Andreas Beyer - Publications

Affiliations: 
BIOTEC Technische Universität Dresden, Dresden, Sachsen, Germany 
Area:
computational biology
Website:
http://www.biotec.tu-dresden.de/research/beyer

58 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
2022 Grossbach J, Gillet L, Clément-Ziza M, Schmalohr CL, Schubert OT, Schütter M, Mawer JSP, Barnes CA, Bludau I, Weith M, Tessarz P, Graef M, Aebersold R, Beyer A. The impact of genomic variation on protein phosphorylation states and regulatory networks. Molecular Systems Biology. 18: e10712. PMID 35574625 DOI: 10.15252/msb.202110712  0.306
2019 Shao W, Guo T, Toussaint NC, Xue P, Wagner U, Li L, Charmpi K, Zhu Y, Wu J, Buljan M, Sun R, Rutishauser D, Hermanns T, Fankhauser CD, Poyet C, ... ... Beyer A, et al. Comparative analysis of mRNA and protein degradation in prostate tissues indicates high stability of proteins. Nature Communications. 10: 2524. PMID 31175306 DOI: 10.1038/S41467-019-10513-5  0.339
2018 Späth MR, Bartram MP, Palacio-Escat N, Hoyer KJR, Debes C, Demir F, Schroeter CB, Mandel AM, Grundmann F, Ciarimboli G, Beyer A, Kizhakkedathu JN, Brodesser S, Göbel H, Becker JU, et al. The proteome microenvironment determines the protective effect of preconditioning in cisplatin-induced acute kidney injury. Kidney International. PMID 30522767 DOI: 10.1016/J.Kint.2018.08.037  0.327
2018 Höhne M, Frese CK, Grahammer F, Dafinger C, Ciarimboli G, Butt L, Binz J, Hackl MJ, Rahmatollahi M, Kann M, Schneider S, Altintas MM, Schermer B, Reinheckel T, Göbel H, ... ... Beyer A, et al. Single nephron proteomes connect morphology and function in proteinuric kidney disease. Kidney International. PMID 29530281 DOI: 10.1016/J.Kint.2017.12.012  0.339
2017 Mackmull MT, Klaus B, Heinze I, Chokkalingam M, Beyer A, Russell RB, Ori A, Beck M. Landscape of nuclear transport receptor cargo specificity. Molecular Systems Biology. 13: 962. PMID 29254951 DOI: 10.15252/Msb.20177608  0.315
2017 Liu Y, Borel C, Li L, Müller T, Williams EG, Germain PL, Buljan M, Sajic T, Boersema PJ, Shao W, Faini M, Testa G, Beyer A, Antonarakis SE, Aebersold R. Systematic proteome and proteostasis profiling in human Trisomy 21 fibroblast cells. Nature Communications. 8: 1212. PMID 29089484 DOI: 10.1038/S41467-017-01422-6  0.37
2017 Seifert M, Beyer A. regNet: An R package for network-based propagation of gene expression alterations. Bioinformatics (Oxford, England). PMID 28968690 DOI: 10.1093/Bioinformatics/Btx544  0.338
2017 Tain LS, Sehlke R, Jain C, Chokkalingam M, Nagaraj N, Essers P, Rassner M, Grönke S, Froelich J, Dieterich C, Mann M, Alic N, Beyer A, Partridge L. A proteomic atlas of insulin signalling reveals tissue-specific mechanisms of longevity assurance. Molecular Systems Biology. 13: 939. PMID 28916541 DOI: 10.15252/Msb.20177663  0.313
2017 Zhong Q, Guo T, Toussaint N, Wagner U, Charmpi K, Calzone L, Beyer A, Aebersold R, Wild PJ. Abstract 5565: Multi-omic profiling of prostate cancer evolution in 39 patients Cancer Research. 77: 5565-5565. DOI: 10.1158/1538-7445.Am2017-5565  0.335
