A pan-genomic approach to genome databases using maize as a model system
Abstract Research in the past decade has demonstrated that a single reference genome is not representative of a species’ diversity. MaizeGDB introduces a pan-genomic approach to hosting genomic data, leveraging the large number of diverse maize genomes and their associated datasets to quickly and ef...
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2021-08-01
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| Series: | BMC Plant Biology |
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| Online Access: | https://doi.org/10.1186/s12870-021-03173-5 |
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doaj-8daaffcde9b14141b1064649dfd2e59f2021-08-22T11:10:18ZengBMCBMC Plant Biology1471-22292021-08-0121111010.1186/s12870-021-03173-5A pan-genomic approach to genome databases using maize as a model systemMargaret R. Woodhouse0Ethalinda K. Cannon1John L. Portwood2Lisa C. Harper3Jack M. Gardiner4Mary L. Schaeffer5Carson M. Andorf6Corn Insects and Crop Genetics Research Unit, USDA-ARSCorn Insects and Crop Genetics Research Unit, USDA-ARSCorn Insects and Crop Genetics Research Unit, USDA-ARSCorn Insects and Crop Genetics Research Unit, USDA-ARSDivision of Animal Sciences, University of MissouriDivision of Plant Sciences, University of MissouriCorn Insects and Crop Genetics Research Unit, USDA-ARSAbstract Research in the past decade has demonstrated that a single reference genome is not representative of a species’ diversity. MaizeGDB introduces a pan-genomic approach to hosting genomic data, leveraging the large number of diverse maize genomes and their associated datasets to quickly and efficiently connect genomes, gene models, expression, epigenome, sequence variation, structural variation, transposable elements, and diversity data across genomes so that researchers can easily track the structural and functional differences of a locus and its orthologs across maize. We believe our framework is unique and provides a template for any genomic database poised to host large-scale pan-genomic data.https://doi.org/10.1186/s12870-021-03173-5DatabasesGenomesMaizePan-genomeNomenclatureBrowsers |
| collection |
DOAJ |
| language |
English |
| format |
Article |
| sources |
DOAJ |
| author |
Margaret R. Woodhouse Ethalinda K. Cannon John L. Portwood Lisa C. Harper Jack M. Gardiner Mary L. Schaeffer Carson M. Andorf |
| spellingShingle |
Margaret R. Woodhouse Ethalinda K. Cannon John L. Portwood Lisa C. Harper Jack M. Gardiner Mary L. Schaeffer Carson M. Andorf A pan-genomic approach to genome databases using maize as a model system BMC Plant Biology Databases Genomes Maize Pan-genome Nomenclature Browsers |
| author_facet |
Margaret R. Woodhouse Ethalinda K. Cannon John L. Portwood Lisa C. Harper Jack M. Gardiner Mary L. Schaeffer Carson M. Andorf |
| author_sort |
Margaret R. Woodhouse |
| title |
A pan-genomic approach to genome databases using maize as a model system |
| title_short |
A pan-genomic approach to genome databases using maize as a model system |
| title_full |
A pan-genomic approach to genome databases using maize as a model system |
| title_fullStr |
A pan-genomic approach to genome databases using maize as a model system |
| title_full_unstemmed |
A pan-genomic approach to genome databases using maize as a model system |
| title_sort |
pan-genomic approach to genome databases using maize as a model system |
| publisher |
BMC |
| series |
BMC Plant Biology |
| issn |
1471-2229 |
| publishDate |
2021-08-01 |
| description |
Abstract Research in the past decade has demonstrated that a single reference genome is not representative of a species’ diversity. MaizeGDB introduces a pan-genomic approach to hosting genomic data, leveraging the large number of diverse maize genomes and their associated datasets to quickly and efficiently connect genomes, gene models, expression, epigenome, sequence variation, structural variation, transposable elements, and diversity data across genomes so that researchers can easily track the structural and functional differences of a locus and its orthologs across maize. We believe our framework is unique and provides a template for any genomic database poised to host large-scale pan-genomic data. |
| topic |
Databases Genomes Maize Pan-genome Nomenclature Browsers |
| url |
https://doi.org/10.1186/s12870-021-03173-5 |
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