Publications

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Journal Article (12)

  1. 2016
    Journal Article
    Tanca, A.; Palomba, A.; Fraumene, C.; Pagnozzi, D.; Manghina, V.; Deligios, M.; Muth, T.; Rapp, E.; Martens, L.; Addis, M. F. et al.; Uzzau, S.: The impact of sequence database choice on metaproteomic results in gut microbiota studies. Microbiome 4, 51 (2016)
  2. 2015
    Journal Article
    Kolmeder , C.; Ritari, J.; Verdam , F.; Muth, T.; Keskitalo, S.; Varjosalo , M.; Fuentes, S.; Greve , J.; Buurman , W.; Reichl, U. et al.; Rapp, E.; Martens, L.; Palva, A.; Salonen, A.; Rensen, S.; de Vos, W.: Colonic metaproteomic signatures of active bacteria and the host in obesity. Proteomics 15 (20), pp. 3544 - 3552 (2015)
  3. Journal Article
    Muth, T.; Behne, A.; Heyer, R.; Kohrs, F.; Benndorf, D.; Hoffmann, M.; Lehteva, M.; Reichl, U.; Martens, L.; Rapp, E.: The MetaProteomeAnalyzer: A Powerful Open-Source Software Suite for Metaproteomics Data Analysis and Interpretation. Journal of Proteome Research 14 (3), pp. 1557 - 1565 (2015)
  4. Journal Article
    Muth, T.; Kolmeder, C. A.; Salojärvi, J.; Keskitalo, S.; Varjosalo, M.; Verdam, F. J.; Rensen, S. S.; Reichl, U.; de Vos, W. M.; Rapp, E. et al.; Martens, L.: Navigating through metaproteomics data: A logbook of database searching. Proteomics 15 (20), pp. 3439 - 3453 (2015)
  5. Journal Article
    Oveland, E.; Muth, T.; Rapp, E.; Martens, L.; Berven, F. S.; Barsnes, H.: Viewing the proteome: How to visualize proteomics data? Proteomics 15 (8), pp. 1341 - 1355 (2015)
  6. 2014
    Journal Article
    Huffman, J. E.; Pucic-Bakovic, M.; Klaric, L.; Hennig, R.; Selman, M. H.J.; Vuckovic, F.; Novokmet, M.; Kristic, J.; Borowiak, M.; Muth, T. et al.; Polasek, O.; Razdorov, G.; Gornik, O.; Plomp, R.; Theodorarou, E.; Wright, A. F.; Rudan, I.; Hayward, C.; Campbell, H.; Deelder, A. M.; Reichl, U.; Aulchenko, Y. S.; Rapp, E.; Wuhrer , M.; Lauc , G.: Comparative Performance of Four Methods for High-throughput Glycosylation Analysis of Immunoglobulin G in Genetic and Epidemiological Research. Molecular and Cellular Proteomics 13 (6), pp. 1598 - 1610 (2014)
  7. Journal Article
    Kohrs, F.; Heyer, R.; Magnussen, A.; Benndorf, D.; Muth, T.; Behne, A.; Rapp, E.; Kausmann, R.; Heiermann, M.; Klocke, M.: Sample prefractionation with liquid isoelectric focusing enables in depth microbial metaproteome analysis of mesophilic and thermophilic biogas plants. Anaerobe 29, pp. 59 - 67 (2014)
  8. Journal Article
    Muth, T.; Weilnböck, L.; Rapp, E.; Huber, C. G.; Martens, L.; Vaudel, M.; Barnsnes, H.: DeNovoGUI: An Open Source Graphical User Interface for de Novo Sequencing of Tandem Mass Spectra. Journal of Proteome Research 13 (2), pp. 1143 - 1146 (2014)
  9. 2013
    Journal Article
    Behne, A.; Muth, T.; Borowiak, M.; Reichl, U.; Rapp, E.: glyXalign: High-throughput migration time alignment preprocessing of electrophoretic data retrieved via multiplexed capillary gel electrophoresis with laser-induced fluorescence detection-based glycoprofiling. Electrophoresis 34 (16), pp. 2311 - 2315 (2013)
  10. Journal Article
    Muth, T.; Benndorf, D.; Reichl, U.; Rapp, E.; Martens, L.: Searching for a needle in a stack of needles: challenges in metaproteomics data analysis. Molecular BioSystems 9 (4), pp. 578 - 585 (2013)
  11. Journal Article
    Muth, T.; Peters, J.; Blackburn, J.; Rapp, E.; Martens, L.: ProteoCloud: A full-featured open source proteomics cloud computing pipeline. Journal of Proteomics 88 (Special Issue: New Horizons and Applications for Proteomics [EuPA 2012]), pp. 104 - 108 (2013)
  12. 2012
    Journal Article
    Muth, T.; Garcia-Martin, J. A.; Rausell, A.; Juan, D.; Valencia, A.; Pazos, F.: JDet: interactive calculation and visualization of function-related conservation patterns in multiple sequence alignments and structures. Bioinformatics 28 (4), pp. 584 - 586 (2012)

