Published in DNA Res on February 28, 2002
A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes. PLoS Comput Biol (2010) 2.57
Reduced stability of mRNA secondary structure near the translation-initiation site in dsDNA viruses. BMC Evol Biol (2011) 0.94
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol (2006) 40.15
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature (2006) 24.29
Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res (2006) 9.85
Escherichia coli K-12: a cooperatively developed annotation snapshot--2005. Nucleic Acids Res (2006) 7.93
Sequence-specific error profile of Illumina sequencers. Nucleic Acids Res (2011) 6.88
MassBank: a public repository for sharing mass spectral data for life sciences. J Mass Spectrom (2010) 6.16
Multiple high-throughput analyses monitor the response of E. coli to perturbations. Science (2007) 5.87
Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110. Mol Syst Biol (2006) 5.20
Genome structure of the legume, Lotus japonicus. DNA Res (2008) 4.93
Two-component system VraSR positively modulates the regulation of cell-wall biosynthesis pathway in Staphylococcus aureus. Mol Microbiol (2003) 4.77
Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res (2006) 4.25
Transcriptome analysis of all two-component regulatory system mutants of Escherichia coli K-12. Mol Microbiol (2002) 3.68
Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana. Proc Natl Acad Sci U S A (2004) 3.41
High-throughput, quantitative analyses of genetic interactions in E. coli. Nat Methods (2008) 3.17
Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli. J Biol Chem (2004) 3.13
eSGA: E. coli synthetic genetic array analysis. Nat Methods (2008) 3.01
Elucidation of gene-to-gene and metabolite-to-gene networks in arabidopsis by integration of metabolomics and transcriptomics. J Biol Chem (2005) 2.98
Experimental and computational assessment of conditionally essential genes in Escherichia coli. J Bacteriol (2006) 2.93
Development and implementation of an algorithm for detection of protein complexes in large interaction networks. BMC Bioinformatics (2006) 2.92
Responses of the central metabolism in Escherichia coli to phosphoglucose isomerase and glucose-6-phosphate dehydrogenase knockouts. J Bacteriol (2003) 2.77
ASTD: The Alternative Splicing and Transcript Diversity database. Genomics (2008) 2.72
Informatics for unveiling hidden genome signatures. Genome Res (2003) 2.60
Genome-wide analysis of deoxyadenosine methyltransferase-mediated control of gene expression in Escherichia coli. Mol Microbiol (2002) 2.50
HemK, a class of protein methyl transferase with similarity to DNA methyl transferases, methylates polypeptide chain release factors, and hemK knockout induces defects in translational termination. Proc Natl Acad Sci U S A (2002) 2.31
Analysis of gene expression in Escherichia coli in response to changes of growth-limiting nutrient in chemostat cultures. Appl Environ Microbiol (2004) 2.28
Analysis of Escherichia coli anaplerotic metabolism and its regulation mechanisms from the metabolic responses to altered dilution rates and phosphoenolpyruvate carboxykinase knockout. Biotechnol Bioeng (2003) 2.17
Update on the Keio collection of Escherichia coli single-gene deletion mutants. Mol Syst Biol (2009) 2.11
Genome-wide analysis of substrate specificities of the Escherichia coli haloacid dehalogenase-like phosphatase family. J Biol Chem (2006) 2.10
Identification and molecular characterization of the Mg2+ stimulon of Escherichia coli. J Bacteriol (2003) 2.06
Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab Eng (2005) 2.05
Metabolite annotations based on the integration of mass spectral information. Plant J (2008) 1.97
Effect of zwf gene knockout on the metabolism of Escherichia coli grown on glucose or acetate. Metab Eng (2004) 1.88
Genome-wide analyses revealing a signaling network of the RcsC-YojN-RcsB phosphorelay system in Escherichia coli. J Bacteriol (2003) 1.87
Novel phylogenetic studies of genomic sequence fragments derived from uncultured microbe mixtures in environmental and clinical samples. DNA Res (2006) 1.84
KNApSAcK family databases: integrated metabolite-plant species databases for multifaceted plant research. Plant Cell Physiol (2011) 1.82
Identification of the two missing bacterial genes involved in thiamine salvage: thiamine pyrophosphokinase and thiamine kinase. J Bacteriol (2004) 1.77
Analysis of metabolic and physiological responses to gnd knockout in Escherichia coli by using C-13 tracer experiment and enzyme activity measurement. FEMS Microbiol Lett (2003) 1.76
Systematic characterization of Escherichia coli genes/ORFs affecting biofilm formation. FEMS Microbiol Lett (2003) 1.70
Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino-acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coli. Mol Microbiol (2002) 1.67