2016 Seifert M, Friedrich B, Beyer A. Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis. Genome Biology. 17: 204. PMID 27716417 DOI: 10.1186/S13059-016-1058-1  0.318
2016 Liu Y, Beyer A, Aebersold R. On the Dependency of Cellular Protein Levels on mRNA Abundance. Cell. 165: 535-50. PMID 27104977 DOI: 10.1016/J.Cell.2016.03.014  0.393
2015 Valenzano DR, Benayoun BA, Singh PP, Zhang E, Etter PD, Hu CK, Clément-Ziza M, Willemsen D, Cui R, Harel I, Machado BE, Yee MC, Sharp SC, Bustamante CD, Beyer A, et al. The African Turquoise Killifish Genome Provides Insights into Evolution and Genetic Architecture of Lifespan. Cell. 163: 1539-54. PMID 26638078 DOI: 10.1016/J.Cell.2015.11.008  0.317
2015 Stephan J, Stegle O, Beyer A. A random forest approach to capture genetic effects in the presence of population structure. Nature Communications. 6: 7432. PMID 26109276 DOI: 10.1038/Ncomms8432  0.309
2014 Clément-Ziza M, Marsellach FX, Codlin S, Papadakis MA, Reinhardt S, Rodríguez-López M, Martin S, Marguerat S, Schmidt A, Lee E, Workman CT, Bähler J, Beyer A. Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast. Molecular Systems Biology. 10: 764. PMID 25432776 DOI: 10.15252/Msb.20145123  0.547
2014 Günal-Sad?k G, Paszkowski-Rogacz M, Singaravelu K, Beyer A, Buchholz F, Jessberger R. Stage-specific binding profiles of cohesin in resting and activated B lymphocytes suggest a role for cohesin in immunoglobulin class switching and maturation. Plos One. 9: e111748. PMID 25375358 DOI: 10.1371/Journal.Pone.0111748  0.307
2014 Simeone A, Marsico G, Collinet C, Galvez T, Kalaidzidis Y, Zerial M, Beyer A. Revealing molecular mechanisms by integrating high-dimensional functional screens with protein interaction data. Plos Computational Biology. 10: e1003801. PMID 25188415 DOI: 10.1371/Journal.Pcbi.1003801  0.418
2014 Kuhn M, Hyman AA, Beyer A. Coiled-coil proteins facilitated the functional expansion of the centrosome. Plos Computational Biology. 10: e1003657. PMID 24901223 DOI: 10.1371/Journal.Pcbi.1003657  0.573
2013 Lehtinen S, Marsellach FX, Codlin S, Schmidt A, Clément-Ziza M, Beyer A, Bähler J, Orengo C, Pancaldi V. Stress induces remodelling of yeast interaction and co-expression networks. Molecular Biosystems. 9: 1697-707. PMID 23471351 DOI: 10.1039/C3Mb25548D  0.356
2013 Gunaratne J, Schmidt A, Quandt A, Neo SP, Saraç OS, Gracia T, Loguercio S, Ahrné E, Xia RL, Tan KH, Lössner C, Bähler J, Beyer A, Blackstock W, Aebersold R. Extensive mass spectrometry-based analysis of the fission yeast proteome: the Schizosaccharomyces pombe PeptideAtlas. Molecular & Cellular Proteomics : McP. 12: 1741-51. PMID 23462206 DOI: 10.1074/Mcp.M112.023754  0.398
2013 Picotti P, Clément-Ziza M, Lam H, Campbell DS, Schmidt A, Deutsch EW, Röst H, Sun Z, Rinner O, Reiter L, Shen Q, Michaelson JJ, Frei A, Alberti S, Kusebauch U, ... ... Beyer A, et al. A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis. Nature. 494: 266-70. PMID 23334424 DOI: 10.1038/Nature11835  0.353
2012 Ackermann M, Clément-Ziza M, Michaelson JJ, Beyer A. Teamwork: improved eQTL mapping using combinations of machine learning methods. Plos One. 7: e40916. PMID 22911718 DOI: 10.1371/Journal.Pone.0040916  0.341
