Publications of Thilo Muth

Tanca, A., Palomba, A., Fraumene, C., Pagnozzi, D., Manghina, V., Deligios, M., Muth, T., Rapp, E., Martens, L., Addis, M. F., & Uzzau, S. (2016)The impact of sequence database choice on metaproteomic results in gut microbiota studiesMicrobiome, 4, 51doi: 10.1186/s40168-016-0196-8.

Kolmeder , C. A., Ritari, J., Verdam , F. J., Muth, T., Keskitalo, S., Varjosalo , M., Fuentes, S., Greve , J. W., Buurman , W. A., Reichl, U., Rapp, E., Martens, L., Palva, A., Salonen, A., Rensen, S. S., & de Vos, W. M. (2015)Colonic metaproteomic signatures of active bacteria and the host in obesityProteomics, 15 (20), 3544–3552doi: 10.1002/pmic.201500049.

Muth, T., Behne, A., Heyer, R., Kohrs, F., Benndorf, D., Hoffmann, M., Lehteva, M., Reichl, U., Martens, L., & Rapp, E. (2015)The MetaProteomeAnalyzer: A Powerful Open-Source Software Suite for Metaproteomics Data Analysis and InterpretationJournal of Proteome Research, 14 (3), 1557–1565doi: 10.1021/pr501246w.

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., & Martens, L. (2015)Navigating through metaproteomics data: A logbook of database searchingProteomics, 15 (20), 3439–3453doi: 10.1002/pmic.201400560.

Oveland, E., Muth, T., Rapp, E., Martens, L., Berven, F. S., & Barsnes, H. (2015)Viewing the proteome: How to visualize proteomics data?Proteomics, 15 (8), 1341–1355doi: 10.1002/pmic.201400412.

Huffman, J. E., Pucic-Bakovic, M., Klaric, L., Hennig, R., Selman, M. H. J., Vuckovic, F., Novokmet, M., Kristic, J., Borowiak, M., Muth, T., 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. (2014)Comparative Performance of Four Methods for High-throughput Glycosylation Analysis of Immunoglobulin G in Genetic and Epidemiological ResearchMolecular and Cellular Proteomics, 13 (6), 1598–1610doi: 10.1074/mcp.M113.037465.

Kohrs, F., Heyer, R., Magnussen, A., Benndorf, D., Muth, T., Behne, A., Rapp, E., Kausmann, R., Heiermann, M., & Klocke, M. (2014)Sample prefractionation with liquid isoelectric focusing enables in depth microbial metaproteome analysis of mesophilic and thermophilic biogas plantsAnaerobe, 29, 59–67doi: 10.1016/j.anaerobe.2013.11.009.

Muth, T., Weilnböck, L., Rapp, E., Huber, C. G., Martens, L., Vaudel, M., & Barnsnes, H. (2014)DeNovoGUI: An Open Source Graphical User Interface for de Novo Sequencing of Tandem Mass SpectraJournal of Proteome Research, 13 (2), 1143–1146doi: 10.1021/pr4008078.

Behne, A., Muth, T., Borowiak, M., Reichl, U., & Rapp, E. (2013)glyXalign: High-throughput migration time alignment preprocessing of electrophoretic data retrieved via multiplexed capillary gel electrophoresis with laser-induced fluorescence detection-based glycoprofilingElectrophoresis, 34 (16), 2311–2315doi: 10.1002/elps.201200696.

Muth, T., Benndorf, D., Reichl, U., Rapp, E., & Martens, L. (2013)Searching for a needle in a stack of needles: challenges in metaproteomics data analysis.Molecular BioSystems, 9 (4), 578–585doi: 10.1039/c2mb25415h.

Muth, T., Peters, J., Blackburn, J., Rapp, E., & Martens, L. (2013)ProteoCloud: A full-featured open source proteomics cloud computing pipelineJournal of Proteomics, 88 (Special Issue: New Horizons and Applications for Proteomics [EuPA 2012]), 104–108doi: 10.1016/j.jprot.2012.12.026.

Muth, T., Garcia-Martin, J. A., Rausell, A., Juan, D., Valencia, A., & Pazos, F. (2012)JDet: interactive calculation and visualization of function-related conservation patterns in multiple sequence alignments and structures.Bioinformatics, 28 (4), 584–586doi: 10.1093/bioinformatics/btr688.

Muth, T., Rapp, E., Berven, F. S., Barsnes, H., & Vaudel, M. (2016)Tandem Mass Spectrum Sequencing: An Alternative to Database Search Engines in Shotgun ProteomicsModern Proteomics – Sample Preparation, Analysis and Practical Applications,217–226Cham: Springer International Publishingdoi: 10.1007/978-3-319-41448-5_10.

Benndorf, D., Heyer, R., Schallert, K., Muth, T., Rapp, E., & Reichl, U.In-depth metaproteomics of a biogas plant operating at high ammonia nitrogen concentrationsPresented at: Biogas Science 2016Szeged, Hungary, August 21, 2016.

Muth, T., Kolmeder, C. A., Rapp, E., Reichl, U., & Martens, L.A closer look into the maze of metaproteomics dataPresented at: MidWinter Proteomics Bioinformatics SeminarSemmering, Österreich, January 13, 2015.

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 dataPresented at: 12^th Austrian Proteomic Research SymposiumSalzburg, Austria, September 22, 2014.

Rapp, E., Hennig, R., Muth, T., Kottler, R., Cajic, S., & Reichl, U.HIGH PERFORMANCE GLYCOANALYSIS TO IMPROVE BIOLOGICS DEVELOPMENTPresented at: Cell Culture Engineering XIV (CCE) 2014Quebec (Canada), May 4, 2014.

Muth, T.glyXtool – a software tool for high-throughput processing of glycoanalysis dataPresented at: 24rd Joint Glycobiology MeetingWittenberg, November 24, 2013.

Muth, T., Hennig, R., Behne, A., Reichl, U., & Rapp, E.glyXtool - a software tool for high-throughput processing of glycoanalysis dataPresented at: 3. Beilstein-Symposium "Glyco-Bioinformatics"Potsdam, Germany, June 10, 2013.

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 researchPresented at: Proteomic Forum 2017Potsdam, Germany, April 2, 2017.