ProbMetab: an R package for Bayesian probabilistic annotation of LC-MS-based metabolomics
Silva, Ricardo R.
Jourdan, Fabien
Salvanha, Diego M.
Letisse, Fabien
Jamin, Emilien L.
Guidetti-Gonzalez, Simone
Labate, Carlos A.
Vencio, Ricardo Z. N.
Bioinformatics, 2014
Létisse Fabien
Fabien Létisse
ORCID: 0000-0002-1490-0152
Absolute Quantification of ppGpp and pppGpp by Double-Spike Isotope Dilution Ion Chromatography–High-Resolution Mass Spectrometry
10.1021/acs.analchem.8b00829
IsoCor: isotope correction for high-resolution MS labeling experiments
10.1093/bioinformatics/btz209
Simultaneous Measurement of Metabolite Concentration and Isotope Incorporation by Mass Spectrometry
10.1021/acs.analchem.9b05709
Control and regulation of acetate overflow in Escherichia coli
10.1101/2020.08.18.255356
Harvesting of Prebiotic Fructooligosaccharides by Nonbeneficial Human Gut Bacteria
10.1128/msphere.00771-19
Increasing field strength versus advanced isotope labeling for NMR-based fluxomics
10.1002/mrc.4988
Improved Isotopic Profiling by Pure Shift Heteronuclear 2D J-Resolved NMR Spectroscopy
10.1021/acs.analchem.7b05206
Methodology for the Validation of Isotopic Analyses by Mass Spectrometry in Stable-Isotope Labeling Experiments
10.1021/acs.analchem.7b03886
Systems and synthetic biology perspective of the versatile plant-pathogenic and polysaccharide-producing bacterium Xanthomonas campestris
10.1099/mic.0.000473
Biofilm microenvironment induces a widespread adaptive amino-acid fermentation pathway conferring strong fitness advantage in Escherichia coli
10.1371/journal.pgen.1006800
Plasmid-encoded biosynthetic genes alleviate metabolic disadvantages while increasing glucose conversion to shikimate in an engineeredEscherichia colistrain
10.1002/bit.26264
Acetate fluxes in Escherichia coli are determined by the thermodynamic control of the Pta-AckA pathway
10.1038/srep42135
Multilevel interaction of the DnaK/DnaJ(HSP70/HSP40) stress-responsive chaperone machine with the central metabolism
10.1038/srep41341
Recent advances in high-throughput 13C-fluxomics
10.1016/j.copbio.2016.10.010
Differential quantitative proteome analysis ofEscherichia coligrown on acetate versus glucose
10.1002/pmic.201600303
The post-transcriptional regulatory system CSR controls the balance of metabolic pools in upper glycolysis ofEscherichia coli
10.1111/mmi.13343
Acetate Exposure Determines the Diauxic Behavior of Escherichia coli during the Glucose-Acetate Transition
10.1128/jb.00128-15
Isotopic Studies of Metabolic Systems by Mass Spectrometry: Using Pascal’s Triangle To Produce Biological Standards with Fully Controlled Labeling Patterns
10.1021/ac502490g
Correction of MS Data for Naturally Occurring Isotopes in Isotope Labelling Experiments
10.1007/978-1-4939-1170-7_12
Sampling of intracellular metabolites for stationary and non-stationary 13C metabolic flux analysis in Escherichia coli
10.1016/j.ab.2014.07.026
Sampling for Metabolome Analysis of Microorganisms
10.1021/ac0623888
Carbon flux analysis in a pantothenate overproducing Corynebacterium glutamicum strain
10.1023/A:1020353124066
Kinetic analysis of growth and xanthan gum production with Xanthomonas campestris on sucrose, using sequentially consumed nitrogen sources
10.1007/s002530000580
Application of 2D-TOCSY NMR to the measurement of specific 13C-enrichments in complex mixtures of 13C-labeled metabolites
10.1016/j.ymben.2007.03.001
Determination of carbon labeling distribution of intracellular metabolites from single fragment ions by ion chromatography tandem mass spectrometry
10.1016/j.ab.2006.06.032
IsoDesign: a software for optimizing the design of C-13-metabolic flux analysis experiments
10.1002/bit.24997
Metabolic network analysis during fed-batch cultivation of Corynebacterium glutamicum for pantothenic acid production: first quantitative data and analysis of by-product formation
10.1016/S0168-1656(03)00146-9
Solid/gas biocatalysis: an appropriate tool to study the influence of organic components on kinetics of lipase-catalyzed alcoholysis
