Dragon Gene Start Finder identifies approximate locations of the 5′ ends of genes

Vladimir B. Bajic; Seng Hong Seah

doi:10.1093/nar/gkg570

Dragon Gene Start Finder identifies approximate locations of the 5′ ends of genes

Vladimir B. Bajic^*, Seng Hong Seah

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

28 Scopus citations

Abstract

Recognition of gene starts is a difficult and yet unsolved problem. We present a program, Dragon Gene Start Finder (DGSF), which assesses the gene start in mammalian genomes and predicts a region which should overlap with the first exon of the gene or be in its proximity. The program has been rigorously tested on human chromosomes 4, 21 and 22, and in a strand specific search achieves an overall sensitivity of ∼65% and a positive predictive value of ∼78%. The sensitivity for the CpG-island related promoters is >88%. DGSF is free for academic and non-profit users at http://sdmc.lit.org.sg/promoter/dragonGSF1genestart.htm; the download version of the program integrated within the TRANSPLORER™ package can be obtained from Biobase GmbH, at http://www.biobase.de/.

Original language	English (US)
Pages (from-to)	3560-3563
Number of pages	4
Journal	NUCLEIC ACIDS RESEARCH
Volume	31
Issue number	13
DOIs	https://doi.org/10.1093/nar/gkg570
State	Published - Jul 1 2003
Externally published	Yes

ASJC Scopus subject areas

Genetics

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abstract = "Recognition of gene starts is a difficult and yet unsolved problem. We present a program, Dragon Gene Start Finder (DGSF), which assesses the gene start in mammalian genomes and predicts a region which should overlap with the first exon of the gene or be in its proximity. The program has been rigorously tested on human chromosomes 4, 21 and 22, and in a strand specific search achieves an overall sensitivity of ∼65% and a positive predictive value of ∼78%. The sensitivity for the CpG-island related promoters is >88%. DGSF is free for academic and non-profit users at http://sdmc.lit.org.sg/promoter/dragonGSF1genestart.htm; the download version of the program integrated within the TRANSPLORER{\texttrademark} package can be obtained from Biobase GmbH, at http://www.biobase.de/.",

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AB - Recognition of gene starts is a difficult and yet unsolved problem. We present a program, Dragon Gene Start Finder (DGSF), which assesses the gene start in mammalian genomes and predicts a region which should overlap with the first exon of the gene or be in its proximity. The program has been rigorously tested on human chromosomes 4, 21 and 22, and in a strand specific search achieves an overall sensitivity of ∼65% and a positive predictive value of ∼78%. The sensitivity for the CpG-island related promoters is >88%. DGSF is free for academic and non-profit users at http://sdmc.lit.org.sg/promoter/dragonGSF1genestart.htm; the download version of the program integrated within the TRANSPLORER™ package can be obtained from Biobase GmbH, at http://www.biobase.de/.

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Dragon Gene Start Finder identifies approximate locations of the 5′ ends of genes

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