miscanthus sinensis. Genome-wide association and genomic prediction were performed for biomass yield and 14 yield-component traits across six field trial locations in Asia and North America, using 46,177 single-nucleotide polymorphism (SNP) markers mined from restriction site-associated DNA sequencing (RAD-seq) and 568 M. sinensis accessions. Genomic regions and candidate genes were identified that can be used for breeding improved varieties of M. sinensis, which in turn will be used to generate new M. xgiganteus clones for biomass.
Subject Life Sciences
Keywords miscanthus; genotyping-by-sequencing (GBS); genome-wide association studies (GWAS); genomic selection
License CC BY
Funder U.S. Department of Energy (DOE)-Grant:DE-SC0006634
Corresponding Creator Erik J. Sacks
Downloaded 3525 times
Version DOI Comment Publication Date
3 10.13012/B2IDB-0790815_V3 One R script was updated and an another was added in response to peer review 2019-03-25
2 10.13012/B2IDB-0790815_V2 Updated files from v1 2018-12-19

Open in Globus File Manager what's this?
10.4 KB File
17.7 KB View File
2.72 MB File
15.1 KB File
34.7 KB View File
55 KB View File
9.39 MB View File
15.9 KB View File
1.32 KB View File
2.9 KB File
1.29 MB View File
10.1 KB File
17.5 KB File
6.57 KB File
1.57 KB File
19.2 KB File
42.6 KB File
12.1 KB File
18.8 KB File
21.2 KB File
23.2 KB File
39.2 KB File
6.68 KB File
125 MB View File
953 MB File
4.85 MB View File
188 MB View File
59.7 MB View File
104 MB File
60.9 MB File
6.45 KB View File
13 KB View File
1.5 KB File
22.6 KB View File
16.2 KB View File

Contact the Research Data Service for help interpreting this log.

RelatedMaterial update: {"note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial update: {"note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial update: {"note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial update: {"note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial update: {"note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial update: {"note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial update: {"datacite_list"=>["IsNewVersionOf", "IsSupplementTo,IsNewVersionOf"], "note"=>[nil, ""], "feature"=>[nil, false]} 2024-02-01T17:21:07Z
RelatedMaterial create: {"material_type"=>"Dataset", "availability"=>nil, "link"=>"https://doi.org/10.13012/B2IDB-0790815_V3", "uri"=>"10.13012/B2IDB-0790815_V3", "uri_type"=>"DOI", "citation"=>"", "dataset_id"=>773, "selected_type"=>"Dataset", "datacite_list"=>"IsPreviousVersionOf"} 2019-03-18T19:27:04Z
RelatedMaterial update: {"uri"=>["", "http://worldclim.org/version2"], "uri_type"=>["", "URL"], "datacite_list"=>["", "IsSupplementedBy"]} 2019-03-18T19:25:23Z
RelatedMaterial update: {"uri"=>["", "hdl.handle.net/2142/49963"], "uri_type"=>["", "Handle"], "datacite_list"=>["", "IsSupplementedBy"]} 2019-03-18T19:25:23Z
RelatedMaterial update: {"uri"=>["", "10.5281/zenodo.846816"], "uri_type"=>["", "DOI"], "datacite_list"=>["", "IsSupplementedBy"]} 2019-03-18T19:25:23Z
RelatedMaterial update: {"uri"=>["", "https://www.ncbi.nlm.nih.gov//bioproject/PRJNA207721"], "uri_type"=>["", "URL"], "datacite_list"=>["", "IsSupplementedBy"]} 2019-03-18T19:25:23Z
RelatedMaterial create: {"material_type"=>"Article", "availability"=>nil, "link"=>"https://doi.org/10.1111/gcbb.12606", "uri"=>"10.1111/gcbb.12606", "uri_type"=>"DOI", "citation"=>"Clark, L. V., Dwiyanti, M. S., Anzoua, K. G., Brummer, J. E., Ghimire, B. K., Głowacka, K. , Hall, M. , Heo, K. , Jin, X. , Lipka, A. E., Peng, J. , Yamada, T. , Yoo, J. H., Yu, C. Y., Zhao, H. , Long, S. P. and Sacks, E. J. (2019), Biomass yield in a genetically diverse Miscanthus sinensis germplasm panel evaluated at five locations revealed individuals with exceptional potential. GCB Bioenergy. Accepted Author Manuscript. doi:10.1111/gcbb.12606", "dataset_id"=>773, "selected_type"=>"Article", "datacite_list"=>"IsSupplementTo"} 2019-02-25T17:22:53Z