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Tobias Müller - Publications

Affiliations: 
Biozentrum University of Würzburg, Würzburg, Bayern, Germany 
Website:
http://www.biozentrum.uni-wuerzburg.de/tobias_mueller.html
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43 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Luther CH, Brandt P, Vylkova S, Dandekar T, Müller T, Dittrich M. Integrated analysis of SR-like protein kinases Sky1 and Sky2 links signaling networks with transcriptional regulation in . Frontiers in Cellular and Infection Microbiology. 13: 1108235. PMID 37082713 DOI: 10.3389/fcimb.2023.1108235  0.446
2023 Vogg N, Müller T, Floren A, Dandekar T, Riester A, Dischinger U, Kurlbaum M, Kroiss M, Fassnacht M. Simplified urinary steroid profiling by LC-MS as diagnostic tool for malignancy in adrenocortical tumors. Clinica Chimica Acta; International Journal of Clinical Chemistry. 543: 117301. PMID 36948238 DOI: 10.1016/j.cca.2023.117301  0.378
2022 Vogg N, Müller T, Floren A, Dandekar T, Scherf-Clavel O, Fassnacht M, Kroiss M, Kurlbaum M. Targeted metabolic profiling of urinary steroids with a focus on analytical accuracy and sample stability. Journal of Mass Spectrometry and Advances in the Clinical Lab. 25: 44-52. PMID 35910411 DOI: 10.1016/j.jmsacl.2022.07.006  0.374
2020 Urban L, Remmele CW, Dittrich M, Schwarz RF, Müller T. covRNA: discovering covariate associations in large-scale gene expression data. Bmc Research Notes. 13: 92. PMID 32093752 DOI: 10.1186/S13104-020-04946-1  0.601
2018 Page L, Weis P, Müller T, Dittrich M, Lazariotou M, Dragan M, Waaga-Gasser AM, Helm J, Dandekar T, Einsele H, Löffler J, Ullmann AJ, Wurster S. Evaluation of Aspergillus and Mucorales specific T-cells and peripheral blood mononuclear cell cytokine signatures as biomarkers of environmental mold exposure. International Journal of Medical Microbiology : Ijmm. PMID 30201279 DOI: 10.1016/J.Ijmm.2018.09.002  0.381
2017 Ampattu BJ, Hagmann L, Liang C, Dittrich M, Schlüter A, Blom J, Krol E, Goesmann A, Becker A, Dandekar T, Müller T, Schoen C. Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence. Bmc Genomics. 18: 282. PMID 28388876 DOI: 10.1186/S12864-017-3616-7  0.417
2016 Czakai K, Dittrich M, Kaltdorf M, Müller T, Krappmann S, Schedler A, Bonin M, Dühring S, Schuster S, Speth C, Rambach G, Einsele H, Dandekar T, Löffler J. Influence of Platelet-rich Plasma on the immune response of human monocyte-derived dendritic cells and macrophages stimulated with Aspergillus fumigatus. International Journal of Medical Microbiology : Ijmm. PMID 27965080 DOI: 10.1016/J.Ijmm.2016.11.010  0.389
2015 Fiedler J, Breckwoldt K, Remmele CW, Hartmann D, Dittrich M, Pfanne A, Just A, Xiao K, Kunz M, Müller T, Hansen A, Geffers R, Dandekar T, Eschenhagen T, Thum T. Development of Long Noncoding RNA-Based Strategies to Modulate Tissue Vascularization. Journal of the American College of Cardiology. 66: 2005-15. PMID 26516004 DOI: 10.1016/J.Jacc.2015.07.081  0.423
2015 Remmele CW, Luther CH, Balkenhol J, Dandekar T, Müller T, Dittrich MT. Integrated inference and evaluation of host-fungi interaction networks. Frontiers in Microbiology. 6: 764. PMID 26300851 DOI: 10.3389/Fmicb.2015.00764  0.422
2014 Boyanova D, Nilla S, Klau GW, Dandekar T, Müller T, Dittrich M. Functional module search in protein networks based on semantic similarity improves the analysis of proteomics data. Molecular & Cellular Proteomics : McP. 13: 1877-89. PMID 24807868 DOI: 10.1074/Mcp.M113.032839  0.45
2014 Koetschan C, Kittelmann S, Lu J, Al-Halbouni D, Jarvis GN, Müller T, Wolf M, Janssen PH. Internal transcribed spacer 1 secondary structure analysis reveals a common core throughout the anaerobic fungi (Neocallimastigomycota). Plos One. 9: e91928. PMID 24663345 DOI: 10.1371/Journal.Pone.0091928  0.32