10.1016/s1570-9639(03)00262-0
NMR-based fluxomics: Quantitative 2D NMR methods for isotopomers analysis
10.1016/j.phytochem.2007.03.011
Analysis of skeletal muscle metabolome: Evaluation of extraction methods for targeted metabolite quantification using liquid chromatography tandem mass spectrometry
10.1016/j.ab.2009.12.006
Measurement of isotopic enrichments in 13C-labelled molecules by 1D selective Zero-Quantum Filtered TOCSY NMR experiments
10.1016/j.crci.2007.06.018
Metabolite profiling of pea roots in response to phosphate availability
10.4161/psb.6.6.15168
Response of the central metabolism of Escherichia coli to modified expression of the gene encoding the glucose-6-phosphate dehydrogenase
10.1016/j.febslet.2007.06.066
Control of ATP homeostasis during the respiro-fermentative transition in yeast
10.1038/msb.2009.100
Functional genomics of the muscle response to restraint and transport in chickens
10.2527/jas.2010-3288
ProbMetab: an R package for Bayesian probabilistic annotation of LC-MS-based metabolomics
10.1093/bioinformatics/btu019
Developmental stage-dependent metabolic regulation during meiotic differentiation in budding yeast
10.1186/s12915-014-0060-x
Nucleotide degradation and ribose salvage in yeast
10.1038/msb.2013.21
Strigolactone inhibition of shoot branching
10.1038/nature07271
Development of a Phenomenological Modeling Approach for Prediction of Growth and Xanthan Gum Production Using Xanthomonas campestris
10.1021/bp0257168
A two-dimensional population balance model for cell growth including multiple uptake systems
10.1016/j.cherd.2018.02.025
Crucial Role of ppGpp in the Resilience of Escherichia coli to Growth Disruption
10.1128/mSphere.01132-20
The influence of metabolic network structures and energy requirements on xanthan gum yields
10.1016/S0168-1656(02)00221-3
IsoSolve: an integrative framework to improve isotopic coverage and consolidate isotopic measurements by MS and/or NMR
10.1101/2021.03.08.430771
Control and regulation of acetate overflow in Escherichia coli
10.7554/eLife.63661
Functional analysis of deoxyhexose sugar utilization in Escherichia coli reveals fermentative metabolism under aerobic conditions
10.1101/2021.04.12.439581
Engineering precursor pools for increasing production of odd-chain fatty acids in Yarrowia lipolytica
10.1016/j.mec.2020.e00158
An intracellular metabolite quantification technique applicable to polysaccharide-producing bacteria
10.1023/A:1005663526753
IsoCor: Correcting MS data in isotope labeling experiments
10.1093/bioinformatics/bts127
Combining metabolomics and gene expression analysis reveals that propionyl- and butyryl-carnitines are involved in late stages of arbuscular mycorrhizal symbiosis
10.1093/mp/sst136
The Carbon Storage Regulator (Csr) System Exerts a Nutrient-Specific Control over Central Metabolism in Escherichia coli Strain Nissle 1917
10.1371/journal.pone.0066386
IsoSolve: An Integrative Framework to Improve Isotopic Coverage and Consolidate Isotopic Measurements by Mass Spectrometry and/or Nuclear Magnetic Resonance
10.1021/acs.analchem.1c01064
Functional Analysis of Deoxyhexose Sugar Utilization in Escherichia coli Reveals Fermentative Metabolism under Aerobic Conditions
10.1128/AEM.00719-21
Carlos Alberto Labate
Labate Carlos Alberto
/ C.A.Labate
/ C. Labate
ORCID: 0000-0001-7309-1300
Targeted Metabolic Profiles of the Leaves and Xylem Sap of Two Sugarcane Genotypes Infected with the Vascular Bacterial Pathogen Leifsonia xyli subsp. xyli
10.3390/metabo11040234
Light-stimulated T. thermophilus two-domain LPMO9H: Low-resolution SAXS model and synergy with cellulases
10.1016/j.carbpol.2021.117814
Network Analysis Combining Proteomics and Metabolomics Reveals New Insights Into Early Responses of Eucalyptus grandis During Rust Infection
10.3389/fpls.2020.604849
A simple enzymatic assay for the quantification of C1-specific cellulose oxidation by lytic polysaccharide monooxygenases
10.1007/s10529-019-02760-9
