BMC Bioinformatics

official impact factor 3.03

Open Access

Statistical extraction of Drosophila cis-regulatory modules using exhaustive assessment of local word frequency

Anna G Nazina and Dmitri A Papatsenko*

BMC Bioinformatics 2003, 4:65 doi:10.1186/1471-2105-4-65

Accesses  

  • Last 30 days: 30 accesses
  • Last 365 days: 448 accesses
  • All time: 4485 accesses

Cited by

BioMed Central: 7 citations

Research article   Open Access

Most transcription factor binding sites are in a few mosaic classes of the human genome

Kenneth J Evans BMC Genomics 2010, 11:286 (6 May 2010)

Research article   Open Access Highly Accessed

Finding evolutionarily conserved cis-regulatory modules with a universal set of motifs

Bartek Wilczynski, Norbert Dojer, Mateusz Patelak, Jerzy Tiuryn BMC Bioinformatics 2009, 10:82 (10 March 2009)

Method   Open Access Highly Accessed

Computational discovery of cis-regulatory modules in Drosophila without prior knowledge of motifs

Andra Ivan, Marc S Halfon, Saurabh Sinha Genome Biology 2008, 9:R22 (28 January 2008)

Prediction of cis-regulatory modules ab initio, without any input of relevant motifs, is achieved with two novel methods.

Methodology article   Open Access

A novel ensemble learning method for de novo computational identification of DNA binding sites

Arijit Chakravarty, Jonathan M Carlson, Radhika S Khetani, Robert H Gross BMC Bioinformatics 2007, 8:249 (12 July 2007)

Methodology article   Open Access

Using hexamers to predict cis-regulatory motifs in Drosophila

Bob Y Chan, Dennis Kibler BMC Bioinformatics 2005, 6:262 (27 October 2005)

Methodology article   Open Access

Some statistical properties of regulatory DNA sequences, and their use in predicting regulatory regions in the Drosophila genome: the fluffy-tail test

Irina Abnizova, Rene te Boekhorst, Klaudia Walter, Walter R Gilks BMC Bioinformatics 2005, 6:109 (27 April 2005)

Research   Open Access Highly Accessed

Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura

Benjamin P Berman, Barret D Pfeiffer, Todd R Laverty, Steven L Salzberg, Gerald M Rubin, Michael B Eisen, Susan E Celniker Genome Biology 2004, 5:R61 (20 August 2004)

27 predicted gene-regulatory regions in the Drosophila melanogaster genome were analyzed in vivo, confirming 15 active enhancer regions. A comparison with Drosophila pseudoobscura sequences revealed that conservation of binding-site clusters accurately discriminates functional regions from non-functional ones.