Published in Bioinformatics on January 19, 2008
Advances in structure elucidation of small molecules using mass spectrometry. Bioanal Rev (2010) 1.76
The MetabolomeExpress Project: enabling web-based processing, analysis and transparent dissemination of GC/MS metabolomics datasets. BMC Bioinformatics (2010) 1.68
Identification of the 2-hydroxyglutarate and isovaleryl-CoA dehydrogenases as alternative electron donors linking lysine catabolism to the electron transport chain of Arabidopsis mitochondria. Plant Cell (2010) 1.63
The volatile compound BinBase mass spectral database. BMC Bioinformatics (2011) 1.55
Combining genetic diversity, informatics and metabolomics to facilitate annotation of plant gene function. Nat Protoc (2010) 1.51
Decision tree supported substructure prediction of metabolites from GC-MS profiles. Metabolomics (2010) 1.51
Developmental stage specificity and the role of mitochondrial metabolism in the response of Arabidopsis leaves to prolonged mild osmotic stress. Plant Physiol (2009) 1.44
Transcript and metabolite profiling of the adaptive response to mild decreases in oxygen concentration in the roots of arabidopsis plants. Ann Bot (2008) 1.43
TargetSearch--a Bioconductor package for the efficient preprocessing of GC-MS metabolite profiling data. BMC Bioinformatics (2009) 1.40
Metabolic fluxes in an illuminated Arabidopsis rosette. Plant Cell (2013) 1.36
Glycolysis and the tricarboxylic acid cycle are linked by alanine aminotransferase during hypoxia induced by waterlogging of Lotus japonicus. Plant Physiol (2010) 1.32
Inter-laboratory reproducibility of fast gas chromatography-electron impact-time of flight mass spectrometry (GC-EI-TOF/MS) based plant metabolomics. Metabolomics (2009) 1.27
Metabolic profiling reveals local and systemic responses of host plants to nematode parasitism. Plant J (2010) 1.27
A statistically rigorous test for the identification of parent-fragment pairs in LC-MS datasets. Anal Chem (2010) 1.20
AtMyb41 regulates transcriptional and metabolic responses to osmotic stress in Arabidopsis. Plant Physiol (2009) 1.18
GC/MS based metabolomics: development of a data mining system for metabolite identification by using soft independent modeling of class analogy (SIMCA). BMC Bioinformatics (2011) 1.15
Deciphering transcriptional and metabolic networks associated with lysine metabolism during Arabidopsis seed development. Plant Physiol (2009) 1.15
Metabolome phenotyping of inorganic carbon limitation in cells of the wild type and photorespiratory mutants of the cyanobacterium Synechocystis sp. strain PCC 6803. Plant Physiol (2008) 1.12
Comprehensive dissection of spatiotemporal metabolic shifts in primary, secondary, and lipid metabolism during developmental senescence in Arabidopsis. Plant Physiol (2013) 1.12
Modulation of the major paths of carbon in photorespiratory mutants of synechocystis. PLoS One (2011) 1.12
Metabolomics as a tool to investigate abiotic stress tolerance in plants. Int J Mol Sci (2013) 1.11
Bioinformatics tools for cancer metabolomics. Metabolomics (2011) 1.10
Tissue metabolic responses to salt stress in wild and cultivated barley. PLoS One (2013) 1.10
PyMS: a Python toolkit for processing of gas chromatography-mass spectrometry (GC-MS) data. Application and comparative study of selected tools. BMC Bioinformatics (2012) 1.08
Regulation of Primary Metabolism in Response to Low Oxygen Availability as Revealed by Carbon and Nitrogen Isotope Redistribution. Plant Physiol (2015) 1.08
Predicting Arabidopsis freezing tolerance and heterosis in freezing tolerance from metabolite composition. Mol Plant (2009) 1.07
Metabolomics unravel contrasting effects of biodiversity on the performance of individual plant species. PLoS One (2010) 1.07
Identification of drought tolerance markers in a diverse population of rice cultivars by expression and metabolite profiling. PLoS One (2013) 1.06