Network Analyses and Data Integration of Proteomics and Metabolomics From Leaves of Two Contrasting Varieties of Sugarcane in Response to Drought
10.3389/fpls.2019.01524
Distinct leaf transcriptomic response of water deficient Eucalyptus grandis submitted to potassium and sodium fertilization
10.1371/journal.pone.0218528
Plant Cell Wall Proteomics: A Focus on Monocot Species, Brachypodium distachyon, Saccharum spp. and Oryza sativa
10.3390/ijms20081975
A systems biology view of wood formation in
Eucalyptus grandis
trees submitted to different potassium and water regimes
10.1111/nph.15802
Sugarcane must fed-batch fermentation by Saccharomyces cerevisiae: impact of sterilized and non-sterilized sugarcane must
10.1007/s10482-019-01250-2
The Eucalyptus Cuticular Waxes Contribute in Preformed Defense Against Austropuccinia psidii
10.3389/fpls.2018.01978
Cell Wall Proteome of Sugarcane Young and Mature Leaves and Stems
10.1002/pmic.201700129
Spiroplasma affects host aphid proteomics feeding on two nutritional resources
10.1038/s41598-018-20497-9
Metabolome Dynamics of Smutted Sugarcane Reveals Mechanisms Involved in Disease Progression and Whip Emission
10.3389/fpls.2017.00882
Characterization of the contaminant bacterial communities in sugarcane first-generation industrial ethanol production
10.1093/femsle/fnx159
Metabolomic profiling in follicular fluid of patients with infertility-related deep endometriosis
10.1007/s11306-017-1262-3
Development of a quantitative real-time PCR assay using SYBR Green for early detection and quantification of Austropuccinia psidii in Eucalyptus grandis
10.1007/s10658-017-1321-7
Proteomic profiling identifies N-acetylmuramoyl-l-alanine amidase as a novel biomarker of sepsis
10.2217/bmm-2016-0184
Metabolic profiles of planktonic and biofilm cells ofCandida orthopsilosis
10.2217/fmb-2016-0025
Integrated analysis of gene expression from carbon metabolism, proteome and metabolome, reveals altered primary metabolism in Eucalyptus grandis bark, in response to seasonal variation
10.1186/s12870-016-0839-8
Seasonal Variation of Carbon Metabolism in the Cambial Zone of Eucalyptus grandis
10.3389/fpls.2016.00932
Cell wall proteome of sugarcane stems: comparison of a destructive and a non-destructive extraction method showed differences in glycoside hydrolases and peroxidases
10.1186/s12870-015-0677-0
Label-Free Quantitative Proteomic Analysis of Puccinia psidii Uredospores Reveals Differences of Fungal Populations Infecting Eucalyptus and Guava
10.1371/journal.pone.0145343
Differentially Accumulated Proteins in Coffea arabica Seeds during Perisperm Tissue Development and Their Relationship to Coffee Grain Size
10.1021/acs.jafc.5b04376
Proteomic response of the phytopathogen Phyllosticta citricarpa to antimicrobial volatile organic compounds from Saccharomyces cerevisiae
10.1016/j.micres.2015.11.002
Physiological and transcriptional analyses of developmental stages along sugarcane leaf
10.1186/s12870-015-0694-z
Prospection and Evaluation of (Hemi) Cellulolytic Enzymes Using Untreated and Pretreated Biomasses in Two Argentinean Native Termites
10.1371/journal.pone.0136573
Evaluating the composition and processing potential of novel sources of Brazilian biomass for sustainable biorenewables production
10.1186/1754-6834-7-10
Cell wall proteomics of sugarcane cell suspension cultures
10.1002/pmic.201300132
ProbMetab: an R package for Bayesian probabilistic annotation of LC–MS-based metabolomics
10.1093/bioinformatics/btu019
Heat shock and structural proteins associated with meat tenderness in Nellore beef cattle, a Bos indicus breed
10.1016/j.meatsci.2013.11.014
Genetic Variability in Puccinia psidii Populations as Revealed by PCR-DGGE and T-RFLP Markers
10.1094/pdis-03-13-0332-re
Alterations of protein expression in conditions of copper-deprivation for Paracoccidioides lutzii in the presence of extracellular matrix components
10.1186/s12866-014-0302-7
Renal Proteome in Mice with Different Susceptibilities to Fluorosis
10.1371/journal.pone.0053261
