Published in FEMS Yeast Res on April 30, 2012
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Rewiring yeast sugar transporter preference through modifying a conserved protein motif. Proc Natl Acad Sci U S A (2013) 1.11
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Growth and fermentation of D-xylose by Saccharomyces cerevisiae expressing a novel D-xylose isomerase originating from the bacterium Prevotella ruminicola TC2-24. Biotechnol Biofuels (2013) 0.97
Engineering and two-stage evolution of a lignocellulosic hydrolysate-tolerant Saccharomyces cerevisiae strain for anaerobic fermentation of xylose from AFEX pretreated corn stover. PLoS One (2014) 0.93
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Harnessing genetic diversity in Saccharomyces cerevisiae for fermentation of xylose in hydrolysates of alkaline hydrogen peroxide-pretreated biomass. Appl Environ Microbiol (2013) 0.92
Enhanced expression of genes involved in initial xylose metabolism and the oxidative pentose phosphate pathway in the improved xylose-utilizing Saccharomyces cerevisiae through evolutionary engineering. J Ind Microbiol Biotechnol (2013) 0.88
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Investigating host dependence of xylose utilization in recombinant Saccharomyces cerevisiae strains using RNA-seq analysis. Biotechnol Biofuels (2013) 0.81
Sustainable conversion of coffee and other crop wastes to biofuels and bioproducts using coupled biochemical and thermochemical processes in a multi-stage biorefinery concept. Appl Microbiol Biotechnol (2014) 0.79
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Uncovering transcriptional regulation of metabolism by using metabolic network topology. Proc Natl Acad Sci U S A (2005) 4.40
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Symptomatic atherosclerosis is associated with an altered gut metagenome. Nat Commun (2012) 2.84
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Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae. Genome Biol (2006) 2.43
Large-scale evaluation of in silico gene deletions in Saccharomyces cerevisiae. OMICS (2003) 2.31
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Mass spectrometry in metabolome analysis. Mass Spectrom Rev (2005) 2.14
Modeling Lactococcus lactis using a genome-scale flux model. BMC Microbiol (2005) 2.14
Metabolic engineering of Saccharomyces cerevisiae: a key cell factory platform for future biorefineries. Cell Mol Life Sci (2012) 2.06
Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods. Nucleic Acids Res (2013) 2.05
Does vitamin A supplementation interact with routine vaccinations? An analysis of the Ghana Vitamin A Supplementation Trial. Am J Clin Nutr (2009) 2.04
Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88. Genome Res (2011) 2.03
Genome-scale analysis of Streptomyces coelicolor A3(2) metabolism. Genome Res (2005) 2.03
Architecture of transcriptional regulatory circuits is knitted over the topology of bio-molecular interaction networks. BMC Syst Biol (2008) 2.02
The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum. PLoS Comput Biol (2013) 2.00
In silico aided metabolic engineering of Saccharomyces cerevisiae for improved bioethanol production. Metab Eng (2005) 1.96
Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using INIT. PLoS Comput Biol (2012) 1.94
Linking high-resolution metabolic flux phenotypes and transcriptional regulation in yeast modulated by the global regulator Gcn4p. Proc Natl Acad Sci U S A (2009) 1.79
The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation: a scaffold to query lipid metabolism. BMC Syst Biol (2008) 1.73
Assessing the human gut microbiota in metabolic diseases. Diabetes (2013) 1.64
De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology. Microb Cell Fact (2012) 1.62
OptFlux: an open-source software platform for in silico metabolic engineering. BMC Syst Biol (2010) 1.61
Integration of metabolome data with metabolic networks reveals reporter reactions. Mol Syst Biol (2006) 1.60