Metabolic and transcriptomic phenotyping of inorganic carbon acclimation in the Cyanobacterium Synechococcus elongatus PCC 7942. Plant Physiol (2011) 1.06
Increasing sucrose uptake capacity of wheat grains stimulates storage protein synthesis. Plant Physiol (2009) 1.05
Postgenomics diagnostics: metabolomics approaches to human blood profiling. OMICS (2013) 1.03
Computational mass spectrometry for small molecules. J Cheminform (2013) 1.01
Toward the storage metabolome: profiling the barley vacuole. Plant Physiol (2011) 1.00
Autoinducers act as biological timers in Vibrio harveyi. PLoS One (2012) 0.98
Targeted enhancement of glutamate-to-γ-aminobutyrate conversion in Arabidopsis seeds affects carbon-nitrogen balance and storage reserves in a development-dependent manner. Plant Physiol (2011) 0.96
Potato snakin-1 gene silencing affects cell division, primary metabolism, and cell wall composition. Plant Physiol (2011) 0.96
Virus-induced gene silencing of plastidial soluble inorganic pyrophosphatase impairs essential leaf anabolic pathways and reduces drought stress tolerance in Nicotiana benthamiana. Plant Physiol (2010) 0.95
Dynamic transcriptional and metabolic responses in yeast adapting to temperature stress. OMICS (2010) 0.95
Towards a systemic metabolic signature of the arbuscular mycorrhizal interaction. Oecologia (2011) 0.93
Systems Analysis of the Response of Photosynthesis, Metabolism, and Growth to an Increase in Irradiance in the Photosynthetic Model Organism Chlamydomonas reinhardtii. Plant Cell (2014) 0.92
Metabolic profiling of Arabidopsis thaliana epidermal cells. J Exp Bot (2010) 0.92
Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics. PLoS One (2011) 0.91
Transcriptomic analysis of the role of carboxylic acids in metabolite signaling in Arabidopsis leaves. Plant Physiol (2013) 0.91
Characterization of leaf apoplastic peroxidases and metabolites in Vigna unguiculata in response to toxic manganese supply and silicon. J Exp Bot (2009) 0.90
Recent applications of metabolomics toward cyanobacteria. Metabolites (2013) 0.89
Quantifying protein synthesis and degradation in arabidopsis by dynamic 13CO2 labeling and analysis of enrichment in individual amino acids in their free pools and in protein. Plant Physiol (2015) 0.88
Reversal of senescence by N resupply to N-starved Arabidopsis thaliana: transcriptomic and metabolomic consequences. J Exp Bot (2014) 0.88
Transcriptome and metabolome reprogramming in Vitis vinifera cv. Trincadeira berries upon infection with Botrytis cinerea. J Exp Bot (2015) 0.88
Search for transcriptional and metabolic markers of grape pre-ripening and ripening and insights into specific aroma development in three Portuguese cultivars. PLoS One (2013) 0.88
Coupling virus-induced gene silencing to exogenous green fluorescence protein expression provides a highly efficient system for functional genomics in Arabidopsis and across all stages of tomato fruit development. Plant Physiol (2011) 0.88
Identification of Arabidopsis mutants impaired in the systemic regulation of root nitrate uptake by the nitrogen status of the plant. Plant Physiol (2010) 0.88
Antisense suppression of the small chloroplast protein CP12 in tobacco alters carbon partitioning and severely restricts growth. Plant Physiol (2011) 0.87
Overexpression of sinapine esterase BnSCE3 in oilseed rape seeds triggers global changes in seed metabolism. Plant Physiol (2011) 0.87
SIMAT: GC-SIM-MS data analysis tool. BMC Bioinformatics (2015) 0.87
Dissecting rice polyamine metabolism under controlled long-term drought stress. PLoS One (2013) 0.86
iMS2Flux--a high-throughput processing tool for stable isotope labeled mass spectrometric data used for metabolic flux analysis. BMC Bioinformatics (2012) 0.85
Alteration in expression of hormone-related genes in wild emmer wheat roots associated with drought adaptation mechanisms. Funct Integr Genomics (2011) 0.85