Effects of pretreatment on morphology, chemical composition and enzymatic digestibility of eucalyptus bark: a potentially valuable source of fermentable sugars for biofuel production – part 1
10.1186/1754-6834-6-75
Relationship between N, P, and K and the quality and stem structural characteristics of Caesalpinia echinata Lam. plants
10.1007/s00468-013-0894-9
Proteomic analysis of papaya fruit ripening using 2DE-DIGE
10.1016/j.jprot.2011.11.015
Characterization of a Toxoneuron nigriceps (Viereck) (Hymenoptera: Braconidae) – derived chitinase and its potential for pest control
10.1016/j.pestbp.2012.07.005
Proteomic analysis ofPorphyromonas gingivalisexposed to nicotine and cotinine
10.1111/j.1600-0765.2012.01494.x
Germination, carbohydrate composition and vigor of cryopreserved Caesalpinia echinata seeds
10.1590/s1516-89132012000500004
A simple protocol for whole leaf preparation to investigate the interaction between Puccinia psidii and Eucalyptus grandis
10.1007/s13313-012-0179-6
An EST-based analysis identifies new genes and reveals distinctive gene expression features of Coffea arabica and Coffea canephora
10.1186/1471-2229-11-30
Analysis of the biofilm proteome of Xylella fastidiosa
10.1186/1477-5956-9-58
Phosphoproteomics Profiling Suggests a Role for Nuclear βΙPKC in Transcription Processes of Undifferentiated Murine Embryonic Stem Cells
10.1021/pr100355k
Expression of
Xylella fastidiosa
Fimbrial and Afimbrial Proteins during Biofilm Formation
10.1128/aem.02114-09
Cloning and endogenous expression of a Eucalyptus grandis UDP-glucose dehydrogenase cDNA
10.1590/s1415-47572010005000078
Bacterial community in the rhizosphere and rhizoplane of wild type and transgenic eucalyptus
10.1007/s11274-009-9990-9
Culture-Independent Assessment of Rhizobiales-Related Alphaproteobacteria and the Diversity of Methylobacterium in the Rhizosphere and Rhizoplane of Transgenic Eucalyptus
10.1007/s00248-008-9405-8
Transgenic tobacco revealing altered bacterial diversity in the rhizosphere during early plant development
10.1007/s10482-007-9219-6
SAGE transcript profiling of the juvenile cambial region of Eucalyptus grandis
10.1093/treephys/28.6.905
Comparison of the expression profiles of susceptible and resistant Eucalyptus grandis exposed to Puccinia psidii Winter using SAGE
10.1071/fp07094
Proteomic analysis of the cambial region in juvenileEucalyptus grandis at three ages
10.1002/pmic.200600989
Brazilian coffee genome project: an EST-based genomic resource
10.1590/s1677-04202006000100008
O proteoma da madeira
10.13140/RG.2.2.29820.74888
Constitutive expression of pea Lhcb 1?2 in tobacco affects plant development, morphology and photosynthetic capacity
10.1007/s11103-004-1963-7
Production of transgenic Eucalyptus grandis x E. urophylla using the sonication-assisted Agrobacterium transformation (SAAT) system
10.1071/pp01142
Symptomless infection of banana and maize by endophytic fungi impairs photosynthetic efficiency
10.1046/j.1469-8137.2000.00722.x
Targeting of the soybean leghemoglobin to tobacco chloroplasts: effects on aerobic metabolism in transgenic plants
10.1016/s0168-9452(00)00219-3
Effects of temperature on the regulation of photosynthetic carbon assimilation in leaves of maize and barley
10.1007/bf00193009
Factors influencing the capacity for photosynthetic carbon assimilation in barley leaves at low temperatures
10.1007/bf02341023
Phosphate sequestration by glycerol and its effects on photosynthetic carbon assimilation by leaves
10.1007/bf00392487
Limitation of photosynthesis by changes in temperature
10.1007/bf00958965
Influence of Low Temperature on Respiration and Contents of Phosphorylated Intermediates in Darkened Barley Leaves
10.1104/pp.91.3.905
The pentose phosphate pathway constitutes a major metabolic hub in pathogenic Francisella
10.1371/journal.ppat.1009326
Ricardo da Silva
da Silva Ricardo
ORCID: 0000-0001-6378-0479
Computational Removal of Undesired Mass Spectral Features Possessing Repeat Units via a Kendrick Mass Filter
10.1007/s13361-018-2069-9
