3000 Rice Genomes Project

Stream data with DDA:

from dagshub.streaming import DagsHubFilesystem

fs = DagsHubFilesystem(".", repo_url="https://dagshub.com/DagsHub-Datasets/3kricegenome-dataset")

fs.listdir("s3://3kricegenome")

Description:

The 3000 Rice Genome Project is an international effort to sequence the genomes of 3,024 rice varieties from 89 countries.

Contact:

The 3000 Rice Genome Project is an international effort to sequence the genomes of 3,024 rice varieties from 89 countries.

Update Frequency:

Not updated

Managed By:

https://www.irri.org/

Resources:

1. resource:
   • Description: http://s3.amazonaws.com/3kricegenome/README-snp_pipeline.txt
   • ARN: arn:aws:s3:::3kricegenome
   • Region: us-east-1
   • Type: S3 Bucket

Tags:

agriculture, food security, aws-pds, genetic, genomic, life sciences

Tools & Applications:

1. tools & applications:
   • Title: RiceGalaxy
   • URL: https://github.com/InternationalRiceResearchInstitute/RiceGalaxy
   • AuthorName: International Rice Research Institute
   • AuthorURL: https://www.irri.org/

Publication:

1. publication:

   • Title: Tracking the origin of two genetic components associated with transposable element bursts in domesticated rice
   • URL: https://www.nature.com/articles/s41467-019-08451-3
   • AuthorName: Chen J et al (2019)

2. publication:

   • Title: Structural variants in 3000 rice genomes
   • URL: https://genome.cshlp.org/content/29/5/870.short
   • AuthorName: Fuentes RR et al (2019)

3. publication:

   • Title: Rice Galaxy: an open resource for plant science
   • URL: https://academic.oup.com/gigascience/article/8/5/giz028/5492234
   • AuthorName: Juanillas V et al (2019)

4. publication:

   • Title: Identification and Allele Combination Analysis of Rice Grain Shape-Related Genes by Genome-Wide Association Study
   • URL: https://www.mdpi.com/1422-0067/23/3/1065
   • AuthorName: Meng B et al (2022)