Help Document for filling the Controlled vocabulary ONLINE submission form

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Help Document for Controlled Vocabulary Online Submission Form

Please use this form to suggest new terms for the plant ontology vocabulary. You can also use this form to suggest corrections. A confirmation email will be sent to you by our curators within two days.

Note: Fields with asterisks (*) are mandatory.

Submission type*: the drop menu allows you to select on the type of submission you are about to make.

New term: if the suggestion is for a new term
New suggestion for a relationship: if you think that for a term, there should be either a new relationship or an additional one to an existing parent term. The DAG(Directed Acyclic Graphs) allows the terms to have multiple parent-child relationships unless a cycle is created, which is not allowed.
Correction: suggest for mistakes in terms and definitions e.g. new definition/updates on definition, synonyms, references or comments. Please mention the original term if you are suggesting correction(s).

Suggested term*: Type the full scientific name of the term (single name).

Synonym: provide the synonyms if there are any. Separate the multiple synonym terms by semi-colon (;).

Associated Ontology*: select the Ontology type to which the suggested new term should belong to.

TO: Trait Ontology for plants (Browse)
PO: Plant Ontology for plant related Morphological/anatomical terms (Under development)
GO: Gene Ontology terms for molecular function of a gene product (Browse)
GO: Gene Ontology terms for biological process (Browse)
GO: Gene Ontology terms for cellular component (Browse)

Taxonomic class: If the suggested term is specific to a plant then carefully select for dicot or monocot and if others is the option, please specify.

Definition of the suggested term*: try to provide the precise scientific definition for the suggested term. The field should be used for New term/New suggestion for a relationship/correction (from the field "Submission type").

Parent terms:

Parent term 1: mention the parent term if any available from the presently available ontology terms.

Relationship to parent: select if the suggested term should be considered as a part of (is a parent of ) or is an instance of (child of) the parent term.
Parent ontology ID No: mention the TO/PO/GO ID of the parent term, if known.

Parent term 2: same as for Parent term 1. Important thing to observe here is that the DAG allows terms to have multiple parent-child relationships unless a cycle is created, which is not allowed.

http://www.gramene.org/plant_ontology/

Reference for the new suggestion:

Reference category*: mention the documentary evidence for the suggested term e.g. published or a personal communication. The option "curator" is for internal use.
Curator: do not select unless you have been authorized as a curator by the Gramene
Ref. Source: If the option "published" is selected in the "Reference category", then select from the drop of menu, the source of publication, whether it is

PubMed: if an article is available from PubMed
ISBN: Mention the ISBN number of the publication, published Journal (if not listed by PubMed) or Book. .
Web site: if the information is presented on a web site, preferably authored by a scientist or hosted by a scientific institution.
Database: if the information is available from a scientific database e.g. TAIR, SGD, MIPS, GenBank, EMBL, Expasy, etc.
Others: Carefully select this option only if any of the above does not apply. This will help our curators in assertianing a quality check on your contribution.

Reference details: please provide the complete citation for the reference which should be referred for the suggested term.

Comments: provide your comments (if any), which you think the curators and users community should be informed about the suggested term.

Contributor information: the contributor should provide the correct information about him/herself, to help us identify your contribution. Your valuable contribution will be cited, if found appropriate. The mandatory (*) fields are:

Last (Family) name
First name
Organization/institution
Address
City
Country
Email

PDF version of the submission form: In case the problem is incurred in ONLINE submission, please print/save the PDF version
(http://www.gramene.org/plant_ontology/suggestions.pdf ) of this fill in (allows you to type in the fields) form and send in email/mail/fax at the following address.

Pankaj Jaiswal, Ph.D.
G15 Bradfield Hall
Department of Plant Breeding
Cornell University
Ithaca, NY 14853
U.S.A.

TEL: +1-607-255-3103
FAX: +1-607-255-6683
Email: pj37@cornell.edu