메뉴 건너뛰기




Volumn 28, Issue , 2014, Pages 143-148

After the feature presentation: Technologies bridging untargeted metabolomics and biology

Author keywords

[No Author keywords available]

Indexed keywords

METABOLITES;

EID: 84900029341     PISSN: 09581669     EISSN: 18790429     Source Type: Journal    
DOI: 10.1016/j.copbio.2014.04.006     Document Type: Review
Times cited : (40)

References (53)
  • 1
    • 79551507196 scopus 로고    scopus 로고
    • Metabolomics: from small molecules to big ideas
    • Baker M. Metabolomics: from small molecules to big ideas. Nat Methods 2011, 8:117-121.
    • (2011) Nat Methods , vol.8 , pp. 117-121
    • Baker, M.1
  • 2
    • 79954582170 scopus 로고    scopus 로고
    • Expanding coverage of the metabolome for global metabolite profiling
    • Yanes O., Tautenhahn R., Patti G.J., Siuzdak G. Expanding coverage of the metabolome for global metabolite profiling. Anal Chem 2011, 83:2152-2161.
    • (2011) Anal Chem , vol.83 , pp. 2152-2161
    • Yanes, O.1    Tautenhahn, R.2    Patti, G.J.3    Siuzdak, G.4
  • 4
    • 32444446805 scopus 로고    scopus 로고
    • XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification
    • Smith C.A., Want E.J., 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.
    • (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
  • 5
    • 65249132985 scopus 로고    scopus 로고
    • MetAlign: interface-driven, versatile metabolomics tool for hyphenated full-scan mass spectrometry data preprocessing
    • Lommen A. MetAlign: interface-driven, versatile metabolomics tool for hyphenated full-scan mass spectrometry data preprocessing. Anal Chem 2009, 81:3079-3086.
    • (2009) Anal Chem , vol.81 , pp. 3079-3086
    • Lommen, A.1
  • 6
    • 33644867564 scopus 로고    scopus 로고
    • MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data
    • Katajamaa M., Miettinen J., Oresic M. MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data. Bioinformatics 2006, 22:634-636.
    • (2006) Bioinformatics , vol.22 , pp. 634-636
    • Katajamaa, M.1    Miettinen, J.2    Oresic, M.3
  • 7
    • 84855402302 scopus 로고    scopus 로고
    • CAMERA: an integrated strategy for compound spectra extraction and annotation of liquid chromatography/mass spectrometry data sets
    • Kuhl C., Tautenhahn R., Bottcher C., Larson T.R., Neumann S. CAMERA: an integrated strategy for compound spectra extraction and annotation of liquid chromatography/mass spectrometry data sets. Anal Chem 2012, 84:283-289.
    • (2012) Anal Chem , vol.84 , pp. 283-289
    • Kuhl, C.1    Tautenhahn, R.2    Bottcher, C.3    Larson, T.R.4    Neumann, S.5
  • 9
    • 70149098295 scopus 로고    scopus 로고
    • Suitability of silica hydride stationary phase, aqueous normal phase chromatography for untargeted metabolomic profiling of Enterococcus faecium and Staphylococcus aureus
    • Weisenberg S.A., Butterfield T.R., Fischer S.M., Rhee K.Y. Suitability of silica hydride stationary phase, aqueous normal phase chromatography for untargeted metabolomic profiling of Enterococcus faecium and Staphylococcus aureus. J Sep Sci 2009, 32:2262-2265.
    • (2009) J Sep Sci , vol.32 , pp. 2262-2265
    • Weisenberg, S.A.1    Butterfield, T.R.2    Fischer, S.M.3    Rhee, K.Y.4
  • 12
