Gramene 2016: comparative plant genomics and pathway resources Public Deposited

http://ir.library.oregonstate.edu/concern/articles/z890rv95z

Published by Oxford University Press on behalf of Nucleic Acids Research 2015. This work is written by (a) US Government employee(s) and is in the public domain in the US. The published article can be found at:  http://nar.oxfordjournals.org/content/44/D1/D1133

Descriptions

Attribute NameValues
Creator
Abstract or Summary
  • Gramene (http://www.gramene.org) is an online resource for comparative functional genomics in crops and model plant species. Its two main frameworks are genomes (collaboration with Ensembl Plants) and pathways (The Plant Reactome and archival BioCyc databases). Since our last NAR update, the database website adopted a new Drupal management platform. The genomes section features 39 fully assembled reference genomes that are integrated using ontology-based annotation and comparative analyses, and accessed through both visual and programmatic interfaces. Additional community data, such as genetic variation, expression and methylation, are also mapped for a subset of genomes. The Plant Reactome pathway portal (http://plantreactome.gramene.org) provides a reference resource for analyzing plant metabolic and regulatory pathways. In addition to ∼200 curated rice reference pathways, the portal hosts gene homology-based pathway projections for 33 plant species. Both the genome and pathway browsers interface with the EMBL-EBI's Expression Atlas to enable the projection of baseline and differential expression data from curated expression studies in plants. Gramene's archive website (http://archive.gramene.org) continues to provide previously reported resources on comparative maps, markers and QTL. To further aid our users, we have also introduced a live monthly educational webinar series and a Gramene YouTube channel carrying video tutorials.
Resource Type
DOI
Date Available
Date Issued
Citation
  • Tello-Ruiz, M. K., Stein, J., Wei, S., Preece, J., Olson, A., Naithani, S., ... & Ware, D. (2016). Gramene 2016: comparative plant genomics and pathway resources. Nucleic Acids Research, 44(D1), D1133-D1140. doi:10.1093/nar/gkv1179
Series
Rights Statement
Funding Statement (additional comments about funding)
Publisher
Peer Reviewed
Language
Replaces
Additional Information
  • description.provenance : Submitted by Patricia Black (patricia.black@oregonstate.edu) on 2016-03-30T15:27:01Z No. of bitstreams: 2 Tello-RuizGramene2016Comparative.pdf: 4487478 bytes, checksum: 6ee3fd618bd6159e686351c44dcf833c (MD5) Tello-RuizGramene2016ComparativeSupplementaryTablesS1-S6.pdf: 479596 bytes, checksum: 0cc2727cc9ae11fdc3f598c6546ba50d (MD5)
  • description.provenance : Made available in DSpace on 2016-03-30T15:27:38Z (GMT). No. of bitstreams: 2 Tello-RuizGramene2016Comparative.pdf: 4487478 bytes, checksum: 6ee3fd618bd6159e686351c44dcf833c (MD5) Tello-RuizGramene2016ComparativeSupplementaryTablesS1-S6.pdf: 479596 bytes, checksum: 0cc2727cc9ae11fdc3f598c6546ba50d (MD5) Previous issue date: 2016-01-04
  • description.provenance : Approved for entry into archive by Patricia Black(patricia.black@oregonstate.edu) on 2016-03-30T15:27:37Z (GMT) No. of bitstreams: 2 Tello-RuizGramene2016Comparative.pdf: 4487478 bytes, checksum: 6ee3fd618bd6159e686351c44dcf833c (MD5) Tello-RuizGramene2016ComparativeSupplementaryTablesS1-S6.pdf: 479596 bytes, checksum: 0cc2727cc9ae11fdc3f598c6546ba50d (MD5)

Relationships

In Administrative Set:
Last modified: 07/26/2017 Default
Citations:

EndNote | Zotero | Mendeley

Items