2012 Saraç OS, Pancaldi V, Bähler J, Beyer A. Topology of functional networks predicts physical binding of proteins. Bioinformatics (Oxford, England). 28: 2137-45. PMID 22718785 DOI: 10.1093/Bioinformatics/Bts351  0.332
2012 Pancaldi V, Saraç OS, Rallis C, McLean JR, P?evorovský M, Gould K, Beyer A, Bähler J. Predicting the fission yeast protein interaction network. G3 (Bethesda, Md.). 2: 453-67. PMID 22540037 DOI: 10.1534/G3.111.001560  0.434
2012 Ackermann M, Beyer A. Systematic detection of epistatic interactions based on allele pair frequencies. Plos Genetics. 8: e1002463. PMID 22346757 DOI: 10.1371/Journal.Pgen.1002463  0.336
2011 Michaelson JJ, Trump S, Rudzok S, Gräbsch C, Madureira DJ, Dautel F, Mai J, Attinger S, Schirmer K, von Bergen M, Lehmann I, Beyer A. Transcriptional signatures of regulatory and toxic responses to benzo-[a]-pyrene exposure. Bmc Genomics. 12: 502. PMID 21995607 DOI: 10.1186/1471-2164-12-502  0.307
2011 Elefsinioti A, Saraç ÖS, Hegele A, Plake C, Hubner NC, Poser I, Sarov M, Hyman A, Mann M, Schroeder M, Stelzl U, Beyer A. Large-scale de novo prediction of physical protein-protein association. Molecular & Cellular Proteomics : McP. 10: M111.010629. PMID 21836163 DOI: 10.1074/Mcp.M111.010629  0.433
2011 Dautel F, Kalkhof S, Trump S, Michaelson J, Beyer A, Lehmann I, von Bergen M. DIGE-based protein expression analysis of B[a]P-exposed hepatoma cells reveals a complex stress response including alterations in oxidative stress, cell cycle control, and cytoskeleton motility at toxic and subacute concentrations. Journal of Proteome Research. 10: 379-93. PMID 21171653 DOI: 10.1021/Pr100723D  0.356
2010 Loguercio S, Overall RW, Michaelson JJ, Wiltshire T, Pletcher MT, Miller BH, Walker JR, Kempermann G, Su AI, Beyer A. Integrative analysis of low- and high-resolution eQTL. Plos One. 5: e13920. PMID 21085707 DOI: 10.1371/Journal.Pone.0013920  0.336
2010 Michaelson JJ, Alberts R, Schughart K, Beyer A. Data-driven assessment of eQTL mapping methods. Bmc Genomics. 11: 502. PMID 20849587 DOI: 10.1186/1471-2164-11-502  0.315
2010 Ankö ML, Morales L, Henry I, Beyer A, Neugebauer KM. Global analysis reveals SRp20- and SRp75-specific mRNPs in cycling and neural cells. Nature Structural & Molecular Biology. 17: 962-70. PMID 20639886 DOI: 10.1038/Nsmb.1862  0.41
2010 Aho T, Almusa H, Matilainen J, Larjo A, Ruusuvuori P, Aho KL, Wilhelm T, Lähdesmäki H, Beyer A, Harju M, Chowdhury S, Leinonen K, Roos C, Yli-Harja O. Reconstruction and validation of RefRec: a global model for the yeast molecular interaction network. Plos One. 5: e10662. PMID 20498836 DOI: 10.1371/Journal.Pone.0010662  0.579
2010 Kuhn M, Szklarczyk D, Franceschini A, Campillos M, von Mering C, Jensen LJ, Beyer A, Bork P. STITCH 2: an interaction network database for small molecules and proteins. Nucleic Acids Research. 38: D552-6. PMID 19897548 DOI: 10.1093/Nar/Gkp937  0.626