    • 84857865811 scopus 로고    scopus 로고
    • MetExtract: a new software tool for the automated comprehensive extraction of metabolite-derived LC/MS signals in metabolomics research
    • Bueschl C., Kluger B., Berthiller F., Lirk G., Winkler S., Krska R., Schuhmacher R. MetExtract: a new software tool for the automated comprehensive extraction of metabolite-derived LC/MS signals in metabolomics research. Bioinformatics 2012, 28:736-738.
    • (2012) Bioinformatics , vol.28 , pp. 736-738
    • Bueschl, C.1    Kluger, B.2    Berthiller, F.3    Lirk, G.4    Winkler, S.5    Krska, R.6    Schuhmacher, R.7
  • 14
    • 53749101844 scopus 로고    scopus 로고
    • Metabolome analysis of biosynthetic mutants reveals a diversity of metabolic changes and allows identification of a large number of new compounds in Arabidopsis
    • Bottcher C., von Roepenack-Lahaye E., Schmidt J., Schmotz C., Neumann S., Scheel D., Clemens S. Metabolome analysis of biosynthetic mutants reveals a diversity of metabolic changes and allows identification of a large number of new compounds in Arabidopsis. Plant Physiol 2008, 147:2107-2120.
    • (2008) Plant Physiol , vol.147 , pp. 2107-2120
    • Bottcher, C.1    von Roepenack-Lahaye, E.2    Schmidt, J.3    Schmotz, C.4    Neumann, S.5    Scheel, D.6    Clemens, S.7
  • 15
    • 84874364848 scopus 로고    scopus 로고
    • Nearline acquisition and processing of liquid chromatography-tandem mass spectrometry data
    • Neumann S., Thum A., Böttcher C. Nearline acquisition and processing of liquid chromatography-tandem mass spectrometry data. Metabolomics 2013, 9:84-91.
    • (2013) Metabolomics , vol.9 , pp. 84-91
    • Neumann, S.1    Thum, A.2    Böttcher, C.3
  • 21
    • 84863084745 scopus 로고    scopus 로고
    • MetaboSearch: tool for mass-based metabolite identification using multiple databases
    • Zhou B., Wang J., Ressom H.W. MetaboSearch: tool for mass-based metabolite identification using multiple databases. PLoS ONE 2012, 7:e40096.
    • (2012) PLoS ONE , vol.7
    • Zhou, B.1    Wang, J.2    Ressom, H.W.3
  • 22
    • 84861915827 scopus 로고    scopus 로고
    • XCMS Online: a web-based platform to process untargeted metabolomic data
    • Tautenhahn R., Patti G.J., Rinehart D., Siuzdak G. XCMS Online: a web-based platform to process untargeted metabolomic data. Anal Chem 2012, 84:5035-5039.
    • (2012) Anal Chem , vol.84 , pp. 5035-5039
    • Tautenhahn, R.1    Patti, G.J.2    Rinehart, D.3    Siuzdak, G.4
  • 23
    • 84882681487 scopus 로고    scopus 로고
    • An untargeted metabolomic workflow to improve structural characterization of metabolites
    • Nikolskiy I., Mahieu N.G., Chen Y.J., Tautenhahn R., Patti G.J. An untargeted metabolomic workflow to improve structural characterization of metabolites. Anal Chem 2013, 85:7713-7719.
    • (2013) Anal Chem , vol.85 , pp. 7713-7719
    • Nikolskiy, I.1    Mahieu, N.G.2    Chen, Y.J.3    Tautenhahn, R.4    Patti, G.J.5
  • 26
    • 66149088821 scopus 로고    scopus 로고
    • MetaboliteDetector: comprehensive analysis tool for targeted and nontargeted GC/MS based metabolome analysis
    • Hiller K., Hangebrauk J., Jager C., Spura J., Schreiber K., Schomburg D. MetaboliteDetector: comprehensive analysis tool for targeted and nontargeted GC/MS based metabolome analysis. Anal Chem 2009, 81:3429-3439.