Neutrophilic proteolysis in the cystic fibrosis lung correlates with a pathogenic microbiome
10.1186/s40168-019-0636-3
A comparative venomic fingerprinting approach reveals that galling and non-galling fig wasp species have different venom profiles
10.1371/journal.pone.0207051
American Gut: an Open Platform for Citizen Science Microbiome Research
10.1128/mSystems.00031-18
Bioactivity-Based Molecular Networking for the Discovery of Drug Leads in Natural Product Bioassay-Guided Fractionation
10.1021/acs.jnatprod.7b00737
Chemical profiling of two congeneric sea mat corals along the Brazilian coast: adaptive and functional patterns
10.1039/c7cc08411k
Niche partitioning of a pathogenic microbiome driven by chemical gradients
10.1126/sciadv.aau1908
Propagating annotations of molecular networks using in silico fragmentation
10.1371/journal.pcbi.1006089
Targeted Isolation of Neuroprotective Dicoumaroyl Neolignans and Lignans from Sageretia theezans Using in Silico Molecular Network Annotation Propagation-Based Dereplication
10.1021/acs.jnatprod.8b00292
Coupling Targeted and Untargeted Mass Spectrometry for Metabolome-Microbiome-Wide Association Studies of Human Fecal Samples
10.1021/acs.analchem.7b01381
Global chemical analysis of biology by mass spectrometry
10.1038/s41570-017-0054
High-Resolution Liquid Chromatography Tandem Mass Spectrometry Enables Large Scale Molecular Characterization of Dissolved Organic Matter
10.3389/fmars.2017.00405
Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols
10.1021/acsjnatprod.6b00722
Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung
10.1016/j.chom.2017.10.001
Application of MALDI Mass Spectrometry in Natural Products Analysis
10.1055/s-0042-104800
From Sample to Multi-Omics Conclusions in under 48 Hours
10.1128/mSystems.00038-16
Lifestyle chemistries from phones for individual profiling
10.1073/pnas.1610019113
A metabolomic protocol for plant systematics by matrix-assisted laser-desorption/ionization time-of flight mass spectrometry
10.1016/j.aca.2015.01.002
Illuminating the dark matter in metabolomics
10.1073/pnas.1516878112
Mass spectrometry in plant metabolomics strategies: from analytical platforms to data acquisition and processing
10.1039/c3np70086k
ProbMetab: an R package for Bayesian probabilistic annotation of LC-MS-based metabolomics
10.1093/bioinformatics/btu019
Queen signals in a stingless bee: suppression of worker ovary activation and spatial distribution of active compounds
10.1038/srep07449
Comprehensive mass spectrometry-guided phenotyping of plant specialized metabolites reveals metabolic diversity in the cosmopolitan plant family Rhamnaceae
10.1111/tpj.14292
Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis
10.1128/MSYSTEMS.00375-19
Untargeted mass spectrometry-based metabolomics approach unveils molecular changes in raw and processed foods and beverages
10.1016/J.FOODCHEM.2019.125290
In silico annotation of discriminative markers of three Zanthoxylum species using molecular network derived annotation propagation
10.1016/J.FOODCHEM.2019.05.099
Investigation of Premyrsinane and Myrsinane Esters in Euphorbia cupanii and Euphobia pithyusa with MS2LDA and Combinatorial Molecular Network Annotation Propagation
10.1021/ACS.JNATPROD.8B00916
The impact of skin care products on skin chemistry and microbiome dynamics
10.1186/S12915-019-0660-6
Assessing Specialized Metabolite Diversity in the Cosmopolitan Plant Genus Euphorbia L
10.3389/FPLS.2019.00846
Initial Development toward Non-Invasive Drug Monitoring via Untargeted Mass Spectrometric Analysis of Human Skin
10.1021/ACS.ANALCHEM.8B05854
Mass spectrometry searches using MASST
10.1038/s41587-019-0375-9
Differences in Cystic Fibrosis-Associated Burkholderia spp. Bacteria Metabolomes after Exposure to the Antibiotic Trimethoprim
10.1021/acsinfecdis.9b00513
Global chemical effects of the microbiome include new bile-acid conjugations
10.1038/s41586-020-2047-9
Assessing specialized metabolite diversity of Alnus species by a digitized LC–MS/MS data analysis workflow