2012 Beisser D, Grohme MA, Kopka J, Frohme M, Schill RO, Hengherr S, Dandekar T, Klau GW, Dittrich M, Müller T. Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum. Bmc Systems Biology. 6: 72. PMID 22713133 DOI: 10.1186/1752-0509-6-72  0.436
2012 Beisser D, Brunkhorst S, Dandekar T, Klau GW, Dittrich MT, Müller T. Robustness and accuracy of functional modules in integrated network analysis. Bioinformatics (Oxford, England). 28: 1887-94. PMID 22581175 DOI: 10.1093/Bioinformatics/Bts265  0.446
2012 Förster F, Beisser D, Grohme MA, Liang C, Mali B, Siegl AM, Engelmann JC, Shkumatov AV, Schokraie E, Müller T, Schnölzer M, Schill RO, Frohme M, Dandekar T. Transcriptome analysis in tardigrade species reveals specific molecular pathways for stress adaptations. Bioinformatics and Biology Insights. 6: 69-96. PMID 22563243 DOI: 10.4137/Bbi.S9150  0.422
2012 Merget B, Koetschan C, Hackl T, Förster F, Dandekar T, Müller T, Schultz J, Wolf M. The ITS2 Database. Journal of Visualized Experiments : Jove. PMID 22433429 DOI: 10.3791/3806  0.528
2011 Joseph B, Schwarz RF, Linke B, Blom J, Becker A, Claus H, Goesmann A, Frosch M, Müller T, Vogel U, Schoen C. Virulence evolution of the human pathogen Neisseria meningitidis by recombination in the core and accessory genome. Plos One. 6: e18441. PMID 21541312 DOI: 10.1371/Journal.Pone.0018441  0.623
2010 Friedrich T, Rahmann S, Weigel W, Rabsch W, Fruth A, Ron E, Gunzer F, Dandekar T, Hacker J, Müller T, Dobrindt U. High-throughput microarray technology in diagnostics of enterobacteria based on genome-wide probe selection and regression analysis. Bmc Genomics. 11: 591. PMID 20964857 DOI: 10.1186/1471-2164-11-591  0.468
2010 Schwarz R, Joseph B, Gerlach G, Schramm-Glück A, Engelhard K, Frosch M, Müller T, Schoen C. Evaluation of one- and two-color gene expression arrays for microbial comparative genome hybridization analyses in routine applications Journal of Clinical Microbiology. 48: 3105-3110. PMID 20592156 DOI: 10.1128/Jcm.00233-10  0.603
2010 Beisser D, Klau GW, Dandekar T, Müller T, Dittrich MT. BioNet: an R-Package for the functional analysis of biological networks. Bioinformatics (Oxford, England). 26: 1129-30. PMID 20189939 DOI: 10.1093/Bioinformatics/Btq089  0.413
2010 Keller A, Förster F, Müller T, Dandekar T, Schultz J, Wolf M. Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. Biology Direct. 5: 4. PMID 20078867 DOI: 10.1186/1745-6150-5-4  0.515
2010 Koetschan C, Förster F, Keller A, Schleicher T, Ruderisch B, Schwarz R, Müller T, Wolf M, Schultz J. The ITS2 Database III--sequences and structures for phylogeny. Nucleic Acids Research. 38: D275-9. PMID 19920122 DOI: 10.1093/Nar/Gkp966  0.648
2009 Engelmann JC, Rahmann S, Wolf M, Schultz J, Fritzilas E, Kneitz S, Dandekar T, Müller T. Modelling cross-hybridization on phylogenetic DNA microarrays increases the detection power of closely related species. Molecular Ecology Resources. 9: 83-93. PMID 21564570 DOI: 10.1111/J.1755-0998.2008.02199.X  0.441
2009 Schwarz R, Seibel PN, Rahmann S, Schoen C, Huenerberg M, Müller-Reible C, Dandekar T, Karchin R, Schultz J, Müller T. Detecting species-site dependencies in large multiple sequence alignments. Nucleic Acids Research. 37: 5959-68. PMID 19661281 DOI: 10.1093/Nar/Gkp634  0.675
2009 Schwarz R, Wolf M, Müller T. A probabilistic model of cell size reduction in Pseudo-nitzschia delicatissima (Bacillariophyta). Journal of Theoretical Biology. 258: 316-22. PMID 19232359 DOI: 10.1016/J.Jtbi.2009.02.002  0.549
2009 Keller A, Schleicher T, Schultz J, Müller T, Dandekar T, Wolf M. 5.8S-28S rRNA interaction and HMM-based ITS2 annotation. Gene. 430: 50-7. PMID 19026726 DOI: 10.1016/J.Gene.2008.10.012  0.538
2008 Engelmann JC, Schwarz R, Blenk S, Friedrich T, Seibel PN, Dandekar T, Müller T. Unsupervised meta-analysis on diverse gene expression datasets allows insight into gene function and regulation. Bioinformatics and Biology Insights. 2: 265-80. PMID 19812781 DOI: 10.4137/Bbi.S665  0.662
