ThaleMine 1.7.0 Release featuring #Araport11 annotation data

×

Status message

New Feature: Guest Login function added to facilitate site exploration without registering. Try it out!

ThaleMine was updated to version 1.7.0 on 16 October 2015. ThaleMine is available at https://apps.araport.org/thalemine/

JBrowse was updated on 16 October 2015. JBrowse is available at https://apps.araport.org/jbrowse/?data=arabidopsis

Release Notes

Major Changes

  • ThaleMine 1.7.0 added the following new data contents:
    • Araport11 Pre-Release 2 (10/2015) gene structure and functional annotation for the Col-0 genome generated by Araport (submitted to NCBI) [MINE-955]
    • Plant Ontology (PO) annotations showing plant anatomical and developmental stages from TAIR public data release 09/30/2014 [MINE-1033]
    • Physical and genetic protein-protein interactions from BioGRID v3.4.128 and IntAct release 08/22/2015 [MINE-840]
    • Consolidation of curated gene-to-publication mappings from NCBI, UniProt and TAIR (09/30/2014) available via the Gene report [MINE-1033]
    • AGI gene locus history, tracking information about gene splits/merges, deletions and addition of novel gene loci available via the Gene report [MINE-1034]
  • ThaleMine 1.7.0 added a dynamic “Data Sources” page, summarizing annotated genome features as well as data source/set information [MINE-1020]. For more detailed information about datasets available via ThaleMine, please see: https://www.araport.org/thalemine/data-statistics
  • ThaleMine 1.7.0 runs InterMine 1.5.5, the latest version of the software [MINE-850]
  • JBrowse added the following new datasets:
    • Araport11 Pre-Release 2 (10/2015) gene structure and functional annotation for the Col-0 genome generated by Araport (submitted to NCBI) [MINE-1029]
    • VISTA whole genome alignment plots against other Brassicaceae species, retrieved via web services from Phytozome [MINE-1048]
    • For more detailed information about datasets available via JBrowse, please see: https://www.araport.org/jbrowse/data-statistics

Minor Changes

  • ThaleMine pages use a new and improved color scheme [MINE-245, MINE-1031]
  • On ThaleMine gene report pages, publications mapping to Transcript/Protein entities are now transitively mapped to the parent Gene entity [MINE-1013]
  • On ThaleMine gene report pages, the overlapping features stripe has been disabled since the data is represented in other stripes [MINE-976, FEED-470]