10.1016/j.phytochem.2020.112292
Feature-based molecular networking in the GNPS analysis environment
10.1038/s41592-020-0933-6
Time-Scale Shifting of Volatile Semiochemical Levels in Wild Type Lychnophora ericoides (Brazilian arnica) and Pollinator Records
10.1055/a-1320-4556
Distinct photo-oxidation-induced cell death pathways lead to selective killing of human breast cancer cells
10.1038/s41419-020-03275-2
A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria
10.3390/md19010020
Convergent evolution of pain-inducing defensive venom components in spitting cobras
10.1126/science.abb9303
Chemical Gradients of Plant Substrates in an
Atta texana
Fungus Garden
10.1128/msystems.00601-21
REDES MOLECULARES: UMA ANÁLISE SOBRE ANOTAÇÕES E DESCOBERTA DE NOVOS ATIVOS
10.21577/0100-4042.20170777
CHAPTER 10. Perspectives for the Future
10.1039/9781788010399-00264
CHAPTER 3. Metabolomics
10.1039/9781788010399-00057
Mass Spectrometry in Chemical Biology
10.1039/9781788010399
Fabien Jourdan
Jourdan Fabien
ORCID: 0000-0001-9401-2894
FORUM: building a Knowledge Graph from public databases and scientific literature to extract associations between chemicals and diseases
10.1093/bioinformatics/btab627
Dynamic Metabolic Disruption in Rats Perinatally Exposed to Low Doses of Bisphenol-A.
10.1371/journal.pone.0141698
Can we trust untargeted metabolomics? Results of the metabo-ring initiative, a large-scale, multi-instrument inter-laboratory study.
10.1007/s11306-014-0740-0
TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei.
10.1093/nar/gku944
ProbMetab: an R package for Bayesian probabilistic annotation of LC-MS-based metabolomics.
10.1093/bioinformatics/btu019
Telling metabolic stories to explore metabolomics data: a case study on the yeast response to cadmium exposure.
10.1093/bioinformatics/btt597
Flux Analysis of the Trypanosoma brucei Glycolysis Based on a Multiobjective-Criteria Bioinformatic Approach.
10.1155/2012/159423
Intuitive visualization and analysis of multi-omics data and application to Escherichia coli carbon metabolism.
10.1371/journal.pone.0021318
Graph methods for the investigation of metabolic networks in parasitology.
10.1017/S0031182010000363
MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks.
10.1093/nar/gkq312
Use of reconstituted metabolic networks to assist in metabolomic data visualization and mining.
10.1007/s11306-009-0196-9
MetaNetter: inference and visualization of high-resolution metabolomic networks.
10.1093/bioinformatics/btm536
Metabolic network visualization eliminating node redundance and preserving metabolic pathways.
10.1186/1752-0509-1-29
Bisphenol A Exposure Disrupts Neurotransmitters Through Modulation of Transaminase Activity in the Brain of Rodents.
10.1210/en.2016-1207
A Computational Solution to Automatically Map Metabolite Libraries in the Context of Genome Scale Metabolic Networks.
10.3389/fmolb.2016.00002
MetExploreViz: web component for interactive metabolic network visualization
10.1093/bioinformatics/btx588
Targeted versus untargeted omics - the CAFSA story.
10.1007/s10545-017-0134-3
MetaNetter 2: A Cytoscape plugin for ab initio network analysis and metabolite feature classification.
10.1016/j.jchromb.2017.08.015
MetExplore: collaborative edition and exploration of metabolic networks.
10.1093/nar/gky301
Mind the Gap: Mapping Mass Spectral Databases in Genome-Scale Metabolic Networks Reveals Poorly Covered Areas
10.3390/metabo8030051
PhenoMeNal: Processing and analysis of Metabolomics data in the Cloud
10.1093/gigascience/giy149
Large-Scale Modeling Approach Reveals Functional Metabolic Shifts during Hepatic Differentiation
10.1021/acs.jproteome.8b00524
An Untargeted Metabolomics Approach to Investigate the Metabolic Modulations of HepG2 Cells Exposed to Low Doses of Bisphenol A and 17β-Estradiol
10.3389/fendo.2018.00571
MetaboRank: network-based recommendation system to interpret and enrich metabolomics results
10.1093/bioinformatics/bty577
PhenoMeNal: Processing and analysis of Metabolomics data in the Cloud.
