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TrOn: Tribolium Ontology

One part of the iBeetle project is the creation of an anatomical ontology for Tribolium. The annotation of the ontology is an ongoing process. The current version can be browsed and downloaded below.

Ontology tree

The tree below displays the class hierarchy of the ontology. Next to the tree additional information for the selected term is displayed.

Tribolium Ontology
  • anatomical_entity
    • material_anatomical_entity
      • anatomical structure
        • multicellular_structure
          • organism subdivision
            • appendage
              • wing
                • elytra
                • adult_wing
              • adult_appendage
                • adult_wing
Search & control

Search

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Use the context menu to expand all children of a selected class.

Details
ID: TrOn_0000331
Name: adult_elytra
Definition: "Singular elytron. In the adult heavily, chitinized, frequently leathery fore wing protecting the soft abdomen and the membranous hindwing." [ISBN:0-19-857353-7, ISBN:978-3-11-014898-6]
Parent(s):
Relations:
Links to iB details pages

Links to iB detail views

Number of links of the selected node and all descending ones

The printed number is the amount of iBeetle data sets, which are linked to the current node and the downstream ones. For the downstream search the class hierarchy as well as the part_of relation ship is used. The later one is not displayed in the tree on the left, so that not all involved nodes can be seen directly in the ontology tree. For the caluclation of the number the same nodes are taken into account as in the algorithm for the "Search for morphological defects" (without developmental stage or any other selections made)
For example the descending nodes for adult_leg are:

  • adult_coxa
  • adult_cuticle_of_mesothoracic_leg
  • adult_femur
  • adult_leg
  • adult_mesothoracic_coxa
  • adult_mesothoracic_femur
  • adult_mesothoracic_tarsomere
  • adult_mesothoracic_tarsus
  • adult_metathoracic_femur
  • adult_metathoracic_leg
  • adult_metathoracic_pretarsus
  • adult_metathoracic_tarsus
  • adult_metathoracic_tibia
  • adult_pretarsus
  • adult_prothoracic_leg
  • adult_prothoracic_tarsomere
  • adult_prothoracic_tarsus
  • adult_tarsomere
  • adult_tarsus
  • adult_tibia

The list of hyperlinks belong all to the selected node.

157 detail pages are linked to the selected node and descending ones. (following the is_a and part_of relations).

List of datasets linked directly to the selected ontology class:
iB_00012iB_00041iB_00088iB_00159iB_00168
iB_00187iB_00226iB_00257iB_00281iB_00320
iB_00423iB_00430iB_00430iB_00482iB_00549
iB_00549iB_00633iB_00633iB_00680iB_00696
iB_00696iB_00729iB_00729iB_00827iB_00907
iB_00952iB_01006iB_01006iB_01027iB_01078
iB_01085iB_01085iB_01085iB_01097iB_01113
iB_01159iB_01161iB_01172iB_01185iB_01185
iB_01473iB_01664iB_01737iB_01791iB_01818
iB_01822iB_01822iB_01840iB_01844iB_01856
iB_01868iB_01868iB_01886iB_01886iB_01913
iB_01924iB_02017iB_02206iB_02211iB_02211
iB_02220iB_02268iB_02268iB_02268iB_02288
iB_02302iB_02302iB_02459iB_02459iB_02486
iB_02486iB_02486iB_02486iB_02498iB_02510
iB_02540iB_02544iB_02544iB_02576iB_02619
iB_02628iB_02633iB_02633iB_02665iB_02665
iB_02665iB_02665iB_02704iB_02707iB_02707
iB_02716iB_02716iB_02838iB_02889iB_02889
iB_02889iB_02889iB_02897iB_02903iB_03421
iB_03421iB_03422iB_03422iB_03484iB_03484
iB_03564iB_03564iB_03590iB_03616iB_03616
iB_03622iB_03662iB_03663iB_03663iB_03669
iB_03683iB_03693iB_03725iB_03756iB_03756
iB_03783iB_03817iB_03822iB_03829iB_03844
iB_03844iB_03844iB_03897iB_03897iB_03939
iB_03946iB_03958iB_03958iB_03968iB_03968
iB_03971iB_03971iB_04000iB_04000iB_04013
iB_04014iB_04041iB_04253iB_04253iB_04253
iB_04298iB_04298iB_04391iB_04394iB_04398
iB_04398iB_04407iB_04407iB_04407iB_04421
iB_04430iB_04438iB_04438iB_04440iB_04452
iB_04452iB_04456iB_04480iB_04482iB_04483
iB_04483iB_04483iB_04543iB_04543iB_04550
iB_04550iB_04550iB_04552iB_04552iB_04604
iB_04611iB_04631iB_04636iB_04652iB_04840
iB_04887iB_04887iB_04897iB_04897iB_04931
iB_04935iB_04957iB_04964iB_04964iB_04986
iB_04986iB_04986iB_05007iB_05008iB_05008
iB_05008iB_05043iB_05043iB_05053iB_05053
iB_05053iB_05057iB_05057iB_05169iB_05169
iB_05171iB_05171iB_05174iB_05174iB_05188
iB_05188iB_05214iB_05280iB_05436iB_05459
iB_05481iB_05563iB_05686iB_05718iB_05718
iB_05718iB_06100iB_06100iB_06207iB_06230
iB_06264iB_06264iB_06276iB_06352iB_06352
iB_06393iB_06421iB_06477iB_06477iB_06477
iB_06485iB_06491
Publication
The Tribolium Ontology is published in:

Dönitz, J., Großmann, D., Schild, I., Schmitt-Engel, C., Bradler, S., Prpic, N.-M. and Bucher, G. (2013):
TrOn: An anatomical ontology for the beetle Tribolium castaneum
PLoS ONE 8(7): e70695. doi:10.1371/journal.pone.0070695.

OntoScope

OntoScope is a graphical ontology viewer developed at the Dept. of Bioinformatics of the University Medical Center Göttingen (UMG). The link below will start OntoScope as Java Web Start application, with the ontologies of Tribolium and Drosophila loaded.

OntoScope is still in the beta phase, more information is available at the homepage of the project.

Launch OntoScope
OBA server
Within the iBeetle project the OBA service is used to access the ontology. The oba service with the Tribolium ontology can also be integrate the ontology in other projects. The address of a public oba server providing the Tribolium ontology is: http://oba.sybig.de
Download
The Tribolium ontology can also be downloaded in the OBO format: tribolium.obo