1 / 1

Compare maps in CMap

Plan for Building an Efficient Database. Content Management System Easy to Use and Update Open Source Popular, Powerful, Robust and Secure Modular and Extensible Users/Roles/Access Control. Drupal modules as web front-end for Chado. Chado. Generic Database schema.

hall-reynolds
Download Presentation

Compare maps in CMap

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Plan for Building an Efficient Database • Content Management System • Easy to Use and Update • Open Source • Popular, Powerful, Robust and Secure • Modular and Extensible • Users/Roles/Access Control Drupal modules as web front-end for Chado Chado Generic Database schema Editing pages using Drupal • GDR users with various privileges can create/edit pages and upload data • for for meetings/conference/employment • project/lab sites • as locus editors • access private data securely before publication Maps ESTs Analysis Tools Mapped BACs Acknowledgements We acknowledge with thanks NSF and SCRI for funding this project and our many project collaborators who provide data and input for development of this database. We also wish to thank Washington State University and Clemson University for helping support this project. Polymorphism/Diversity Traits Genome Database for Rosaceae (GDR) in Drupal Dorrie Main1, Sook Jung1, Margaret Staton2, Randall Svancara1 ,Taein Lee1, Ping Zheng1, & Albert Abbott2. 1Dept. of Horticulture and Landscape Architecture, Washington State University, 2Dept of Genetics and Bicochemistry, Clemson University. contact: dorrie@wsu.edu • GoalTo provide web-based database and analysis tools for Rosaceae genetics, genomics and breeding data to facilitate cross-discipline and cross-species utilization of the data • (http://www.rosaceae.org/). • News • GDR receives funding through August 2013 from the USDA Specialty Crop Research Initiative program. • Tree fruit Genome Database Resources (tfGDR) will expand GDR to include Citrus. • Peach contigs from whole genome sequencing is available via Gbrowse • GDR is implemented in Drupal. • Objectives • To integrate whole genome sequences, large-scale phenotyping/genotyping data, and breeding data to the current GDR data. • To develop an infrastructure that is easy to develop, maintain, and utilize and also facilitates community building using chado and drupal GDR is now in Drupal! Maps Genetic maps from apple, pear, almond, apricot, cherry, peach, raspberry, rose, and strawberry are available through CMap, the comparative map viewer. Prunus physical map and transcriptome map are available through an integrative map viewer, WebChrom and WebFPC. Unigenes for family Rosaceae and for five member genera, and for EST libraries of specific projects are developed. Annotation includes homology, SSRs, ORFs, SNPs and GO terms. Unique oligo sets are also available for unigene microarray. The EST data are available for search, download and blast/fasta. Run BLAST or FASTA against various Rosaceae sequence databases such as ESTs, proteins, and genomic sequences. Various subsets of ESTs, such as unigenes, SSR-containing ESTs and mapped ESTs, are available for searching. SSR server and EST assembly tools are also provided. http://www.rosaceae.org/node/12 Map Viewer for genetic, physical, transcriptome map View BAC contigs in WebFPC Compare maps in CMap Markers

More Related