Arabidopsis PIAL1 and 2 promote SUMO chain formation as E4-type SUMO ligases and are involved in stress responses and sulfur metabolism. Plant Cell (2014) 0.85
Metabolic and miRNA profiling of TMV infected plants reveals biphasic temporal changes. PLoS One (2011) 0.85
Arabidopsis thaliana glyoxalase 2-1 is required during abiotic stress but is not essential under normal plant growth. PLoS One (2014) 0.84
Transcriptomic and metabolic changes associated with photorespiratory ammonium accumulation in the model legume Lotus japonicus. Plant Physiol (2013) 0.84
Comparative metabolic profiling of Haberlea rhodopensis, Thellungiella halophyla, and Arabidopsis thaliana exposed to low temperature. Front Plant Sci (2013) 0.83
Dissecting the subcellular compartmentation of proteins and metabolites in arabidopsis leaves using non-aqueous fractionation. Mol Cell Proteomics (2014) 0.83
Metabolite profiling and integrative modeling reveal metabolic constraints for carbon partitioning under nitrogen starvation in the green algae Haematococcus pluvialis. J Biol Chem (2014) 0.83
Separating drought effects from roof artifacts on ecosystem processes in a grassland drought experiment. PLoS One (2013) 0.83
Identification of Conserved and Diverse Metabolic Shifts during Rice Grain Development. Sci Rep (2016) 0.82
Dissection of jasmonate functions in tomato stamen development by transcriptome and metabolome analyses. BMC Biol (2015) 0.82
Flux profiling of photosynthetic carbon metabolism in intact plants. Nat Protoc (2014) 0.82
Systems-wide analysis of acclimation responses to long-term heat stress and recovery in the photosynthetic model organism Chlamydomonas reinhardtii. Plant Cell (2014) 0.81
Validated and predictive processing of gas chromatography-mass spectrometry based metabolomics data for large scale screening studies, diagnostics and metabolite pattern verification. Metabolites (2012) 0.81
Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum. BMC Syst Biol (2012) 0.81
Uric acid accumulation in an Arabidopsis urate oxidase mutant impairs seedling establishment by blocking peroxisome maintenance. Plant Cell (2014) 0.81
Multi-platform metabolomics analyses of a broad collection of fragrant and non-fragrant rice varieties reveals the high complexity of grain quality characteristics. Metabolomics (2016) 0.81
Pyrophosphate levels strongly influence ascorbate and starch content in tomato fruit. Front Plant Sci (2013) 0.80
Rationales and approaches for studying metabolism in eukaryotic microalgae. Metabolites (2014) 0.80
Perturbations in the Primary Metabolism of Tomato and Arabidopsis thaliana Plants Infected with the Soil-Borne Fungus Verticillium dahliae. PLoS One (2015) 0.79
Inhibition of mitochondrial 2-oxoglutarate dehydrogenase impairs viability of cancer cells in a cell-specific metabolism-dependent manner. Oncotarget (2016) 0.79
The Interplay between Sulfur and Iron Nutrition in Tomato. Plant Physiol (2015) 0.79
Extraction of pure components from overlapped signals in gas chromatography-mass spectrometry (GC-MS). BioData Min (2009) 0.79
The plant growth promoting substance, lumichrome, mimics starch, and ethylene-associated symbiotic responses in lotus and tomato roots. Front Plant Sci (2012) 0.79
Metabolomic profiling in tomato reveals diel compositional changes in fruit affected by source-sink relationships. J Exp Bot (2015) 0.78
Chemotaxonomic study of Citrus, Poncirus and Fortunella genotypes based on peel oil volatile compounds--deciphering the genetic origin of Mangshanyegan (Citrus nobilis Lauriro). PLoS One (2013) 0.78
Cytoskeletal Components Define Protein Location to Membrane Microdomains. Mol Cell Proteomics (2015) 0.78
Piriformospora indica Stimulates Root Metabolism of Arabidopsis thaliana. Int J Mol Sci (2016) 0.78
Symbiosis dependent accumulation of primary metabolites in arbuscule-containing cells. BMC Plant Biol (2015) 0.78
Identifying and quantifying metabolites by scoring peaks of GC-MS data. BMC Bioinformatics (2014) 0.78