2009 Elefsinioti A, Ackermann M, Beyer A. Accounting for redundancy when integrating gene interaction databases. Plos One. 4: e7492. PMID 19847299 DOI: 10.1371/Journal.Pone.0007492  0.408
2009 Ucar D, Beyer A, Parthasarathy S, Workman CT. Predicting functionality of protein-DNA interactions by integrating diverse evidence. Bioinformatics (Oxford, England). 25: i137-44. PMID 19477979 DOI: 10.1093/Bioinformatics/Btp213  0.586
2009 Michaelson JJ, Loguercio S, Beyer A. Detection and interpretation of expression quantitative trait loci (eQTL). Methods (San Diego, Calif.). 48: 265-76. PMID 19303049 DOI: 10.1016/J.Ymeth.2009.03.004  0.394
2008 Lee K, Chuang HY, Beyer A, Sung MK, Huh WK, Lee B, Ideker T. Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species. Nucleic Acids Research. 36: e136. PMID 18836191 DOI: 10.1093/Nar/Gkn619  0.648
2008 Suthram S, Beyer A, Karp RM, Eldar Y, Ideker T. eQED: an efficient method for interpreting eQTL associations using protein networks. Molecular Systems Biology. 4: 162. PMID 18319721 DOI: 10.1038/Msb.2008.4  0.759
2007 Beyer A, Bandyopadhyay S, Ideker T. Integrating physical and genetic maps: from genomes to interaction networks. Nature Reviews. Genetics. 8: 699-710. PMID 17703239 DOI: 10.1038/Nrg2144  0.639
2007 Pohlers D, Beyer A, Koczan D, Wilhelm T, Thiesen HJ, Kinne RW. Constitutive upregulation of the transforming growth factor-beta pathway in rheumatoid arthritis synovial fibroblasts. Arthritis Research & Therapy. 9: R59. PMID 17594488 DOI: 10.1186/Ar2217  0.484
2007 Hollunder J, Beyer A, Wilhelm T. Protein subcomplexes--molecular machines with highly specialized functions. Ieee Transactions On Nanobioscience. 6: 86-93. PMID 17393854 DOI: 10.1109/Tnb.2007.891884  0.583
2007 Brockmann R, Beyer A, Heinisch JJ, Wilhelm T. Posttranscriptional expression regulation: what determines translation rates? Plos Computational Biology. 3: e57. PMID 17381238 DOI: 10.1371/Journal.Pcbi.0030057  0.576
2007 Hollunder J, Friedel M, Beyer A, Workman CT, Wilhelm T. DASS: efficient discovery and p-value calculation of substructures in unordered data. Bioinformatics (Oxford, England). 23: 77-83. PMID 17032678 DOI: 10.1093/Bioinformatics/Btl511  0.67
2007 Beyer A, Suthram S, Ideker T. Uncovering regulatory pathways with expression quantitative trait loci Gensips'07 - 5th Ieee International Workshop On Genomic Signal Processing and Statistics. DOI: 10.1109/GENSIPS.2007.4365837  0.715
2006 Nikolajewa S, Friedel M, Beyer A, Wilhelm T. The new classification scheme of the genetic code, its early evolution, and tRNA usage. Journal of Bioinformatics and Computational Biology. 4: 609-20. PMID 16819806 DOI: 10.1142/S0219720006001825  0.495
2006 Beyer A, Workman C, Hollunder J, Radke D, Möller U, Wilhelm T, Ideker T. Integrated assessment and prediction of transcription factor binding. Plos Computational Biology. 2: e70. PMID 16789814 DOI: 10.1371/Journal.Pcbi.0020070  0.707
2006 Wilhelm T, Hollunder J, Kim JK, Beyer A. General classification of networks Proceedings of Aisb'06: Adaptation in Artificial and Biological Systems. 3: 189-194.  0.436