10.17863/cam.34815
The future of metabolomics in ELIXIR.
10.17863/CAM.17780
Poster RFMF-MetaboMeeting 2020 : Recommender system embedded in metabolic network visualization.
10.6084/m9.figshare.11691483.v1
Poster RFMF-MetaboMeeting 2020 : Recommender system embedded in metabolic network visualization.
10.6084/m9.figshare.11691483
The GOLIATH Project: Towards an Internationally Harmonised Approach for Testing Metabolism Disrupting Compounds
10.3390/ijms21103480
DEXOM: Diversity-based enumeration of optimal context-specific metabolic networks
10.1101/2020.07.17.208918
Postprandial NMR-Based Metabolic Exchanges Reflect Impaired Phenotypic Flexibility across Splanchnic Organs in the Obese Yucatan Mini-Pig
10.3390/nu12082442
Qualitative modelling of metabolic networks
10.1016/B978-0-12-397922-3.00012-5
Genome-scale metabolic networks
10.1201/9781315370583-8
Multiscale hybrid MDS
10.1109/IV.2004.1320173
Caractérisation des dangers des contaminants alimentaires : ce qui change; conséquences pour la recherche et l’évaluation
10.15454/ij9z4r
A stable decomposition algorithm for dynamical social network analysis
10.1007/978-3-642-00580-0_10
Metric-Based Network Exploration and Multiscale Scatterplot
10.1109/INFVIS.2004.47
Communities and hierarchical structures in dynamic social networks: analysis and visualization
10.1007/s13278-010-0002-8
Multiscale scatterplot matrix for visual and interactive exploration of metabonomics data
10.1007/978-3-540-71027-1_18
Réflexion prospective interdisciplinaire. Approches prédictives pour la biologie et l’écologie. Rapport de synthèse.
10.15454/1.5783037069682676e12
Telling Stories
10.1016/j.tcs.2012.07.023
Integrated transcriptomics and metabolomics reveal signatures of lipid metabolism dysregulation in HepaRG liver cells exposed to PCB 126
10.1007/s00204-018-2235-7
DEXOM: Diversity-based enumeration of optimal context-specific metabolic networks
10.1371/journal.pcbi.1008730
FORUM: Building a Knowledge Graph from public databases and scientific literature to extract associations between chemicals and diseases
10.1101/2021.02.12.430944
Pathway analysis in metabolomics: pitfalls and best practice for the use of over-representation analysis
10.1101/2021.05.24.445406
Chapter Eight - Plant genome-scale metabolic networks
10.1016/bs.abr.2020.09.021
Osteogenic Response of Human Mesenchymal Stem Cells Analysed Using Combined Intracellular and Extracellular Metabolomic Monitoring
10.33594/000000377
Gaining Insights Into Metabolic Networks Using Chemometrics and Bioinformatics: Chronic Kidney Disease as a Clinical Model
10.3389/fmolb.2021.682559
Improving lipid mapping in Genome Scale Metabolic Networks using ontologies
10.1007/s11306-020-01663-5
1H-NMR metabolomics response to a realistic diet contamination with the mycotoxin deoxynivalenol: Effect of probiotics supplementation
10.1016/j.fct.2020.111222
Multiplatform metabolomics for an integrative exploration of metabolic syndrome in older men
10.1016/j.ebiom.2021.103440
Mitochondrial metabolism supports resistance to IDH mutant inhibitors in acute myeloid leukemia
10.1084/jem.20200924
Combinatory therapy targeting mitochondrial oxidative phosphorylation improves efficacy of IDH mutant inhibitors in acute myeloid leukemia
10.1101/749580
Pathway analysis in metabolomics: Recommendations for the use of over-representation analysis
10.1371/journal.pcbi.1009105
Milk metabolome reveals variations on enteric methane emissions from dairy cows fed a specific inhibitor of the methanogenesis pathway
10.3168/jds.2021-20477
