Selected publications

Shave S, Pham NT, Auer M (2022). CLAffinity: A Software Tool for Identification of Optimum Ligand Affinity for Competition-Based Primary Screens. Journal of Chemical Information and Modeling, https://doi.org/10.1021/acs.jcim.2c00285.

Tollis S, Rizzotto A, Pham NT, Koivukoski S, Sivakumar A, Shave S, Wildenhain J, Zuleger N, Keys JT, Culley J, Zheng Y, Lammerding J, Carragher NO, Brunton VG, Latonen L, Auer M, Tyers M, Schirmer EC (2022). Chemical interrogation of nuclear size identifies compounds with cancer cell line specific effects on migration and invasion. ACS Chemical Biology, https://pubs.acs.org/doi/10.1021/acschembio.2c00004.

Heckmann M, Klanert G, Sandner GP, Lanzerstorfer P, Auer M, Weghuber J (2022). Fluorescence Microscopy-Based Quantitation of GLUT4 Translocation. Methods Appl. Fluoresc. 10 022001, https://doi.org/10.1088/2050-6120/ac4998.

Shave S, Auer M (2021). MRlogP: Transfer Learning Enables Accurate logP Prediction Using Small Experimental Training Datasets. MDPI Processes, https://doi.org/10.3390/pr9112029, Corpus ID: 244151266

Shave S, Auer M (2021). SimilarityLab: Molecular Similarity for SAR Exploration and Target Prediction on the Web. MDPI Processes, https://doi.org/10.3390/pr9091520.

Zhu S, Rooney S, Pham NT, Koszela J, Kelly D, Auer M, Michlewski G (2021). RNA pull-down-Confocal Nanoscanning (RP-CONA) detects quercetin as pri-miR-7/HuR interaction inhibitor that decreases a-Synuclein levels. bioRxiv doi: https://doi.org/10.1101/2021.01.01.425030, and Nucleic Acids Research, https://doi.org/10.1093/nar/gkab484.

Ambrose A, Pham NT, Sivinski J, Alves GL, Mollasalehi N, Jimenez P, Abad M, Arulanandam, A J, Shave S, Costa-Lotufo L, La Clair J, Auer M, Chapman E (2020). A Two-Step Resin Based Approach to Reveal Survivin-Selective Fluorescent Probes. RSC Chemical Biology, https://doi.org/10.1039/D0CB00122H.

Shave S, Chen Y-K, Pham NT, Auer M (2020). PyBindingCurve, simulation and curve fitting to complex binding systems at equilibrium. bioRxiv doi: https://doi.org/10.1101/2020.11.06.371344 and Journal of Chemical Information and Modeling, ASAP, doi: https://doi.org/10.1021/acs.jcim.1c00216

Shave S, Pham TN, Śmieja CB, Auer M (2020). Quantitative Microdialysis: Experimental Protocol and Software for Small Molecule Protein Affinity Determination and for Exclusion of Compounds with Poor Physicochemical Properties. MDPI Methods Protoc. 2020, 3(3), 55; https://doi.org/10.3390/mps3030055

Rizzotto A, Tollis S, Pham NT, Wildenhain J, Zuleger N, Keys KT, Batrakou D, Culley J, Zheng S, Lammerding J, Carragher NO, Brunton VG, Auer M, Tyers M, Schirmer EC (2020). Chemical-Genetic Interrogation of Nuclear Size Control Reveals Cancer-Specific Effects on Cell Migration and Invasion. bioRxiv preprint; doi: http://dx.doi.org/10.1101/2020.01.10.902148.

Kennedy S, Jarboui M-A, Srihari S, Raso C, Bryan K, Dernayka L, Charitou T, Bernal-Llinares M, Herrera-Montarez C, Krstic A, Matallanas D, Jurisica I, Curak J, Stagljar I, LeBihan T, Imrie L, Wong V, Pillai , Lynn M.A, Fasterius E, Szigyarto C.A-K, Kiel C, Serrano L, Rauch N, Pilkington R, Cammareri P, Sansom O, Shave S, Auer M, Horn N, Klose F, Ueffing M, Boldt K, Lynn D.J, Kolch W (2020). Extensive rewiring of the EGFR network in colorectal cancer cells expressing transforming levels of KRASG13D. Nature Communications, | (2020) 11:499 | https://doi.org/10.1038/s41467-019-14224-9.

Pérez-Pi I, Evans DA, Horrocks MH, Pham NT, Dolt KS, Koszela J, Kunath T, Auer M (2019). α-Synuclein–Confocal Nanoscanning (ASYN-CONA), a Bead-Based Assay for Detecting Early-Stage α-Synuclein Aggregation. Anal. Chem. 91, 5582–5590 (2019), https://doi.org/10.1021/acs.analchem.8b03842 , PMID: 30964656, PMCID: PMC6534341.

