Literature DB >> 15117758

RRE: a tool for the extraction of non-coding regions surrounding annotated genes from genomic datasets.

F Lazzarato1, G Franceschinis, M Botta, F Cordero, R A Calogero.   

Abstract

UNLABELLED: RRE allows the extraction of non-coding regions surrounding a coding sequence [i.e. gene upstream region, 5'-untranslated region (5'-UTR), introns, 3'-UTR, downstream region] from annotated genomic datasets available at NCBI. AVAILABILITY: RRE parser and web-based interface are accessible at http://www.bioinformatica.unito.it/bioinformatics/rre/rre.html

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Year:  2004        PMID： 15117758     DOI： 10.1093/bioinformatics/bth287

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  5 in total

1.  WebScipio: an online tool for the determination of gene structures using protein sequences.

Authors:  Florian Odronitz; Holger Pillmann; Oliver Keller; Stephan Waack; Martin Kollmar
Journal:  BMC Genomics       Date:  2008-09-18       Impact factor: 3.969

2.  AP-2alpha regulates migration of GN-11 neurons via a specific genetic programme involving the Axl receptor tyrosine kinase.

Authors:  Francesca Orso; Richard Jäger; Raffaele Adolfo Calogero; Hubert Schorle; Piero Sismondi; Michele De Bortoli; Daniela Taverna
Journal:  BMC Biol       Date:  2009-05-22       Impact factor: 7.431

3.  Comparative evaluation of intron prediction methods and detection of plant genome annotation using intron length distributions.

Authors:  Long Yang; Hwan-Gue Cho
Journal:  Genomics Inform       Date:  2012-03-31

4.  Non-coding sequence retrieval system for comparative genomic analysis of gene regulatory elements.

Authors:  Sung Tae Doh; Yunyu Zhang; Matthew H Temple; Li Cai
Journal:  BMC Bioinformatics       Date:  2007-03-15       Impact factor: 3.169

5.  Scipio: using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species.

Authors:  Oliver Keller; Florian Odronitz; Mario Stanke; Martin Kollmar; Stephan Waack
Journal:  BMC Bioinformatics       Date:  2008-06-13       Impact factor: 3.169
  5 in total

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