Integration of gene expression data into genome-scale metabolic models. Metab Eng (2004) 1.59
The 2008 update of the Aspergillus nidulans genome annotation: a community effort. Fungal Genet Biol (2008) 1.56
A trispecies Aspergillus microarray: comparative transcriptomics of three Aspergillus species. Proc Natl Acad Sci U S A (2008) 1.56
BioMet Toolbox: genome-wide analysis of metabolism. Nucleic Acids Res (2010) 1.55
Enhancing sesquiterpene production in Saccharomyces cerevisiae through in silico driven metabolic engineering. Metab Eng (2009) 1.55
Optimal growth and ethanol production from xylose by recombinant Saccharomyces cerevisiae require moderate D-xylulokinase activity. Appl Environ Microbiol (2003) 1.52
Sampling the solution space in genome-scale metabolic networks reveals transcriptional regulation in key enzymes. PLoS Comput Biol (2010) 1.52
High-throughput metabolic state analysis: the missing link in integrated functional genomics of yeasts. Biochem J (2005) 1.47
Metabolic model integration of the bibliome, genome, metabolome and reactome of Aspergillus niger. Mol Syst Biol (2008) 1.47
Use of genome-scale microbial models for metabolic engineering. Curr Opin Biotechnol (2004) 1.45
Increased female-male mortality ratio associated with inactivated polio and diphtheria-tetanus-pertussis vaccines: Observations from vaccination trials in Guinea-Bissau. Pediatr Infect Dis J (2007) 1.44
TBscore: Signs and symptoms from tuberculosis patients in a low-resource setting have predictive value and may be used to assess clinical course. Scand J Infect Dis (2008) 1.44
The metabolic response of heterotrophic Arabidopsis cells to oxidative stress. Plant Physiol (2006) 1.43
Characterization of different promoters for designing a new expression vector in Saccharomyces cerevisiae. Yeast (2010) 1.41
Microbial translocation correlates with the severity of both HIV-1 and HIV-2 infections. J Infect Dis (2010) 1.40
Comparative genomics of xylose-fermenting fungi for enhanced biofuel production. Proc Natl Acad Sci U S A (2011) 1.39
Characterization of global yeast quantitative proteome data generated from the wild-type and glucose repression saccharomyces cerevisiae strains: the comparison of two quantitative methods. J Proteome Res (2008) 1.39
Fermentation performance of engineered and evolved xylose-fermenting Saccharomyces cerevisiae strains. Biotechnol Bioeng (2004) 1.38
Post-genomic insights into the plant polysaccharide degradation potential of Aspergillus nidulans and comparison to Aspergillus niger and Aspergillus oryzae. Fungal Genet Biol (2009) 1.35
Simultaneous analysis of amino and nonamino organic acids as methyl chloroformate derivatives using gas chromatography-mass spectrometry. Anal Biochem (2003) 1.33
Testing the hypothesis that diphtheria-tetanus-pertussis vaccine has negative non-specific and sex-differential effects on child survival in high-mortality countries. BMJ Open (2012) 1.33
Systems biology of antibiotic production by microorganisms. Nat Prod Rep (2007) 1.27
A closer look at bacteroides: phylogenetic relationship and genomic implications of a life in the human gut. Microb Ecol (2011) 1.27
Establishing a platform cell factory through engineering of yeast acetyl-CoA metabolism. Metab Eng (2012) 1.27
Ethanol fermentation on the move. Nat Biotechnol (2005) 1.27
Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling. Mol Syst Biol (2014) 1.26
Integration of clinical data with a genome-scale metabolic model of the human adipocyte. Mol Syst Biol (2013) 1.26
Production of plant sesquiterpenes in Saccharomyces cerevisiae: effect of ERG9 repression on sesquiterpene biosynthesis. Biotechnol Bioeng (2008) 1.26
Versatile enzyme expression and characterization system for Aspergillus nidulans, with the Penicillium brevicompactum polyketide synthase gene from the mycophenolic acid gene cluster as a test case. Appl Environ Microbiol (2011) 1.25
