Published in Proteins on July 01, 1998
MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol (2013) 34.34
Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics (2005) 24.54
Protein sequence similarity searches using patterns as seeds. Nucleic Acids Res (1998) 23.87
Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. Nucleic Acids Res (2001) 22.33
Large-scale protein structure modeling of the Saccharomyces cerevisiae genome. Proc Natl Acad Sci U S A (1998) 4.17
Statistical potentials for fold assessment. Protein Sci (2002) 2.92
Expansion of the protein repertoire in newly explored environments: human gut microbiome specific protein families. PLoS Comput Biol (2010) 1.15
Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model. BMC Bioinformatics (2004) 1.12
Composition-modified matrices improve identification of homologs of saccharomyces cerevisiae low-complexity glycoproteins. Eukaryot Cell (2006) 1.02
Analysis of protein homology by assessing the (dis)similarity in protein loop regions. Proteins (2004) 0.98
Nonbonded terms extrapolated from nonlocal knowledge-based energy functions improve error detection in near-native protein structure models. Protein Sci (2007) 0.95
A collection of amino acid replacement matrices derived from clusters of orthologs. J Mol Evol (2005) 0.87
PSimScan: algorithm and utility for fast protein similarity search. PLoS One (2013) 0.86
Frequency of gaps observed in a structurally aligned protein pair database suggests a simple gap penalty function. Nucleic Acids Res (2004) 0.84
An information theoretic approach to macromolecular modeling: I. Sequence alignments. Biophys J (2005) 0.82
Characterization of multiple sequence alignment errors using complete-likelihood score and position-shift map. BMC Bioinformatics (2016) 0.80
Modular and configurable optimal sequence alignment software: Cola. Source Code Biol Med (2014) 0.80
Evaluating the efficacy of a structure-derived amino acid substitution matrix in detecting protein homologs by BLAST and PSI-BLAST. Adv Appl Bioinform Chem (2009) 0.77