Lee C-H, Griffiths S, Digard P, Pham NT, Auer M. Haas J, Grey F (2019). Asparagine deprivation causes a reversible inhibition of Human Cytomegalovirus acute virus replication. bioRxiv, 2019, https://doi.org/10.1101/690016, and mBio 10:e01651-19, https://doi.org/10.1128/mBio.01651-19.

Lee C-H, Griffiths S, Digard P, Pham NT, Auer M. Haas J, Grey F (2019). Identification of novel host factors influencing human cytomegalovirus replication using a two-step siRNA screen. Access Microbiology 1 (1A). https://doi.org/10.1099/acmi.ac2019.po0068. (Meeting Report).

Rojas F, Silvester E, Young J, Milne R, Tettey M, Houston DR, Walkinshaw MD, Pérez-Pi I, Auer M, Denton H, Smith TK, Thompson J, Matthews KR (2019). Oligopeptide signaling through TbGPR89 drives trypanosome stumpy induction by quorum sensing. Cell 176, 1–12, 306-317, https://doi.org/10.1016/j.cell.2018.10.041

Koszela J, Pham NT, Evans D, Mann S, Perez-Pi I, Shave S, Ceccarelli D, Sicheri F, Tyers M, Auer M (2018). Real-time tracking of complex ubiquitination cascades using a fluorescent confocal on-bead assay. BMC Biology 16:88 https://doi.org/10.1186/s12915-018-0554-z, PMID: 30097011.

Liu W, Luo Z, Wang Y, Pham NT, Tuck L, Pérez Pi I, Liu L, Shen Y, French C, Auer M, Marles-Wright J, Dai J, Cai Y (2018). Rapid pathway prototyping and engineering using in vitro and in vivo synthetic genome SCRaMbLE-in methods. Nature Communications 9 (1), 1936 https://doi.org/10.1038/s41467-018-04254-0, PMID: 29789543, PMCID: PMC5964202.

Koszela J, Pham NT, Evans D, Mann S, Perez-Pi I, Shave S, Ceccarelli D, Sicheri F, Tyers M, Auer M (2018). Real-time tracking of complex ubiquitination cascades using a fluorescent confocal on-bead assay. BioRxiv, doi: https://doi.org/10.1101/268706; and BMC-Biology in press, doi : 10.1186/s12915-018-0554-z, BMCB-D-18-00215.1.

Shave S, McGuire K, Pham NT, Mole DJ, Webster SP, Auer M (2018). Diclofenac identified as a kynurenine 3-monooxygenase binder and inhibitor by molecular similarity techniques. ACS Omega. 3 (3), 2564-2568. https://doi.org/10.1021/acsomega.7b02091, PMCID# PMC6044753 .

Shave S, Mann S, Koszela J, Kerr A, Auer M (2018). PuLSE: Quality control and quantification of peptide sequences explored by phage display libraries. PLOS ONE 13(2): e0193332. doi: https://doi.org/10.1371/journal.pone.0193332.

Dantoft W, Martínez-Vicente P, Jafali J, Pérez-Martínez L, Martin K, Kotzamanis K, Craigon M, Auer M, Young NT, Walsh P, Marchant A, Angulo A, Forster T and Ghazal P (2017). Genomic Programming of Human Neonatal Dendritic Cells in Congenital Systemic and In Vitro Cytomegalovirus Infection Reveal Plastic and Robust Immune Pathway Biology Responses. Front. Immunol. 8:1146. https://doi.org/10.3389/fimmu.2017.01146.

Portal C, Hintersteiner M, Barbeau O, Dodd P, Huggett M, Pérez-Pi I, Evans D, Auer M (2017). Facile Synthesis of a Next Generation Safety-Catch Acid-Labile Linker, SCAL-2, Suitable for Solid-Phase Synthesis, On-Support Display and for Post-Synthesis Tagging. ChemistrySELECT, 2(23), 6658–6662, https://doi.org/10.1002/slct.201701519.

Rojas F , Koszela J, Llorente B, Búa J, Burchmore R, Auer M, Mottram J, Téllez-Iñón MT (2017). The ubiquitin-conjugating enzyme CDC34 is essential for cytokinesis in contrast to putative subunits of a SCF complex in Trypanosoma brucei. PLoS Neglected Tropical Diseases 2017 Jun 13;11(6):e0005626. https://doi.org/10.1371/journal.pntd.0005626.

