Reference "Subcellular localization of proteins listed in Gramene database"

Reference ID

7047

Title

Subcellular localization of proteins listed in Gramene database

Source

Gramene database, 2002, vol. 1, pp. 1-1

Authors (3)

Jaiswal-P	Lincoln-S
McCouch-S

Abstract

In Gramene database, the localization of protein to different subcellular
components in a plant cell are based on the suggestions or inferences derived
from, (1) peer reviewed articles associated with the respective protein, (2)
determined by sequence similarity (ISS) in absence of a published article, (3)
Prediction analyses using locally installed copy of the most recent version of
Predotar (available from http://www.inra.fr/predotar/). More details on the
program used for prediction is available from
http://www.inra.fr/predotar/interpretation.html, (4) Prediction analyses using
web based tool TargetP, available at http://www.cbs.dtu.dk/services/TargetP/.
Ref: Emanuelsson et. al. (2000), Predicting subcellular localization of proteins
based on their N-terminal amino acid sequence", J. Mol. Biol. 300, 1005-1016.
Parameters for TargetP predictions are (a) Cleavage site predictions included,
(b) Using PLANT networks and (c) cutoff score take all, cTP/0.00 mTP/0.00
SP/0.00 other/0.00. (5) Inferred by curator (IC), which is used for those cases
where an annotation is not supported by any evidence, but can be reasonably
inferred by a curator from other gene ontology (GO) annotations, for which an
evidence is available. All the associations carry with them an evidence listed
either in the Gramene literature database or hyper linked to an external source.
The associated reference is supported with an evidence code, suggesting the type
of experiment/assertions used in inferring the association. The evidence codes
are listed at http://www.gramene.org/plant_ontology/evidence_codes.html.