메뉴 건너뛰기




Volumn 10, Issue , 2009, Pages

Metabolite signal identification in accurate mass metabolomics data with MZedDB, an interactive m/z annotation tool utilising predicted ionisation behaviour 'rules'

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL EXTRACTS; CHEMICAL INFORMATION; CORRELATION ANALYSIS; DATABASE INTERFACES; ELECTROSPRAY IONISATION (ESI); MASS TO CHARGE RATIO (M/Z); PUBLICLY ACCESSIBLE; SIGNAL IDENTIFICATION;

EID: 68949163674     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-10-227     Document Type: Article
Times cited : (139)

References (51)
  • 1
    • 0036007687 scopus 로고    scopus 로고
    • Metabolomics - The link between genotypes and phenotypes
    • 11860207
    • Fiehn O Metabolomics - the link between genotypes and phenotypes Plant Mol Biol 2002, 48:155-171 11860207
    • (2002) Plant Mol Biol , vol.48 , pp. 155-171
    • Fiehn, O.1
  • 2
    • 18844406001 scopus 로고    scopus 로고
    • Measuring the metabolome: Current analytical technologies
    • 15852128
    • Dunn WB Bailey NJC Johnson HE Measuring the metabolome: Current analytical technologies Analyst 2005, 130:606-625 15852128
    • (2005) Analyst , vol.130 , pp. 606-625
    • Dunn, W.B.1    Bailey, N.J.C.2    Johnson, H.E.3
  • 3
  • 4
    • 34248512719 scopus 로고    scopus 로고
    • Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry
    • De Vos RC Moco S Lommen A Keurentjes JJ Bino RJ Hall RD Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry Nat Protocols 2007, 22:778-791
    • (2007) Nat Protocols , vol.22 , pp. 778-791
    • De Vos, R.C.1    Moco, S.2    Lommen, A.3    Keurentjes, J.J.4    Bino, R.J.5    Hall, R.D.6
  • 5
    • 32444446805 scopus 로고    scopus 로고
    • XCMS: Processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification
    • 16448051
    • Smith CA Want EJ O'Maille G Abagyan R Siuzdak G XCMS: Processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification Anal Chem 2006, 78:779-787 16448051
    • (2006) Anal Chem , vol.78 , pp. 779-787
    • Smith, C.A.1    Want, E.J.2    O'Maille, G.3    Abagyan, R.4    Siuzdak, G.5
  • 6
    • 54349106196 scopus 로고    scopus 로고
    • Critical assessment of alignment procedures for LC-MS proteomics and metabolomics measurements
    • 2570366 18793413
    • Lange E Tautenhahn R Neumann S Gropl C Critical assessment of alignment procedures for LC-MS proteomics and metabolomics measurements BMC Bioinformatics 2008, 9:375 2570366 18793413
    • (2008) BMC Bioinformatics , vol.9 , pp. 375
    • Lange, E.1    Tautenhahn, R.2    Neumann, S.3    Gropl, C.4
  • 9
    • 63449119987 scopus 로고    scopus 로고
    • Molecular formula and METLIN personal metabolite database matching applied to the identification of compounds generated by LC/TOF-MS
    • 2567134 19137116
    • Sana TR Roark JC Li X Waddell K Fischer SM Molecular formula and METLIN personal metabolite database matching applied to the identification of compounds generated by LC/TOF-MS J Biomol Tech 2008, 19:258-266 2567134 19137116
    • (2008) J Biomol Tech , vol.19 , pp. 258-266
    • Sana, T.R.1    Roark, J.C.2    Li, X.3    Waddell, K.4    Fischer, S.M.5
  • 10
    • 40649099178 scopus 로고    scopus 로고
    • High throughput metabolome fingerprinting using Flow Injection Electrospray Mass Spectrometry
    • Beckmann M Parker D Enot D Duval E Draper J High throughput metabolome fingerprinting using Flow Injection Electrospray Mass Spectrometry Nat Protocols 2008, 3:486-504
    • (2008) Nat Protocols , vol.3 , pp. 486-504
    • Beckmann, M.1    Parker, D.2    Enot, D.3    Duval, E.4    Draper, J.5
  • 12
    • 0038699591 scopus 로고    scopus 로고
    • Metabolic footprinting: A high throughput, high-information approach to cellular characterisation and functional genomics
    • Allen J Davey HM Broadhurst D Heald JK Rowland JJ Oliver SG Kell DB Metabolic footprinting: A high throughput, high-information approach to cellular characterisation and functional genomics Nat Biotech 2003, 21:692-696
