Difference between revisions of "Soybean"

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We have been working to develop and analyse a large collection of soybean germplasm. A manuscript has been submitted and supplementary information relating to this manuscript is available below.
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# Soybean genomics
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## Soybean cqProt003 supplementary data
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This is the supplementary data for Marsh et al.
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[Gm20.INDELs.vcf.gz all indels on Gm20, Wm82 v4 assembly]
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[Gm20.SNPs.vcf.gz all SNPs on Gm20, Wm82 v4 assembly]
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[filtered_biallelic_Gm20.INs.vcf.gz filtered insertions on Gm20 - biallelic only]
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[filtered_biallelic_Gm20.DELs.vcf.gz filtered deletions on Gm20 - biallelic only]
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## Soybean pangenome
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Supplementary information relating to Bayer et al. 2021, [https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20109 Sequencing the USDA core soybean collection reveals gene loss during domestication and breeding], is available below.
  
 
[http://www.appliedbioinformatics.com.au/soybean JBrowse genome viewer]
 
[http://www.appliedbioinformatics.com.au/soybean JBrowse genome viewer]
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Supplementary Tables: [http://www.appliedbioinformatics.com.au/download/Soybean_pangenome_Supp_Tables.xlsx Download here]
 
Supplementary Tables: [http://www.appliedbioinformatics.com.au/download/Soybean_pangenome_Supp_Tables.xlsx Download here]
  
The data can also be viewed on [https://soybase.org/projects/SoyBase.C2020.02.php soybase]
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The data can also be viewed on [https://soybase.org/projects/SoyBase.C2020.02.php soybase] and [https://research-repository.uwa.edu.au/en/datasets/soybean-pangenome-snps-assembly-annotation-pav UWA Research Repository].

Revision as of 07:26, 8 October 2021

  1. Soybean genomics


    1. Soybean cqProt003 supplementary data

This is the supplementary data for Marsh et al.

[Gm20.INDELs.vcf.gz all indels on Gm20, Wm82 v4 assembly]

[Gm20.SNPs.vcf.gz all SNPs on Gm20, Wm82 v4 assembly]

[filtered_biallelic_Gm20.INs.vcf.gz filtered insertions on Gm20 - biallelic only]

[filtered_biallelic_Gm20.DELs.vcf.gz filtered deletions on Gm20 - biallelic only]

    1. Soybean pangenome

Supplementary information relating to Bayer et al. 2021, Sequencing the USDA core soybean collection reveals gene loss during domestication and breeding, is available below.

JBrowse genome viewer

Supplementary Tables: Download here

The data can also be viewed on soybase and UWA Research Repository.