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primary topic: Classification of nuclear receptors based on amino acid composition and dipeptide composition.

Classification of nuclear receptors based on amino acid composition and dipeptide composition.
type: AcademicArticle
type: Article
abstract: Nuclear receptors are key transcription factors that regulate crucial gene networks responsible for cell growth, differentiation, and homeostasis. Nuclear receptors form a superfamily of phylogenetically related proteins and control functions associated with major diseases (e.g. diabetes, osteoporosis, and cancer). In this study, a novel method has been developed for classifying the subfamilies of nuclear receptors. The classification was achieved on the basis of amino acid and dipeptide composition from a sequence of receptors using support vector machines. The training and testing was done on a non-redundant data set of 282 proteins obtained from the NucleaRDB data base (1). The performance of all classifiers was evaluated using a 5-fold cross validation test. In the 5-fold cross-validation, the data set was randomly partitioned into five equal sets and evaluated five times on each distinct set while keeping the remaining four sets for training. It was found that different subfamilies of nuclear receptors were quite closely correlated in terms of amino acid composition as well as dipeptide composition. The overall accuracy of amino acid composition-based and dipeptide composition-based classifiers were 82.6 and 97.5%, respectively. Therefore, our results prove that different subfamilies of nuclear receptors are predictable with considerable accuracy using amino acid or dipeptide composition. Furthermore, based on above approach, an online web service, NRpred, was developed, which is available at www.imtech.res.in/raghava/nrpred.
date: 2004-05-28
volume: 279
issue: 22
is part of: The Journal of biological chemistry
status: peerReviewed
status: published
author list: authors
type: EPrint
type: ArticleEPrint
is part of: repository
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subject: QD Chemistry

Classification of nuclear receptors based on amino acid composition and dipeptide composition. (PDF)
type: Document

ASBMB
type: Organization

The Journal of biological chemistry
type: Collection
issn: 00219258

Manoj Bhasin
type: Person
given name: Manoj
family name: Bhasin

G.P.S. Raghava
type: Person
given name: G.P.S.
family name: Raghava

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primary topic: Classification of nuclear receptors based on amino acid composition and dipeptide composition.

QD Chemistry
type: Concept