PXD056792
PXD056792 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Barley grain proteome assessment using multi-environment trial data and machine learning |
| Description | Proteomics can be used to assess individual protein abundances, which could reflect genotypic and/or environmental effects and potentially predict grain/malt quality. In this study, 79 barley grain samples from a Californian multi-environment trial were assessed using liquid chromatography-mass spectrometry. A total of 3105 proteins were identified across all samples. Location, genotype, and year explained 26.7%, 17.1%, and 14.3% of variance in the relative abundance of individual proteins, respectively. Sixteen proteins with storage, DNA/RNA binding, or enzymatic functions were found to be significantly higher/lower in abundance (compared to the overall mean) in the Yolo 3 and Imperial Valley locations, Butta 12 and LCS Odyssey genotypes, and 2017-18 and 2021-22 years. Individual protein abundances were reasonably predictive (RMSECV=1.25-2.04%) for total, alcohol-soluble, and malt protein content and malt fine extract. This study illustrates the role of the environment on the barley proteome and the utility of proteomics and machine learning to predict grain/malt quality. |
| HostingRepository | MassIVE |
| AnnounceDate | 2024-10-14 |
| AnnouncementXML | Submission_2024-10-14_18:36:26.284.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | gabriela grigorean |
| SpeciesList | scientific name: Hordeum vulgare; common name: barley; NCBI TaxID: 4513; |
| ModificationList | Carbamidomethyl; Oxidation |
| Instrument | timsTOF HT |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2024-10-14 16:09:10 | ID requested | |
| ⏵ 1 | 2024-10-14 18:36:26 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: barley, proteomics, malt quality, hordein, timsTOF LC-MS, DatasetType:Proteomics |
Contact List
| Glen Patrick Fox | |
|---|---|
| contact affiliation | University of California, Davis |
| contact email | gpfox@ucdavis.edu |
| lab head | |
| Christine Diepenbrock | |
| contact affiliation | University of California, Davis |
| contact email | chdiepenbrock@ucdavis.edu |
| lab head | |
| gabriela grigorean | |
| contact affiliation | ucd |
| contact email | ggrigorean@ucdavis.edu |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/v08/MSV000096087/ |
to receive all new ProteomeXchange dataset release announcements!