    • (2003) Nat Biotech , vol.21 , pp. 692-696
    • Allen, J.1    Davey, H.M.2    Broadhurst, D.3    Heald, J.K.4    Rowland, J.J.5    Oliver, S.G.6    Kell, D.B.7
  • 13
    • 4644240926 scopus 로고    scopus 로고
    • Metabolite fingerprinting: Detecting biological features by independent component analysis
    • 15087312
    • Scholz M Gatzek S Sterling A Fiehn O Selbig J Metabolite fingerprinting: detecting biological features by independent component analysis Bioinformatics 2004, 20:2447-2454 15087312
    • (2004) Bioinformatics , vol.20 , pp. 2447-2454
    • Scholz, M.1    Gatzek, S.2    Sterling, A.3    Fiehn, O.4    Selbig, J.5
  • 15
    • 33749535056 scopus 로고    scopus 로고
    • Predicting interpretability of metabolome models based on behavior, putative identity and biological relevance of explanatory signals
    • 1595418 17003128
    • Enot DP Beckmann M Overy DP Draper J Predicting interpretability of metabolome models based on behavior, putative identity and biological relevance of explanatory signals Proc Natl Acad Sci USA 2006, 103:14718-14723 1595418 17003128
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 14718-14723
    • Enot, D.P.1    Beckmann, M.2    Overy, D.P.3    Draper, J.4
  • 16
    • 34249311629 scopus 로고    scopus 로고
    • Representation, comparison, and interpretation of metabolome fingerprint data for total composition analysis and quality trait investigation in potato cultivars
    • 17417872
    • Beckmann M Enot DP Overy DP Draper J Representation, comparison, and interpretation of metabolome fingerprint data for total composition analysis and quality trait investigation in potato cultivars J Agric Food Chem 2007, 55:3444-3451 17417872
    • (2007) J Agric Food Chem , vol.55 , pp. 3444-3451
    • Beckmann, M.1    Enot, D.P.2    Overy, D.P.3    Draper, J.4
  • 19
    • 33646754900 scopus 로고    scopus 로고
    • Metabolomics database annotations via query of elemental compositions: Mass accuracy is insufficient even at less than 1 ppm
    • 1464138 16646969
    • Kind T Fiehn O Metabolomics database annotations via query of elemental compositions: Mass accuracy is insufficient even at less than 1 ppm BMC Bioinformatics 2006, 7:234 1464138 16646969
    • (2006) BMC Bioinformatics , vol.7 , pp. 234
    • Kind, T.1    Fiehn, O.2
  • 20
    • 42949111593 scopus 로고    scopus 로고
    • Direct introduction of biological samples into a LTQ-Oritrap hybrid mass spectrometer as a tool for fast metabolome analysis
    • 18351782
    • Madalinski G Godat E Alves S Lesage D Genin E Levi P Labarre J Tabet JC Ezan E Junot C Direct introduction of biological samples into a LTQ-Oritrap hybrid mass spectrometer as a tool for fast metabolome analysis Anal Chem 2008, 80:3291-3303 18351782
    • (2008) Anal Chem , vol.80 , pp. 3291-3303
    • Madalinski, G.1    Godat, E.2    Alves, S.3    Lesage, D.4    Genin, E.5    Levi, P.6    Labarre, J.7    Tabet, J.C.8    Ezan, E.9    Junot, C.10
  • 23
    • 33750990835 scopus 로고    scopus 로고
    • Isotope pattern evaluation for the reduction of elemental compositions assigned to high-resolution mass spectral data from electrospray ionisation Fourier transform ion cyclotron resonance mass spectrometry
    • 16931035
    • Stoll N Schmidt E Thurow K Isotope pattern evaluation for the reduction of elemental compositions assigned to high-resolution mass spectral data from electrospray ionisation Fourier transform ion cyclotron resonance mass spectrometry J Am Soc Mass Spectrom 2006, 17:1692-1699 16931035
    • (2006) J Am Soc Mass Spectrom , vol.17 , pp. 1692-1699
    • Stoll, N.1    Schmidt, E.2    Thurow, K.3
  • 26
    • 50849117170 scopus 로고    scopus 로고
    • A tool for high-throughput prediction of molecular formulas and identification of isotopic peaks from large scale mass spectrometry data