Network and biosignature analysis for the integration of transcriptomic and metabolomic data to characterize leaf senescence process in sunflower. BMC Bioinformatics (2016) 0.78
Double overexpression of DREB and PIF transcription factors improves drought stress tolerance and cell elongation in transgenic plants. Plant Biotechnol J (2016) 0.77
High-throughput screening of a Corynebacterium glutamicum mutant library on genomic and metabolic level. PLoS One (2014) 0.77
Global analysis of the role of autophagy in cellular metabolism and energy homeostasis in Arabidopsis seedlings under carbon starvation. Plant Cell (2015) 0.77
Knocking down mitochondrial iron transporter (MIT) reprograms primary and secondary metabolism in rice plants. J Exp Bot (2015) 0.77
Global Metabolic Profiling of Arabidopsis Polyamine Oxidase 4 (AtPAO4) Loss-of-Function Mutants Exhibiting Delayed Dark-Induced Senescence. Front Plant Sci (2016) 0.77
Functional associations between the metabolome and manganese tolerance in Vigna unguiculata. J Exp Bot (2011) 0.76
Macaques exhibit a naturally-occurring depression similar to humans. Sci Rep (2015) 0.76
Glutamate and lipid metabolic perturbation in the hippocampi of asymptomatic borna disease virus-infected horses. PLoS One (2014) 0.76
A new synthetic biology approach allows transfer of an entire metabolic pathway from a medicinal plant to a biomass crop. Elife (2016) 0.76
Cytoplasmic genome substitution in wheat affects the nuclear-cytoplasmic cross-talk leading to transcript and metabolite alterations. BMC Genomics (2013) 0.76
A core set of metabolite sink/source ratios indicative for plant organ productivity in Lotus japonicus. Planta (2012) 0.76
Proposed minimum reporting standards for chemical analysis Chemical Analysis Working Group (CAWG) Metabolomics Standards Initiative (MSI). Metabolomics (2007) 6.93
Gas chromatography mass spectrometry-based metabolite profiling in plants. Nat Protoc (2006) 6.33
Comprehensive metabolic profiling and phenotyping of interspecific introgression lines for tomato improvement. Nat Biotechnol (2006) 4.47
Potential of metabolomics as a functional genomics tool. Trends Plant Sci (2004) 4.10
A proposed framework for the description of plant metabolomics experiments and their results. Nat Biotechnol (2004) 3.32
Exploring the temperature-stress metabolome of Arabidopsis. Plant Physiol (2004) 3.30
GC-MS libraries for the rapid identification of metabolites in complex biological samples. FEBS Lett (2005) 3.29
CSB.DB: a comprehensive systems-biology database. Bioinformatics (2004) 2.98
Construction and application of a mass spectral and retention time index database generated from plant GC/EI-TOF-MS metabolite profiles. Phytochemistry (2003) 1.99
Global changes in transcription orchestrate metabolic differentiation during symbiotic nitrogen fixation in Lotus japonicus. Plant J (2004) 1.99
Systems rebalancing of metabolism in response to sulfur deprivation, as revealed by metabolome analysis of Arabidopsis plants. Plant Physiol (2005) 1.89
Metabolomics of temperature stress. Physiol Plant (2008) 1.87
Parallel analysis of transcript and metabolic profiles: a new approach in systems biology. EMBO Rep (2003) 1.76
Downregulation of cinnamoyl-coenzyme A reductase in poplar: multiple-level phenotyping reveals effects on cell wall polymer metabolism and structure. Plant Cell (2007) 1.71
Inferring hypotheses on functional relationships of genes: Analysis of the Arabidopsis thaliana subtilase gene family. PLoS Comput Biol (2005) 1.67
Phosphorus stress in common bean: root transcript and metabolic responses. Plant Physiol (2007) 1.65
Recommendations for reporting metabolite data. Plant Cell (2011) 1.61
Metabolome analysis: the potential of in vivo labeling with stable isotopes for metabolite profiling. Trends Biotechnol (2005) 1.59
DOF transcription factor AtDof1.1 (OBP2) is part of a regulatory network controlling glucosinolate biosynthesis in Arabidopsis. Plant J (2006) 1.56