    • (2009) Anal Chem , vol.81 , pp. 3429-3439
    • Hiller, K.1    Hangebrauk, J.2    Jager, C.3    Spura, J.4    Schreiber, K.5    Schomburg, D.6
  • 27
    • 77952302069 scopus 로고    scopus 로고
    • In silico fragmentation for computer assisted identification of metabolite mass spectra
    • Wolf S., Schmidt S., Muller-Hannemann M., Neumann S. In silico fragmentation for computer assisted identification of metabolite mass spectra. BMC Bioinformatics 2010, 11:148.
    • (2010) BMC Bioinformatics , vol.11 , pp. 148
    • Wolf, S.1    Schmidt, S.2    Muller-Hannemann, M.3    Neumann, S.4
  • 28
    • 84881476562 scopus 로고    scopus 로고
    • LipidBlast in silico tandem mass spectrometry database for lipid identification
    • Kind T., Liu K.H., Lee do Y., DeFelice B., Meissen J.K., Fiehn O. LipidBlast in silico tandem mass spectrometry database for lipid identification. Nat Methods 2013, 10:755-758.
    • (2013) Nat Methods , vol.10 , pp. 755-758
    • Kind, T.1    Liu, K.H.2    Lee do, Y.3    DeFelice, B.4    Meissen, J.K.5    Fiehn, O.6
  • 31
    • 84858414020 scopus 로고    scopus 로고
    • Cellular metabolism and disease: what do metabolic outliers teach us?
    • DeBerardinis Ralph J., Thompson Craig B. Cellular metabolism and disease: what do metabolic outliers teach us?. Cell 2012, 148:1132-1144.
    • (2012) Cell , vol.148 , pp. 1132-1144
    • DeBerardinis Ralph, J.1    Thompson Craig, B.2
  • 33
    • 84873459097 scopus 로고    scopus 로고
    • Understanding metabolic regulation and its influence on cell physiology
    • Metallo C.M., Vander Heiden M.G. Understanding metabolic regulation and its influence on cell physiology. Mol Cell 2013, 49:388-398.
    • (2013) Mol Cell , vol.49 , pp. 388-398
    • Metallo, C.M.1    Vander Heiden, M.G.2
  • 34
    • 79551508527 scopus 로고    scopus 로고
    • 13C metabolic flux analysis in complex systems
    • Zamboni N. 13C metabolic flux analysis in complex systems. Curr Opin Biotechnol 2011, 22:103-108.
    • (2011) Curr Opin Biotechnol , vol.22 , pp. 103-108
    • Zamboni, N.1
  • 35
    • 50349092706 scopus 로고    scopus 로고
    • Kinetic flux profiling for quantitation of cellular metabolic fluxes
    • Yuan J., Bennett B.D., Rabinowitz J.D. Kinetic flux profiling for quantitation of cellular metabolic fluxes. Nat Protoc 2008, 3:1328-1340.
    • (2008) Nat Protoc , vol.3 , pp. 1328-1340
    • Yuan, J.1    Bennett, B.D.2    Rabinowitz, J.D.3
  • 36
    • 84899511589 scopus 로고    scopus 로고
    • INCA: a computational platform for isotopically non-stationary metabolic flux analysis
    • Young J.D. INCA: a computational platform for isotopically non-stationary metabolic flux analysis. Bioinformatics 2014.
    • (2014) Bioinformatics
    • Young, J.D.1
  • 38
    • 78649695759 scopus 로고    scopus 로고
    • Metabolomic analysis and visualization engine for LC-MS data
    • Melamud E., Vastag L., Rabinowitz J.D. Metabolomic analysis and visualization engine for LC-MS data. Anal Chem 2010, 82:9818-9826.
    • (2010) Anal Chem , vol.82 , pp. 9818-9826
    • Melamud, E.1    Vastag, L.2    Rabinowitz, J.D.3
  • 39
    • 84860009126 scopus 로고    scopus 로고