    • Nakamura Y Kanaya S Sakurai N Iijima Y Aoki K Okazaki K Suzuki H Kitayama M Shibata D A tool for high-throughput prediction of molecular formulas and identification of isotopic peaks from large scale mass spectrometry data Plant Biotech 2008, 25:377-380
    • (2008) Plant Biotech , vol.25 , pp. 377-380
    • Nakamura, Y.1    Kanaya, S.2    Sakurai, N.3    Iijima, Y.4    Aoki, K.5    Okazaki, K.6    Suzuki, H.7    Kitayama, M.8    Shibata, D.9
  • 28
    • 40649109368 scopus 로고    scopus 로고
    • Pre-processing, classification modelling and feature selection using Flow Injection Electrospray Mass Spectrometry (FIE-MS) metabolome fingerprint data
    • Enot DP Lin W Beckmann M Parker D Overy DP Draper J Pre-processing, classification modelling and feature selection using Flow Injection Electrospray Mass Spectrometry (FIE-MS) metabolome fingerprint data Nat Protocols 2008, 3:446-470
    • (2008) Nat Protocols , vol.3 , pp. 446-470
    • Enot, D.P.1    Lin, W.2    Beckmann, M.3    Parker, D.4    Overy, D.P.5    Draper, J.6
  • 30
    • 84888295971 scopus 로고    scopus 로고
    • MZedDB http://maltese.dbs.aber.ac.uk:8888/hrmet/index.html
    • MZedDB
  • 31
    • 53749085229 scopus 로고    scopus 로고
    • A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology
    • Herrgård MJ Swainston N Dobson P et al A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology Nat Biotech 2008, 26:1155-1160
    • (2008) Nat Biotech , vol.26 , pp. 1155-1160
    • Herrgård, M.J.1    Swainston, N.2    Dobson, P.3
  • 35
    • 84888305695 scopus 로고    scopus 로고
    • KEGG http://www.genome.jp/kegg/compound
    • KEGG
  • 37
    • 58149202163 scopus 로고    scopus 로고
    • HMDB: A knowledgebase for the human metabolome
    • Wishart DS Knox C Guo AC et al HMDB: A knowledgebase for the human metabolome Nucleic Acids Res 2009, 37:603-610
    • (2009) Nucleic Acids Res , vol.37 , pp. 603-610
    • Wishart, D.S.1    Knox, C.2    Guo, A.C.3
  • 39
    • 84885838418 scopus 로고    scopus 로고
    • Chemspider http://chemspider.com
    • Chemspider
  • 40
    • 84888304292 scopus 로고    scopus 로고
    • Ionisation 'rules' http://maltese.dbs.aber.ac.uk:8888/hrmet/search/ disprules.php
    • Ionisation 'Rules'
  • 42
    • 34247163207 scopus 로고    scopus 로고
    • Seven Golden Rules for heuristic filtering of molecular formulas obtained by accurate mass spectrometry
    • 1851972 17389044
    • Kind T Fiehn O Seven Golden Rules for heuristic filtering of molecular formulas obtained by accurate mass spectrometry BMC Bioinformatics 2007, 8:105 1851972 17389044
    • (2007) BMC Bioinformatics , vol.8 , pp. 105
    • Kind, T.1    Fiehn, O.2
  • 44
    • 34347229424 scopus 로고    scopus 로고
    • Dynamic range and mass accuracy of wide-scan direct infusion nanoelectrospray fourier transform ion cyclotron resonance mass spectrometry-based metabolomics increased by the spectral stitching method
    • 17511421
    • Southam AD Payne TG Cooper HJ Arvanitis TN Viant MR Dynamic range and mass accuracy of wide-scan direct infusion nanoelectrospray fourier transform ion cyclotron resonance mass spectrometry-based metabolomics increased by the spectral stitching method Anal Chem 2007, 79:4595-4602 17511421
    • (2007) Anal Chem , vol.79 , pp. 4595-4602
    • Southam, A.D.1    Payne, T.G.2    Cooper, H.J.3    Arvanitis, T.N.4    Viant, M.R.5
  • 45
    • 84888307524 scopus 로고    scopus 로고
    • FIEMSpro http://users.aber.ac.uk/jhd
    • FIEMSpro
  • 47
    • 84888291258 scopus 로고    scopus 로고
    • ChemAxon http://www.chemaxon.com
    • ChemAxon
  • 49
    • 84888291842 scopus 로고    scopus 로고
    • Seven Golden Rules http://fiehnlab.ucdavis.edu/projects/ Seven_Golden_Rules/
    • Seven Golden Rules
  • 50
    • 84888290012 scopus 로고    scopus 로고
    • MolConverter http://www.chemaxon.com/marvin/help/formats/molconvert.html
    • MolConverter
  • 51
    • 84888304570 scopus 로고    scopus 로고
    • Potential Adducts list http://maltese.dbs.aber.ac.uk:8888/hrmet/search/ addsearch0.php
    • Potential Adducts List


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.