Plant metabolomics reveals conserved and divergent metabolic responses to salinity. Physiol Plant (2008) 1.56
Decision tree supported substructure prediction of metabolites from GC-MS profiles. Metabolomics (2010) 1.51
Identification of brassinosteroid-related genes by means of transcript co-response analyses. Nucleic Acids Res (2005) 1.50
Transcript and metabolite profiling of the adaptive response to mild decreases in oxygen concentration in the roots of arabidopsis plants. Ann Bot (2008) 1.43
Retention index thresholds for compound matching in GC-MS metabolite profiling. J Chromatogr B Analyt Technol Biomed Life Sci (2008) 1.42
Lotus japonicus metabolic profiling. Development of gas chromatography-mass spectrometry resources for the study of plant-microbe interactions. Plant Physiol (2005) 1.40
Nonsupervised construction and application of mass spectral and retention time index libraries from time-of-flight gas chromatography-mass spectrometry metabolite profiles. Methods Mol Biol (2007) 1.32
Integrative functional genomics of salt acclimatization in the model legume Lotus japonicus. Plant J (2007) 1.31
Inter-laboratory reproducibility of fast gas chromatography-electron impact-time of flight mass spectrometry (GC-EI-TOF/MS) based plant metabolomics. Metabolomics (2009) 1.27
Metabolic profiling reveals local and systemic responses of host plants to nematode parasitism. Plant J (2010) 1.27
Molecular phenotyping of lignin-modified tobacco reveals associated changes in cell-wall metabolism, primary metabolism, stress metabolism and photorespiration. Plant J (2007) 1.24
GC-EI-TOF-MS analysis of in vivo carbon-partitioning into soluble metabolite pools of higher plants by monitoring isotope dilution after 13CO2 labelling. Phytochemistry (2007) 1.23
A central role of abscisic acid in stress-regulated carbohydrate metabolism. PLoS One (2008) 1.23
Non-linear PCA: a missing data approach. Bioinformatics (2005) 1.22
An automated GCxGC-TOF-MS protocol for batch-wise extraction and alignment of mass isotopomer matrixes from differential 13C-labelling experiments: a case study for photoautotrophic-mixotrophic grown Chlamydomonas reinhardtii cells. J Basic Microbiol (2009) 1.17
Regulation of arbuscular mycorrhization by apoplastic invertases: enhanced invertase activity in the leaf apoplast affects the symbiotic interaction. Plant J (2007) 1.14
Phospholipase C is required for the control of stomatal aperture by ABA. Plant J (2003) 1.13
Comprehensive dissection of spatiotemporal metabolic shifts in primary, secondary, and lipid metabolism during developmental senescence in Arabidopsis. Plant Physiol (2013) 1.12
Metabolome phenotyping of inorganic carbon limitation in cells of the wild type and photorespiratory mutants of the cyanobacterium Synechocystis sp. strain PCC 6803. Plant Physiol (2008) 1.12
Modulation of the major paths of carbon in photorespiratory mutants of synechocystis. PLoS One (2011) 1.12
Metabolic labeling of plant cell cultures with K(15)NO3 as a tool for quantitative analysis of proteins and metabolites. Plant Methods (2006) 1.12
Metabolome and water homeostasis analysis of Thellungiella salsuginea suggests that dehydration tolerance is a key response to osmotic stress in this halophyte. Plant J (2010) 1.10
Organization and metabolism of plastids and mitochondria in arbuscular mycorrhizal roots of Medicago truncatula. Plant Physiol (2005) 1.08
Predicting Arabidopsis freezing tolerance and heterosis in freezing tolerance from metabolite composition. Mol Plant (2009) 1.07
Profiling of diurnal patterns of metabolite and transcript abundance in potato (Solanum tuberosum) leaves. Planta (2005) 1.07
Simultaneous interaction of Arabidopsis thaliana with Bradyrhizobium Sp. strain ORS278 and Pseudomonas syringae pv. tomato DC3000 leads to complex transcriptome changes. Mol Plant Microbe Interact (2008) 1.07
Genetic and genomic analysis of legume flowers and seeds. Curr Opin Plant Biol (2006) 1.07