Book Chapter (1)

  1. 2016
    Book Chapter
    Muth, T.; Rapp, E.; Berven, F. S.; Barsnes, H.; Vaudel, M.: Tandem Mass Spectrum Sequencing: An Alternative to Database Search Engines in Shotgun Proteomics. In: Modern Proteomics – Sample Preparation, Analysis and Practical Applications,, pp. 217 - 226 (Eds. Mirzaei, H.; Carrasco , M.). Springer International Publishing, Cham (2016)

Talk (6)

  1. 2016
    Talk
    Benndorf, D.; Heyer, R.; Schallert, K.; Muth, T.; Rapp, E.; Reichl, U.: In-depth metaproteomics of a biogas plant operating at high ammonia nitrogen concentrations. Biogas Science 2016, Szeged, Hungary (2016)
  2. 2015
    Talk
    Muth, T.; Kolmeder, C. A.; Rapp, E.; Reichl, U.; Martens, L.: A closer look into the maze of metaproteomics data. MidWinter Proteomics Bioinformatics Seminar, Semmering, Österreich (2015)
  3. 2014
    Talk
    Muth, T.; Behne, A.; Heyer, R.; Kohrs, F.; Benndorf, D.; Hoffmann, M.; Reichl, U.; Martens, L.: MetaProteomeAnalyzer – a software suite for the functional and taxonomic characterization of (meta)proteome data. 12th Austrian Proteomic Research Symposium, Salzburg, Austria (2014)
  4. Talk
    Rapp, E.; Hennig, R.; Muth, T.; Kottler, R.; Cajic, S.; Reichl, U.: HIGH PERFORMANCE GLYCOANALYSIS TO IMPROVE BIOLOGICS DEVELOPMENT. Cell Culture Engineering XIV (CCE) 2014, Quebec (Canada) (2014)
  5. 2013
    Talk
    Muth, T.: glyXtool – a software tool for high-throughput processing of glycoanalysis data. 24rd Joint Glycobiology Meeting, Wittenberg (2013)
  6. Talk
    Muth, T.; Hennig, R.; Behne, A.; Reichl, U.; Rapp, E.: glyXtool - a software tool for high-throughput processing of glycoanalysis data. 3. Beilstein-Symposium "Glyco-Bioinformatics", Potsdam, Germany (2013)

Poster (8)

  1. 2017
    Poster
    Schallert, K.; Zoun, R.; Heyer, R.; Muth, T.; Behne, A.; Benndorf, D.; Saake, G.; Reichl, U.: The MetaProteomeAnalyzer: a software suite for analysis of metaproteomic data in microbiome research. Proteomic Forum 2017, Potsdam, Germany (2017)
 
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