    • LC-MS data processing with MAVEN: a metabolomic analysis and visualization engine
    • 14.11.1-14.11.23
    • Clasquin M.F., Melamud E., Rabinowitz J.D. LC-MS data processing with MAVEN: a metabolomic analysis and visualization engine. Curr Protoc Bioinformatics 2012, 37. 14.11.1-14.11.23.
    • (2012) Curr Protoc Bioinformatics , vol.37
    • Clasquin, M.F.1    Melamud, E.2    Rabinowitz, J.D.3
  • 41
    • 79960593446 scopus 로고    scopus 로고
    • Small molecule metabolite extraction strategy for improving LC/MS detection of cancer cell metabolome
    • Sheikh K.D., Khanna S., Byers S.W., Fornace A., Cheema A.K. Small molecule metabolite extraction strategy for improving LC/MS detection of cancer cell metabolome. J Biomol Tech 2011, 22:1-4.
    • (2011) J Biomol Tech , vol.22 , pp. 1-4
    • Sheikh, K.D.1    Khanna, S.2    Byers, S.W.3    Fornace, A.4    Cheema, A.K.5
  • 42
    • 84880881522 scopus 로고    scopus 로고
    • Metabolomics: playing pinata with single cells
    • Yanes O. Metabolomics: playing pinata with single cells. Nat Chem Biol 2013, 9:471-473.
    • (2013) Nat Chem Biol , vol.9 , pp. 471-473
    • Yanes, O.1
  • 44
    • 84865179242 scopus 로고    scopus 로고
    • Mass spectrometry imaging and profiling of single cells
    • Lanni E.J., Rubakhin S.S., Sweedler J.V. Mass spectrometry imaging and profiling of single cells. J Proteomics 2012, 75:5036-5051.
    • (2012) J Proteomics , vol.75 , pp. 5036-5051
    • Lanni, E.J.1    Rubakhin, S.S.2    Sweedler, J.V.3
  • 45
    • 57949111084 scopus 로고    scopus 로고
    • Imaging of cells and tissues with mass spectrometry: adding chemical information to imaging
    • (Chapter 13)
    • Zimmerman T.A., Monroe E.B., Tucker K.R., Rubakhin S.S., Sweedler J.V. Imaging of cells and tissues with mass spectrometry: adding chemical information to imaging. Methods Cell Biol 2008, 89:361-390. (Chapter 13).
    • (2008) Methods Cell Biol , vol.89 , pp. 361-390
    • Zimmerman, T.A.1    Monroe, E.B.2    Tucker, K.R.3    Rubakhin, S.S.4    Sweedler, J.V.5
  • 50
    • 75749156652 scopus 로고    scopus 로고
    • Detection of carbohydrates and steroids by cation-enhanced nanostructure-initiator mass spectrometry (NIMS) for biofluid analysis and tissue imaging
    • Patti G.J., Woo H.K., Yanes O., Shriver L., Thomas D., Uritboonthai W., Apon J.V., Steenwyk R., Manchester M., Siuzdak G. Detection of carbohydrates and steroids by cation-enhanced nanostructure-initiator mass spectrometry (NIMS) for biofluid analysis and tissue imaging. Anal Chem 2010, 82:121-128.
    • (2010) Anal Chem , vol.82 , pp. 121-128
    • Patti, G.J.1    Woo, H.K.2    Yanes, O.3    Shriver, L.4    Thomas, D.5    Uritboonthai, W.6    Apon, J.V.7    Steenwyk, R.8    Manchester, M.9    Siuzdak, G.10
  • 51
    • 70149121261 scopus 로고    scopus 로고
    • Negative mode nanostructure-initiator mass spectrometry for detection of phosphorylated metabolites
    • Amantonico A., Flamigni L., Glaus R., Zenobi R. Negative mode nanostructure-initiator mass spectrometry for detection of phosphorylated metabolites. Metabolomics 2009, 5:346-353.
    • (2009) Metabolomics , vol.5 , pp. 346-353
    • Amantonico, A.1    Flamigni, L.2    Glaus, R.3    Zenobi, R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.