2008 Seibel PN, Müller T, Dandekar T, Wolf M. Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. Bmc Research Notes. 1: 91. PMID 18854023 DOI: 10.1186/1756-0500-1-91  0.484
2008 Wolf M, Ruderisch B, Dandekar T, Schultz J, Müller T. ProfDistS: (profile-) distance based phylogeny on sequence--structure alignments. Bioinformatics (Oxford, England). 24: 2401-2. PMID 18723521 DOI: 10.1093/Bioinformatics/Btn453  0.511
2008 Keller A, Schleicher T, Förster F, Ruderisch B, Dandekar T, Müller T, Wolf M. ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales). Bmc Evolutionary Biology. 8: 218. PMID 18655698 DOI: 10.1186/1471-2148-8-218  0.493
2008 Dittrich MT, Klau GW, Rosenwald A, Dandekar T, Müller T. Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Bioinformatics (Oxford, England). 24: i223-31. PMID 18586718 DOI: 10.1093/bioinformatics/btn161  0.437
2008 Selig C, Wolf M, Müller T, Dandekar T, Schultz J. The ITS2 Database II: homology modelling RNA structure for molecular systematics. Nucleic Acids Research. 36: D377-80. PMID 17933769 DOI: 10.1093/Nar/Gkm827  0.51
2007 Blenk S, Engelmann J, Weniger M, Schultz J, Dittrich M, Rosenwald A, Müller-Hermelink HK, Müller T, Dandekar T. Germinal center B cell-like (GCB) and activated B cell-like (ABC) type of diffuse large B cell lymphoma (DLBCL): analysis of molecular predictors, signatures, cell cycle state and patient survival. Cancer Informatics. 3: 399-420. PMID 19455257 DOI: 10.4137/Cin.S0  0.432
2007 Gerlach D, Wolf M, Dandekar T, Müller T, Pokorny A, Rahmann S. Deep metazoan phylogeny. In Silico Biology. 7: 151-4. PMID 17688440  0.44
2007 Müller T, Philippi N, Dandekar T, Schultz J, Wolf M. Distinguishing species. Rna (New York, N.Y.). 13: 1469-72. PMID 17652131 DOI: 10.1261/rna.617107  0.437
2006 Seibel PN, Müller T, Dandekar T, Schultz J, Wolf M. 4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. Bmc Bioinformatics. 7: 498. PMID 17101042 DOI: 10.1186/1471-2105-7-498  0.511
2006 Friedrich T, Pils B, Dandekar T, Schultz J, Müller T. Modelling interaction sites in protein domains with interaction profile hidden Markov models. Bioinformatics (Oxford, England). 22: 2851-7. PMID 17000753 DOI: 10.1093/Bioinformatics/Btl486  0.462
2006 Schultz J, Müller T, Achtziger M, Seibel PN, Dandekar T, Wolf M. The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses. Nucleic Acids Research. 34: W704-7. PMID 16845103 DOI: 10.1093/Nar/Gkl129  0.523
2005 Wolf M, Achtziger M, Schultz J, Dandekar T, Müller T. Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures. Rna (New York, N.Y.). 11: 1616-23. PMID 16244129 DOI: 10.1261/Rna.2144205  0.508
2005 Wolf M, Friedrich J, Dandekar T, Müller T. CBCAnalyzer: inferring phylogenies based on compensatory base changes in RNA secondary structures. In Silico Biology. 5: 291-4. PMID 15996120  0.486
2005 Schultz J, Maisel S, Gerlach D, Müller T, Wolf M. A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota. Rna (New York, N.Y.). 11: 361-4. PMID 15769870 DOI: 10.1261/Rna.7204505  0.306
2005 Friedrich J, Dandekar T, Wolf M, Müller T. ProfDist: a tool for the construction of large phylogenetic trees based on profile distances. Bioinformatics (Oxford, England). 21: 2108-9. PMID 15677706 DOI: 10.1093/Bioinformatics/Bti289  0.472
2004 Müller T, Rahmann S, Dandekar T, Wolf M. Accurate and robust phylogeny estimation based on profile distances: a study of the Chlorophyceae (Chlorophyta). Bmc Evolutionary Biology. 4: 20. PMID 15222898 DOI: 10.1186/1471-2148-4-20  0.446
2004 Wolf M, Müller T, Dandekar T, Pollack JD. Phylogeny of Firmicutes with special reference to Mycoplasma (Mollicutes) as inferred from phosphoglycerate kinase amino acid sequence data. International Journal of Systematic and Evolutionary Microbiology. 54: 871-5. PMID 15143038 DOI: 10.1099/Ijs.0.02868-0  0.495
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