KEGG-based pathway visualization tool for complex omics data. In Silico Biol (2005) 1.64
Genome-wide screening of genes required for swarming motility in Escherichia coli K-12. J Bacteriol (2006) 1.59
Noc protein binds to specific DNA sequences to coordinate cell division with chromosome segregation. EMBO J (2009) 1.56
Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism. Mol Syst Biol (2009) 1.52
General enzymatic screens identify three new nucleotidases in Escherichia coli. Biochemical characterization of SurE, YfbR, and YjjG. J Biol Chem (2004) 1.50
The protein network of bacterial motility. Mol Syst Biol (2007) 1.45
B1500, a small membrane protein, connects the two-component systems EvgS/EvgA and PhoQ/PhoP in Escherichia coli. Proc Natl Acad Sci U S A (2007) 1.40
H-NS promotes looped domain formation in the bacterial chromosome. Curr Biol (2007) 1.39
Distribution of stable DnaA-binding sites on the Bacillus subtilis genome detected using a modified ChIP-chip method. DNA Res (2007) 1.37
Crystal structure of AcrB in complex with a single transmembrane subunit reveals another twist. Structure (2007) 1.33
Enhanced recombinant protein productivity by genome reduction in Bacillus subtilis. DNA Res (2008) 1.32
The GTP-binding protein YlqF participates in the late step of 50 S ribosomal subunit assembly in Bacillus subtilis. J Biol Chem (2006) 1.32
Genome-wide binding profiles of the Bacillus subtilis transition state regulator AbrB and its homolog Abh reveals their interactive role in transcriptional regulation. Nucleic Acids Res (2010) 1.30
A phylogenomic study of the OCTase genes in Pseudomonas syringae pathovars: the horizontal transfer of the argK-tox cluster and the evolutionary history of OCTase genes on their genomes. J Mol Evol (2002) 1.29
Overproduction of Escherichia coli DNA polymerase DinB (Pol IV) inhibits replication fork progression and is lethal. Mol Microbiol (2008) 1.29
Global regulation by horizontally transferred regulators establishes the pathogenicity of Escherichia coli. DNA Res (2008) 1.27
A complete set of Escherichia coli open reading frames in mobile plasmids facilitating genetic studies. DNA Res (2005) 1.26
Ribosome binding proteins YhbH and YfiA have opposite functions during 100S formation in the stationary phase of Escherichia coli. Genes Cells (2005) 1.24
Signal transduction cascade between EvgA/EvgS and PhoP/PhoQ two-component systems of Escherichia coli. J Bacteriol (2004) 1.22
Molecular basis of formaldehyde detoxification. Characterization of two S-formylglutathione hydrolases from Escherichia coli, FrmB and YeiG. J Biol Chem (2006) 1.22
Transcriptional regulation of drug efflux genes by EvgAS, a two-component system in Escherichia coli. Microbiology (2003) 1.21
Peptidase activity of the Escherichia coli Hsp31 chaperone. J Biol Chem (2004) 1.19
Cell lysis directed by sigmaE in early stationary phase and effect of induction of the rpoE gene on global gene expression in Escherichia coli. Microbiology (2005) 1.19
Complete nucleotide sequence of plasmid Rts1: implications for evolution of large plasmid genomes. J Bacteriol (2002) 1.18
Metabolomics approach for enzyme discovery. J Proteome Res (2006) 1.16
Using Alu elements as polyadenylation sites: A case of retroposon exaptation. Mol Biol Evol (2008) 1.16
Deep sequencing reveals as-yet-undiscovered small RNAs in Escherichia coli. BMC Genomics (2011) 1.16
Escherichia coli with a linear genome. EMBO Rep (2007) 1.16
tRNADB-CE: tRNA gene database curated manually by experts. Nucleic Acids Res (2008) 1.16
The applications of systematic in-frame, single-gene knockout mutant collection of Escherichia coli K-12. Methods Mol Biol (2008) 1.12
Clarification of pathway-specific inhibition by Fourier transform ion cyclotron resonance/mass spectrometry-based metabolic phenotyping studies. Plant Physiol (2006) 1.11
Predicting essential genes based on network and sequence analysis. Mol Biosyst (2009) 1.10
Identification and functional analysis of Escherichia coli cysteine desulfhydrases. Appl Environ Microbiol (2005) 1.10
A genome-wide approach to identify the genes involved in biofilm formation in E. coli. DNA Res (2008) 1.10
Embedded ubiquitous services on hospital information systems. IEEE Trans Inf Technol Biomed (2012) 1.07
Beyond the 3' end: experimental validation of extended transcript isoforms. Nucleic Acids Res (2007) 1.06
Self-Organizing Map (SOM) unveils and visualizes hidden sequence characteristics of a wide range of eukaryote genomes. Gene (2005) 1.05
The Escherichia coli K-12 ORFeome: a resource for comparative molecular microbiology. BMC Genomics (2010) 1.05
Metabolomics approach for determining growth-specific metabolites based on Fourier transform ion cyclotron resonance mass spectrometry. Anal Bioanal Chem (2008) 1.04