(Q83265557)

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On the discordance of metabolomics with proteomics and transcriptomics: coping with increasing complexity in logic, chemistry, and network interactions scientific correspondence

scientific article published on 17 January 2012

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scholarly article

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22253257%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

On the discordance of metabolomics with proteomics and transcriptomics: coping with increasing complexity in logic, chemistry, and network interactions scientific correspondence (English)

1 reference

Europe PubMed Central

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20 January 2020

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transcriptomics

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Alisdair R Fernie

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Alisdair R Fernie

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Europe PubMed Central

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20 January 2020

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Mark Stitt

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Europe PubMed Central

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20 January 2020

publication date

17 January 2012

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22253257%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

Plant Physiology

1 reference

Europe PubMed Central

PubMed publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22253257%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

158

1 reference

Europe PubMed Central

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20 January 2020

3

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Europe PubMed Central

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20 January 2020

1139-1145

1 reference

Europe PubMed Central

PubMed publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22253257%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

Dynamic imaging of glucose flux impedance using FRET sensors in wild-type Arabidopsis plants

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

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Metabolite annotations based on the integration of mass spectral information

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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The metabolic response of heterotrophic Arabidopsis cells to oxidative stress

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

High-density kinetic analysis of the metabolomic and transcriptomic response of Arabidopsis to eight environmental conditions

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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'Unknown' proteins and 'orphan' enzymes: the missing half of the engineering parts list--and how to find it

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Lysine acetylation is a widespread protein modification for diverse proteins in Arabidopsis.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Integration of metabolite with transcript and enzyme activity profiling during diurnal cycles in Arabidopsis rosettes

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Network biology: understanding the cell's functional organization

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Deciphering the transcriptional regulatory logic of amino acid metabolism

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Vacuolar compartmentation complicates the steady-state analysis of glucose metabolism and forces reappraisal of sucrose cycling in plants

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regulation of Sucrose Synthesis by Cytoplasmic Fructosebisphosphatase and Sucrose Phosphate Synthase during Photosynthesis in Varying Light and Carbon Dioxide

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The secondary metabolism of Arabidopsis thaliana: growing like a weed

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

PlaNet: combined sequence and expression comparisons across plant networks derived from seven species

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Not just a circle: flux modes in the plant TCA cycle

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Silent genes given voice

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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A cytosolic pathway for the conversion of hydroxypyruvate to glycerate during photorespiration in Arabidopsis

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Metabolite profiling: from diagnostics to systems biology

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Co-expression tools for plant biology: opportunities for hypothesis generation and caveats

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signaling

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Metabolomics-driven quantitative analysis of ammonia assimilation in E. coli

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Compartmentation of organic acids in corn roots I. Differential labeling of 2 malate pools

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Global quantification of mammalian gene expression control

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Combined transcript and metabolite profiling of Arabidopsis grown under widely variant growth conditions facilitates the identification of novel metabolite-mediated regulation of gene expression

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Adenine nucleotide levels in the cytosol, chloroplasts, and mitochondria of wheat leaf protoplasts

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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PlantMetabolomics.org: a web portal for plant metabolomics experiments

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Flux-balance modeling of plant metabolism.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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High-Resolution Direct Infusion-Based Mass Spectrometry in Combination with Whole13C Metabolome Isotope Labeling Allows Unambiguous Assignment of Chemical Sum Formulas

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Kinetics of labelling of organic and amino acids in potato tubers by gas chromatography-mass spectrometry following incubation in (13)C labelled isotopes

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Fluxomics: mass spectrometry versus quantitative imaging

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Normal growth of Arabidopsis requires cytosolic invertase but not sucrose synthase

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Mitochondrial metabolism in developing embryos of Brassica napus

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Mapping photoautotrophic metabolism with isotopically nonstationary (13)C flux analysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Comparative phosphoproteome profiling reveals a function of the STN8 kinase in fine-tuning of cyclic electron flow (CEF)

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Use of reverse-phase liquid chromatography, linked to tandem mass spectrometry, to profile the Calvin cycle and other metabolic intermediates in Arabidopsis rosettes at different carbon dioxide concentrations

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Parallel analysis of transcript and metabolic profiles: a new approach in systems biology

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Metabolic network fluxes in heterotrophic Arabidopsis cells: stability of the flux distribution under different oxygenation conditions

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Induction of respiratory metabolism in illuminated Chlorella pyrenoidosa and isolated spinach chloroplasts by the addition of vitamin K5

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Metabolic aspects of enzyme activity regulation

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Rubisco without the Calvin cycle improves the carbon efficiency of developing green seeds.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Insights into plant metabolic networks from steady-state metabolic flux analysis.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Experimental flux measurements on a network scale

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Highly sensitive and high-throughput analysis of plant hormones using MS-probe modification and liquid chromatography-tandem mass spectrometry: an application for hormone profiling in Oryza sativa

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mass spectrometry-based proteomics

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Estimation of metabolic fluxes, expression levels and metabolite dynamics of a secondary metabolic pathway in potato using label pulse-feeding experiments combined with kinetic network modelling and simulation

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

GC-EI-TOF-MS analysis of in vivo carbon-partitioning into soluble metabolite pools of higher plants by monitoring isotope dilution after 13CO2 labelling

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Ribosome and transcript copy numbers, polysome occupancy and enzyme dynamics in Arabidopsis.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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The fluxes through glycolytic enzymes in Saccharomyces cerevisiae are predominantly regulated at posttranscriptional levels

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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GC-MS libraries for the rapid identification of metabolites in complex biological samples

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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A Robot-based platform to measure multiple enzyme activities in Arabidopsis using a set of cycling assays: comparison of changes of enzyme activities and transcript levels during diurnal cycles and in prolonged darkness

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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GMD@CSB.DB: the Golm Metabolome Database

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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The Arabidopsis thaliana 2-D gel mitochondrial proteome: Refining the value of reference maps for assessing protein abundance, contaminants and post-translational modifications.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Metabolic control and regulation of the tricarboxylic acid cycle in photosynthetic and heterotrophic plant tissues

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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The importance of uniformity in reporting protein-function data

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Metabolite levels during induction in the chloroplast and extrachloroplast compartments of spinach protoplasts

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Plant peroxisomes respire in the light: some gaps of the photorespiratory C2 cycle have become filled--others remain.

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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In Silico Atomic Tracing by Substrate-Product Relationships in Escherichia coli Intermediary Metabolism

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Combining genetic diversity, informatics and metabolomics to facilitate annotation of plant gene function

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

based on heuristic

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Recommendations for reporting metabolite data

1 reference

https://pubmed.ncbi.nlm.nih.gov/22253257

12 December 2020

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