Comparison of SHF and SSF processes from steam-exploded wheat straw for ethanol production by xylose-fermenting and robust glucose-fermenting Saccharomyces cerevisiae strains. Biotechnol Bioeng (2008) 1.25
Sex differential effects of routine immunizations and childhood survival in rural Malawi. Pediatr Infect Dis J (2006) 1.25
Evolutionary engineering strategies to enhance tolerance of xylose utilizing recombinant yeast to inhibitors derived from spruce biomass. Biotechnol Biofuels (2012) 1.25
From genomes to in silico cells via metabolic networks. Curr Opin Biotechnol (2005) 1.24
A systems biology approach to study glucose repression in the yeast Saccharomyces cerevisiae. Biotechnol Bioeng (2007) 1.23
Saccharomyces cerevisiae engineered for xylose metabolism exhibits a respiratory response. Appl Environ Microbiol (2004) 1.22
In silico genome-scale reconstruction and validation of the Corynebacterium glutamicum metabolic network. Biotechnol Bioeng (2009) 1.22
EasyClone: method for iterative chromosomal integration of multiple genes in Saccharomyces cerevisiae. FEMS Yeast Res (2013) 1.22
Measuring enzyme activities under standardized in vivo-like conditions for systems biology. FEBS J (2010) 1.21
Fifteen years of large scale metabolic modeling of yeast: developments and impacts. Biotechnol Adv (2011) 1.20
Analysis of Aspergillus nidulans metabolism at the genome-scale. BMC Genomics (2008) 1.20
Correlation between the presence of neutralizing antibodies against porcine circovirus 2 (PCV2) and protection against replication of the virus and development of PCV2-associated disease. BMC Vet Res (2006) 1.20
Prospects of yeast systems biology for human health: integrating lipid, protein and energy metabolism. FEMS Yeast Res (2010) 1.20
Natural computation meta-heuristics for the in silico optimization of microbial strains. BMC Bioinformatics (2008) 1.20
Stoichiometric network constraints on xylose metabolism by recombinant Saccharomyces cerevisiae. Metab Eng (2004) 1.19
Transcription factor control of growth rate dependent genes in Saccharomyces cerevisiae: a three factor design. BMC Genomics (2008) 1.19
Metabolic network driven analysis of genome-wide transcription data from Aspergillus nidulans. Genome Biol (2006) 1.19
Screening genus Penicillium for producers of cellulolytic and xylanolytic enzymes. Appl Biochem Biotechnol (2004) 1.19
Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. Nat Commun (2010) 1.18
Characterization of chromosomal integration sites for heterologous gene expression in Saccharomyces cerevisiae. Yeast (2009) 1.18
Molecular basis for mycophenolic acid biosynthesis in Penicillium brevicompactum. Appl Environ Microbiol (2011) 1.17
Molecular cloning of XYL3 (D-xylulokinase) from Pichia stipitis and characterization of its physiological function. Appl Environ Microbiol (2002) 1.16
Genome-scale modeling of human metabolism - a systems biology approach. Biotechnol J (2013) 1.16
Genome-scale metabolic reconstructions of Pichia stipitis and Pichia pastoris and in silico evaluation of their potentials. BMC Syst Biol (2012) 1.16
Improved annotation through genome-scale metabolic modeling of Aspergillus oryzae. BMC Genomics (2008) 1.15
Genome-wide transcriptional response of a Saccharomyces cerevisiae strain with an altered redox metabolism. Biotechnol Bioeng (2004) 1.15
Identification of in vivo enzyme activities in the cometabolism of glucose and acetate by Saccharomyces cerevisiae by using 13C-labeled substrates. Eukaryot Cell (2003) 1.15
A functional genomics approach using metabolomics and in silico pathway analysis. Biotechnol Bioeng (2002) 1.14
Understanding the interactions between bacteria in the human gut through metabolic modeling. Sci Rep (2013) 1.14
Opportunities for yeast metabolic engineering: Lessons from synthetic biology. Biotechnol J (2011) 1.14
Improvement of galactose uptake in Saccharomyces cerevisiae through overexpression of phosphoglucomutase: example of transcript analysis as a tool in inverse metabolic engineering. Appl Environ Microbiol (2005) 1.14