Cyanobacterial lactate oxidases serve as essential partners in N2 fixation and evolved into photorespiratory glycolate oxidases in plants. Plant Cell (2011) 1.07
Identification of drought tolerance markers in a diverse population of rice cultivars by expression and metabolite profiling. PLoS One (2013) 1.06
Metabolic and transcriptomic phenotyping of inorganic carbon acclimation in the Cyanobacterium Synechococcus elongatus PCC 7942. Plant Physiol (2011) 1.06
Global changes in the transcript and metabolic profiles during symbiotic nitrogen fixation in phosphorus-stressed common bean plants. Plant Physiol (2009) 1.05
A plastid-localized glycogen synthase kinase 3 modulates stress tolerance and carbohydrate metabolism. Plant J (2007) 1.05
Increasing sucrose uptake capacity of wheat grains stimulates storage protein synthesis. Plant Physiol (2009) 1.05
Metabolic pathway relationships revealed by an integrative analysis of the transcriptional and metabolic temperature stress-response dynamics in yeast. OMICS (2010) 1.04
A rapid approach for phenotype-screening and database independent detection of cSNP/protein polymorphism using mass accuracy precursor alignment. Proteomics (2008) 1.03
Comprehensive chemical derivatization for gas chromatography-mass spectrometry-based multi-targeted profiling of the major phytohormones. J Chromatogr A (2003) 1.03
Extensive metabolic cross-talk in melon fruit revealed by spatial and developmental combinatorial metabolomics. New Phytol (2011) 1.01
Autoinducers act as biological timers in Vibrio harveyi. PLoS One (2012) 0.98
Gender-dependent associations of metabolite profiles and body fat distribution in a healthy population with central obesity: towards metabolomics diagnostics. OMICS (2012) 0.97
Hypothesis-driven approach to predict transcriptional units from gene expression data. Bioinformatics (2004) 0.96
Discovering plant metabolic biomarkers for phenotype prediction using an untargeted approach. Plant Biotechnol J (2010) 0.96
Dynamic transcriptional and metabolic responses in yeast adapting to temperature stress. OMICS (2010) 0.95
Comparative metabolomics of drought acclimation in model and forage legumes. Plant Cell Environ (2011) 0.94
Identification of primary and secondary metabolites with phosphorus status-dependent abundance in Arabidopsis, and of the transcription factor PHR1 as a major regulator of metabolic changes during phosphorus limitation. Plant Cell Environ (2014) 0.93
PaVESy: Pathway Visualization and Editing System. Bioinformatics (2004) 0.93
Metabolome and water status phenotyping of Arabidopsis under abiotic stress cues reveals new insight into ESK1 function. Plant Cell Environ (2008) 0.93
Low-carbon acclimation in carboxysome-less and photorespiratory mutants of the cyanobacterium Synechocystis sp. strain PCC 6803. Microbiology (2011) 0.92
Metabolic profiling of Arabidopsis thaliana epidermal cells. J Exp Bot (2010) 0.92
Hybrid weakness controlled by the dosage-dependent lethal (DL) gene system in common bean (Phaseolus vulgaris) is caused by a shoot-derived inhibitory signal leading to salicylic acid-associated root death. New Phytol (2007) 0.92
Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics. PLoS One (2011) 0.91
Characterization of leaf apoplastic peroxidases and metabolites in Vigna unguiculata in response to toxic manganese supply and silicon. J Exp Bot (2009) 0.90
Comparative ionomics and metabolomics in extremophile and glycophytic Lotus species under salt stress challenge the metabolic pre-adaptation hypothesis. Plant Cell Environ (2011) 0.89
Plant metabolomics and its potential for systems biology research background concepts, technology, and methodology. Methods Enzymol (2011) 0.88
Search for transcriptional and metabolic markers of grape pre-ripening and ripening and insights into specific aroma development in three Portuguese cultivars. PLoS One (2013) 0.88