1. 5/12/2018
Genome Database for Rosaceae New Data and New Functionality
Efficient Tripal Database Platform for Genomics, Genetics and Breeding Research
Fruit and Nut Workshop Plant and Animal Genome Conference 2017
Dorrie Main*, Sook Jung, Chun-Huai Cheng, Taein Lee, Ping Zheng, Jing Yu, Jodi Humann, Kristin Scott, Morgan Frank, Heidi Haugh, Cameron Peace, Kate Evans, Mike Kahn, Albert Abbott, Ksenija Gasic, Mercy Olmstead, Michael Coe

2. GDR Vision Part 1 Discovery Translation Application
Facilitate Rosaceae Research
Discovery
Translation
Application
Made possible by
A highly supportive and engaged community
Continuous funding ( ) from NSF PGRP, USDA SCRI, Industry and Land Grant Universities
An excellent development and curation team

3. The Team

4. GDR Vision Part 2
Develop open source software resources to facilitate sharing of tools and data across the bioinformatics community
CHADO

5. New Data in GDR in 2016 Data Type 01/01/16 01/01/17 Increase Genes
150,815
242,182
91,367
Genomes 11 16 5
Genetic maps
160
180 20
Genotypes
28,298
15,513,927
15,485,631
Germplasm
16,345
18,642
2,297
Markers
2,311,771
2,900,018
588,247
Phenotypes
783,639
876,885
93,246
Publications
6,703
6,888
185
QTLs
2,318
2,695
377
Transcripts
60,716

6. New Functionality in 2016
GDR redesigned to make it easier to access data and tools.
Synteny analysis for peach-apple-strawberry-pear in GBrowse_Sy
RubusCyc database added and other Cycs updated
Reference transcriptomes (RefTrans) for Rubus and peach
New search interfaces developed
(1) SNP marker search (2) SNP genotype search (3) Gene and transcript search (4) Map search (5) Germplasm image search
Dynamically generated data overview page implemented
Crop Ontology developed and implemented for Rosaceae species
16 short audio-visual tutorials added

7. Redesigned GDR

8. Genera/Species Pages

9. Reference Transcriptome Analysis (RefTrans)

10. Reference Transcriptome Analysis (RefTrans)

11. Reference Transcriptome Analysis (RefTrans)

12. Reference Transcriptome Analysis (RefTrans)

13. Crop Ontology

14. Work in Progress Generating RefTrans for other Rosaceae species
Implementing a comprehensive breeding information management system (TripalBIMS)

15. Some Requests (Please)
Cite us (Jung et al., 2014 – on website)
Join our mailing list to receive biannual newsletters and community communication
Please tell us if you find a problem with the site, have new functionality you would like
Come to the GDR training workshop today 4 – 6 PM in the California room, GDR Demo Tues at AM in the California room
Come participate in the RosEXEC/RosIGI open meeting Sunday 8-10,10-12 in the Hampton Room

16. Usage of GDR in 2016 19,821 visitors 58,710 visits 245,787 pages
149 countries

17. Funding and Acknowledgements