2005 Nikolajewa S, Beyer A, Friedel M, Hollunder J, Wilhelm T. Common patterns in type II restriction enzyme binding sites. Nucleic Acids Research. 33: 2726-33. PMID 15888729 DOI: 10.1093/Nar/Gki575  0.522
2005 Hollunder J, Beyer A, Wilhelm T. Identification and characterization of protein subcomplexes in yeast. Proteomics. 5: 2082-9. PMID 15832363 DOI: 10.1002/Pmic.200401121  0.577
2005 Beyer A, Wilhelm T. Dynamic simulation of protein complex formation on a genomic scale. Bioinformatics (Oxford, England). 21: 1610-6. PMID 15598828 DOI: 10.1093/Bioinformatics/Bti223  0.558
2004 Beyer A, Hollunder J, Nasheuer HP, Wilhelm T. Post-transcriptional expression regulation in the yeast Saccharomyces cerevisiae on a genomic scale. Molecular & Cellular Proteomics : McP. 3: 1083-92. PMID 15326222 DOI: 10.1074/Mcp.M400099-Mcp200  0.589
2003 Beyer A, Scheuring S, Müller S, Mincheva A, Lichter P, Köhrer K. Comparative sequence and expression analyses of four mammalian VPS4 genes. Gene. 305: 47-59. PMID 12594041 DOI: 10.1016/S0378-1119(02)01205-2  0.369
2001 Scheuring S, Röhricht RA, Schöning-Burkhardt B, Beyer A, Müller S, Abts HF, Köhrer K. Mammalian cells express two VPS4 proteins both of which are involved in intracellular protein trafficking. Journal of Molecular Biology. 312: 469-80. PMID 11563910 DOI: 10.1006/Jmbi.2001.4917  0.384
2001 Wiemann S, Weil B, Wellenreuther R, Gassenhuber J, Glassl S, Ansorge W, Böcher M, Blöcker H, Bauersachs S, Blum H, Lauber J, Düsterhöft A, Beyer A, Köhrer K, Strack N, et al. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. Genome Research. 11: 422-35. PMID 11230166 DOI: 10.1101/Gr.Gr1547R  0.353
1999 Scheuring S, Bodor O, Röhricht RA, Müller S, Beyer A, Köhrer K. Cloning, characterisation, and functional expression of the Mus musculus SKD1 gene in yeast demonstrates that the mouse SKD1 and the yeast VPS4 genes are orthologues and involved in intracellular protein trafficking. Gene. 234: 149-59. PMID 10393249 DOI: 10.1016/S0378-1119(99)00163-8  0.396
1997 Portsteffen H, Beyer A, Becker E, Epplen C, Pawlak A, Kunau WH, Dodt G. Human PEX1 is mutated in complementation group 1 of the peroxisome biogenesis disorders. Nature Genetics. 17: 449-52. PMID 9398848 DOI: 10.1038/Ng1297-449  0.304
1995 FossÃ¥ A, Beyer A, Pfitzner E, Wenzel B, Kunau WH. Molecular cloning, sequencing and sequence analysis of the fox-2 gene of Neurospora crassa encoding the multifunctional beta-oxidation protein. Molecular & General Genetics : Mgg. 247: 95-104. PMID 7715608 DOI: 10.1007/Bf00425825  0.316
1993 Kunau WH, Beyer A, Franken T, Götte K, Marzioch M, Saidowsky J, Skaletz-Rorowski A, Wiebel FF. Two complementary approaches to study peroxisome biogenesis in Saccharomyces cerevisiae: Forward and reversed genetics Biochimie. 75: 209-224. PMID 8507683 DOI: 10.1016/0300-9084(93)90079-8  0.36
1991 Erdmann R, Wiebel FF, Flessau A, Rytka J, Beyer A, Fröhlich KU, Kunau WH. PAS1, a yeast gene required for peroxisome biogenesis, encodes a member of a novel family of putative ATPases Cell. 64: 499-510. PMID 1825027 DOI: 10.1016/0092-8674(91)90234-P  0.366
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