Published in J Biochem Biophys Methods on May 31, 2007
Crop classification by forward neural network with adaptive chaotic particle swarm optimization. Sensors (Basel) (2011) 1.47
Primer3Plus, an enhanced web interface to Primer3. Nucleic Acids Res (2007) 13.47
A text-mining analysis of the human phenome. Eur J Hum Genet (2006) 4.98
The efficiency of multi-target drugs: the network approach might help drug design. Trends Pharmacol Sci (2005) 3.02
The quest for orthologs: finding the corresponding gene across genomes. Trends Genet (2008) 2.86
Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis. PLoS Genet (2011) 2.58
A new web-based data mining tool for the identification of candidate genes for human genetic disorders. Eur J Hum Genet (2003) 2.32
The human genome encodes 10 alpha-crystallin-related small heat shock proteins: HspB1-10. Cell Stress Chaperones (2003) 2.09
QualitySNP: a pipeline for detecting single nucleotide polymorphisms and insertions/deletions in EST data from diploid and polyploid species. BMC Bioinformatics (2006) 2.03
ROC analysis: applications to the classification of biological sequences and 3D structures. Brief Bioinform (2008) 2.01
Ten simple rules for developing a short bioinformatics training course. PLoS Comput Biol (2011) 1.84
Interoperability with Moby 1.0--it's better than sharing your toothbrush! Brief Bioinform (2008) 1.80
Draft Genome Sequence of Lysobacter capsici AZ78, a Bacterium Antagonistic to Plant-Pathogenic Oomycetes. Genome Announc (2014) 1.77
DNA analysis servers: plot.it, bend.it, model.it and IS. Nucleic Acids Res (2003) 1.70
Protein fold similarity estimated by a probabilistic approach based on C(alpha)-C(alpha) distance comparison. J Mol Biol (2002) 1.56
Evolution of web services in bioinformatics. Brief Bioinform (2005) 1.54
Vicinal disulfide turns. Protein Eng (2003) 1.50
MADMAX - Management and analysis database for multiple ~omics experiments. J Integr Bioinform (2011) 1.40
CX, an algorithm that identifies protruding atoms in proteins. Bioinformatics (2002) 1.33
DPX: for the analysis of the protein core. Bioinformatics (2003) 1.29
Atom depth as a descriptor of the protein interior. Biophys J (2003) 1.24
A pipeline for high throughput detection and mapping of SNPs from EST databases. Mol Breed (2010) 1.20
Multiple weak hits confuse complex systems: a transcriptional regulatory network as an example. Phys Rev E Stat Nonlin Soft Matter Phys (2005) 1.19
ProGMap: an integrated annotation resource for protein orthology. Nucleic Acids Res (2009) 1.17
Co-swarming and local collapse: quorum sensing conveys resilience to bacterial communities by localizing cheater mutants in Pseudomonas aeruginosa. PLoS One (2010) 1.13
Vicinal disulfide bridge conformers by experimental methods and by ab initio and DFT molecular computations. Proteins (2004) 1.13
The human leukocyte antigen-presented ligandome of B lymphocytes. Mol Cell Proteomics (2013) 1.13
Neurogenic potential of human mesenchymal stem cells revisited: analysis by immunostaining, time-lapse video and microarray. J Cell Sci (2005) 1.11
Atom depth in protein structure and function. Trends Biochem Sci (2003) 1.09
Evolution and diversity of prokaryotic small heat shock proteins. Prog Mol Subcell Biol (2002) 1.06
Application of compression-based distance measures to protein sequence classification: a methodological study. Bioinformatics (2005) 1.06
OligoRAP - an Oligo Re-Annotation Pipeline to improve annotation and estimate target specificity. BMC Proc (2009) 1.05
Using R in Taverna: RShell v1.2. BMC Res Notes (2009) 1.03
Fragmentation pathways of N(G)-methylated and unmodified arginine residues in peptides studied by ESI-MS/MS and MALDI-MS. J Am Soc Mass Spectrom (2004) 1.03
Efficient recognition of folds in protein 3D structures by the improved PRIDE algorithm. Bioinformatics (2005) 1.02
COLOMBOS v2.0: an ever expanding collection of bacterial expression compendia. Nucleic Acids Res (2013) 1.02
A Protein Classification Benchmark collection for machine learning. Nucleic Acids Res (2006) 1.01
Whole genome methylation profiles as independent markers of survival in stage IIIC melanoma patients. J Transl Med (2012) 0.99
The evolution of structural databases. Trends Biotechnol (2002) 0.99
Alanine-scanning mutagenesis of the predicted rRNA-binding domain of ErmC' redefines the substrate-binding site and suggests a model for protein-RNA interactions. Nucleic Acids Res (2003) 0.99
Repair of a minimal DNA double-strand break by NHEJ requires DNA-PKcs and is controlled by the ATM/ATR checkpoint. Nucleic Acids Res (2003) 0.98
Mutational analysis defines the roles of conserved amino acid residues in the predicted catalytic pocket of the rRNA:m6A methyltransferase ErmC'. J Mol Biol (2003) 0.97
A simple model for the early events of quorum sensing in Pseudomonas aeruginosa: modeling bacterial swarming as the movement of an "activation zone". Biol Direct (2009) 0.97
A comprehensive overview of the vertebrate p24 family: identification of a novel tissue-specifically expressed member. Mol Biol Evol (2009) 0.95
