Noctua Form Cellular Component

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This page describes how to create a Cellular Component annotation with the Noctua Form Editor using a C. elegans gene as an example.

Cellular Component 'only' annotations can be made using the 'Create New CC Annotation' version of the Form Editor and uses the 'part of' RO relation.

Cellular Component 'only' annotations indicate where a gene product can be localized experimentally, but do not make a statement about where the Molecular Function enabled by the gene product occurs.

Note: add video

Getting started

  • From the Noctua landing page, click on the link to 'Create New Model in Form'
  • From within the form, click on the down arrow to the right of the ‘Create Activity’ icon in the upper left corner
  • Select ‘Create New CC Annotation’ from the dropdown menu

Add an entity

  • Type in the gene name: mpk-1
  • Select mpk-1 Cele WB:WBGene00003401 from the resulting autocomplete list

Add a Cellular Component term

  • Begin typing ‘cytosol’ in the Cellular Component field
  • Select 'cytosol' GO:0005829 from the resulting autocomplete list

Add an evidence code

  • Type in 'direct assay'
  • Select 'direct assay evidence used in manual assertion' ECO:0000314 from the resulting autocomplete list
    • Note that, when applicable, the traditional three-letter GO codes are shown in bold in the autocomplete list

Add a PubMed reference

  • Click on the + sign on the lower right of the reference field
  • Select PMID from the dropdown list
  • Paste '18073423' in the Accession field
  • Check that the bibliographic information is correct
  • Click on the check mark
  • Note: you can also cut and paste a DB and id, e.g. PMID:18073423, in the reference field, but if you are cutting and pasting directly from PubMed, remember to remove the space between PMID and the accession.
  • Note: users can also use dois and internal GO_REFs as references.

Saving your annotation

  • Once you have finished entering the minimal information for an annotation, the Save button at the bottom of the form will turn blue, and you can click on it to save your work.
  • If the Save button is disabled, click on the red 'Why is the Save button disabled?' message at the bottom left of the form to see an error report that will guide you in how to fix your entry.

Previewing your annotation

  • As you enter information into the form editor, you can click on the Preview button at the bottom of the form to see a representation of the annotation as it will be seen in the graph editor.

Clearing all fields

  • If you would like to delete all of the information in the fields, click on the Clear button at the bottom of the form.

Suggestions for continuing

  • Naming a model
  • Making a model production
  • Adding contextual information

Additional helpful information

Back to Noctua Users Manual