Published in Bioinformatics on October 26, 2006
Discovering sequence motifs with arbitrary insertions and deletions. PLoS Comput Biol (2008) 4.10
Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor binding sites. BMC Bioinformatics (2008) 1.08
In silico identification of short nucleotide sequences associated with gene expression of pollen development in rice. Plant Cell Physiol (2008) 0.84
Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules. BMC Bioinformatics (2016) 0.75
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc Natl Acad Sci U S A (2012) 10.22
Finding functional sequence elements by multiple local alignment. Nucleic Acids Res (2004) 2.37
Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences. Nucleic Acids Res (2002) 2.30
Extrapolating from sequence--the 2009 H1N1 'swine' influenza virus. Nat Biotechnol (2009) 1.96
CBOL protist working group: barcoding eukaryotic richness beyond the animal, plant, and fungal kingdoms. PLoS Biol (2012) 1.84
Threshold Average Precision (TAP-k): a measure of retrieval designed for bioinformatics. Bioinformatics (2010) 1.73
Statistical analysis of over-represented words in human promoter sequences. Nucleic Acids Res (2004) 1.69
The identification of complete domains within protein sequences using accurate E-values for semi-global alignment. Nucleic Acids Res (2007) 1.24
Alignments anchored on genomic landmarks can aid in the identification of regulatory elements. Bioinformatics (2005) 1.17
Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor binding sites. BMC Bioinformatics (2008) 1.08
The Gumbel pre-factor k for gapped local alignment can be estimated from simulations of global alignment. Nucleic Acids Res (2005) 1.07
The whole alignment and nothing but the alignment: the problem of spurious alignment flanks. Nucleic Acids Res (2008) 1.04
ESTIMATING THE GUMBEL SCALE PARAMETER FOR LOCAL ALIGNMENT OF RANDOM SEQUENCES BY IMPORTANCE SAMPLING WITH STOPPING TIMES. Ann Stat (2009) 0.95
The biological function of some human transcription factor binding motifs varies with position relative to the transcription start site. Nucleic Acids Res (2008) 0.92
Identification of cis-regulatory elements in gene co-expression networks using A-GLAM. Methods Mol Biol (2009) 0.85
New finite-size correction for local alignment score distributions. BMC Res Notes (2012) 0.84
The correlation error and finite-size correction in an ungapped sequence alignment. Bioinformatics (2002) 0.83
Coalescent: an open-source and scalable framework for exact calculations in coalescent theory. BMC Bioinformatics (2012) 0.82
Scanning sequences after Gibbs sampling to find multiple occurrences of functional elements. BMC Bioinformatics (2006) 0.80
Objective method for estimating asymptotic parameters, with an application to sequence alignment. Phys Rev E Stat Nonlin Soft Matter Phys (2011) 0.78
NEXT-peak: a normal-exponential two-peak model for peak-calling in ChIP-seq data. BMC Genomics (2013) 0.76
Fungi in Thailand: a case study of the efficacy of an ITS barcode for automatically identifying species within the Annulohypoxylon and Hypoxylon genera. PLoS One (2013) 0.76
Competitive inhibition of heparinase by persulfonated glycosaminoglycans: a tool to detect heparin contamination. Anal Chem (2011) 0.75
Domain analysis of symbionts and hosts (DASH) in a genome-wide survey of pathogenic human viruses. BMC Res Notes (2013) 0.75
Promoter analysis: gene regulatory motif identification with A-GLAM. Methods Mol Biol (2009) 0.75
Improving Retrieval Efficacy of Homology Searches Using the False Discovery Rate. IEEE/ACM Trans Comput Biol Bioinform (2015) 0.75
This special issue includes a selection of papers presented at the 2nd IEEE International Conference. Introduction. Int J Bioinform Res Appl (2014) 0.75