EXProt--a database for EXPerimentally verified Protein functions. In Silico Biol (2002) 0.94
HaploSNPer: a web-based allele and SNP detection tool. BMC Genet (2008) 0.94
The virtue of temperance: built-in negative regulators of quorum sensing in Pseudomonas. Mol Microbiol (2011) 0.94
Selectome update: quality control and computational improvements to a database of positive selection. Nucleic Acids Res (2013) 0.93
The intracellular region of Notch ligands: does the tail make the difference? Biol Direct (2007) 0.93
Signature of B-CLL with different prognosis by Shrunken centroids of surface antigen expression profiling. J Cell Physiol (2005) 0.92
A scoring system based on the expression of six surface molecules allows the identification of three prognostic risk groups in B-cell chronic lymphocytic leukemia. J Cell Physiol (2006) 0.92
Repeats with variations: accelerated evolution of the Pin2 family of proteinase inhibitors. Trends Genet (2002) 0.92
Gene expression in chicken reveals correlation with structural genomic features and conserved patterns of transcription in the terrestrial vertebrates. PLoS One (2010) 0.91
Classifying the topology of AHL-driven quorum sensing circuits in proteobacterial genomes. Sensors (Basel) (2012) 0.91
Understanding and identifying amino acid repeats. Brief Bioinform (2014) 0.90
A gene co-expression network predicts functional genes controlling the re-establishment of desiccation tolerance in germinated Arabidopsis thaliana seeds. Planta (2015) 0.89
EXProt: a database for proteins with an experimentally verified function. Nucleic Acids Res (2002) 0.89
Microarray data mining using Bioconductor packages. BMC Proc (2009) 0.89
The organization of the quorum sensing luxI/R family genes in Burkholderia. Int J Mol Sci (2013) 0.89
The SBASE domain sequence resource, release 12: prediction of protein domain-architecture using support vector machines. Nucleic Acids Res (2005) 0.89
The "first in-last out" hypothesis on protein folding revisited. Proteins (2005) 0.88
Chromosomal Arrangement of AHL-Driven Quorum Sensing Circuits in Pseudomonas. ISRN Microbiol (2012) 0.88
Functional aspects of cHH C-terminal amidation in crayfish species. Regul Pept (2008) 0.88
Promoter propagation in prokaryotes. Nucleic Acids Res (2012) 0.87
IS: a web-site for intron statistics. Bioinformatics (2003) 0.87
Stability of multispecies bacterial communities: signaling networks may stabilize microbiomes. PLoS One (2013) 0.87
Locality versus globality in bacterial signalling: can local communication stabilize bacterial communities? Biol Direct (2010) 0.87
Prevalence of intrinsic disorder in the intracellular region of human single-pass type I proteins: the case of the notch ligand Delta-4. J Proteome Res (2008) 0.86
Evolution of robust and efficient system topologies. Cell Immunol (2007) 0.85
The SBASE domain sequence library, release 10: domain architecture prediction. Nucleic Acids Res (2003) 0.85
Testing statistical significance scores of sequence comparison methods with structure similarity. BMC Bioinformatics (2006) 0.85
CX, DPX and PRIDE: WWW servers for the analysis and comparison of protein 3D structures. Nucleic Acids Res (2005) 0.84
Exon 6 of human Jagged-1 encodes an autonomously folding unit. FEBS Lett (2004) 0.84
The tetralogy of Fallot-associated G274D mutation impairs folding of the second epidermal growth factor repeat in Jagged-1. FEBS J (2009) 0.84
Role of the synthase domain of Ags1p in cell wall alpha-glucan biosynthesis in fission yeast. J Biol Chem (2007) 0.84
Efficient synthesis and comparative studies of the arginine and Nomega,Nomega-dimethylarginine forms of the human nucleolin glycine/arginine rich domain. J Pept Sci (2005) 0.84
Discovery of T cell epitopes implementing HLA-peptidomics into a reverse immunology approach. J Immunol (2013) 0.83
SEQATOMS: a web tool for identifying missing regions in PDB in sequence context. Nucleic Acids Res (2008) 0.83
TreeDomViewer: a tool for the visualization of phylogeny and protein domain structure. Nucleic Acids Res (2006) 0.83
ProRepeat: an integrated repository for studying amino acid tandem repeats in proteins. Nucleic Acids Res (2011) 0.82
JBioWH: an open-source Java framework for bioinformatics data integration. Database (Oxford) (2013) 0.81
Constraint-based probabilistic learning of metabolic pathways from tomato volatiles. Metabolomics (2009) 0.81
HSPVdb--the Human Short Peptide Variation Database for improved mass spectrometry-based detection of polymorphic HLA-ligands. Immunogenetics (2010) 0.81
Beyond genomic variation--comparison and functional annotation of three Brassica rapa genomes: a turnip, a rapid cycling and a Chinese cabbage. BMC Genomics (2014) 0.81
gcodeml: a Grid-enabled tool for detecting positive selection in biological evolution. Stud Health Technol Inform (2012) 0.80
The SBASE protein domain library, release 9.0: an online resource for protein domain identification. Nucleic Acids Res (2002) 0.80
Application of a simple likelihood ratio approximant to protein sequence classification. Bioinformatics (2006) 0.80