Wilson K, Webster SP, Peter J, Zheng X, Homer NZM, Pham N, Auer M, Mole DJ (2017 and 2018). Detecting Drug-Target Binding In Cells Using Fluorescence Activated Cell Sorting Coupled With Mass Spectrometry Analysis. bioRxiv : 10.1101/121988, Methods Appl. Fluoresc. (2018) 6, 015002, https://doi.org/10.1088/2050-6120/aa8c60.

Belsom A, Mudd G, Giese SH, Auer M, Rappsilber J (2017). A complimentary benzophenone cross-linking/mass spectrometry photochemistry. Analytical Chemistry 90(10), 5319-5324 : https://doi.org/10.1021/acs.analchem.6b04938; PMID: 28430416.

Benoit RM, Ostermeier C, Geiser M, Su Zhou Li J, Widmer H, Auer M (2016). Seamless Insert-Plasmid Assembly at High Efficiency and Low Cost. PLoS ONE 11(4), pone.0153158: https://doi.org/10.1371/journal.pone.0153158

Heusermann W, Ludin B, Pham NT, Auer M, Weidemann T, Hintersteiner M (2016). A Wide-Field Fluorescence Microscope Extension for Ultrafast Screening of One-Bead One-Compound Libraries Using a Spectral Image Subtraction Approach. ACS Combinatorial Science 2016, 18(5), 209-219. https://doi.org/10.1021/acscombsci.5b00175; PMID: 27057765

Wilson K, Auer M, Binnie M, Zheng X, Pham NT, Iredale JP, Webster SP, Mole DJ (2016). Overexpression of human kynurenine-3-monooxygenase protects against 3-hydroxykynurenine-mediated apoptosis through bidirectional nonlinear feedback. Cell Death and Disease (2016) 7, e2197; DOI:10.1038/cddis.2016.87. PMID: 27077813

Mudd G, Peréz Pi I, Fethers N, Dodd P, Barbeau O, Auer M (2015) . A general synthetic route to isomerically pure functionalized Rhodamine dyes. Methods and Appl. Fluorescence, 3, 045002, DOI:10.1088/2050-6120/3/4/045002.

Koos B, Cane G, Grannas K, Löf L, Arngården L, Heldin J, Clausson CM, Klaesson A, Hirvonen MK, Souza de Oliveira FM, Talibov VO, Pham NT, Auer M, U. Danielson H, Haybaeck J, Kamali- Moghaddam M & Söderberg O (2015). Proximity Dependent Initiation of Hybridization Chain Reaction. Nature Communications, 6:7294, DOI: 10.1038/ncomms8294, PMID: 26065580.

Shave S, Blackburn EA, Adie J, Houston DR, Auer M, Webster SP, Taylor P, Walkinshaw MD (2015). UFSRAT: Ultra-Fast Shape Recognition with Atom Types -The Discovery of Novel Bioactive Small Molecular Scaffolds for FKBP12 and 11ßHSD1. PLoS ONE, DOI: https://doi.org/10.1371/journal.pone.0116570, PMID: 25659145.

Wilson K, Mole DJ, Homer NJ, Iredale JP, Auer M, and Webster SP (2014). A magnetic bead-based ligand binding assay to facilitate human kynurenine 3-monooxygenase drug discovery. Journal of Biomolecular Screening, 1-7, Online October 8, DOI: https://doi.org/10.1177/1087057114554171, PMID: 25296660.

Portal CF, Seifert JM, Buehler C, Meisner NC, Auer M (2014). A Novel 1:1 Labeling and Purification Process for C-terminal Thioester and Single Cysteine Recombinant Proteins Using Generic Peptidic Toolbox Reagents. Bioconjugate Chemistry 25/7, 1213-1222, https://doi.org/10.1021/bc5000059, PMID: 24866260.

Beard PM, Griffiths SJ, Gonzalez O, Haga IR, Pechenick Jowers T, Reynolds DK, Wildenhain J, Tekotte H, Auer M, Tyers M, Ghazal P, Zimmer R and Haas J (2014). A loss of function analysis of host factors influencing Vaccinia virus replication by RNA interference. PLoS ONE 9(6), e98431, DOI: 10.1371/journal.pone.0098431, PMID: 24901222.

Hintersteiner M, Kallen J, Schmied M, Jung T, Mudd G, Shave S, Gstach H and Auer M (2014). Identifizierung und Strukturbestimmung eines niedermolekularen Aktivators der LFA-1/ICAM-1-Bindung. Angewandte Chemie 126, (17), 4410-4414, DOI: 10.1002/ange.201310240.

MacGregor P, Ivens A, Shave S, Collie I, Gray D, Auer M, Matthews KR (2014) High throughput chemical screening for anti-virulence developmental phenotypes in Trypanosoma brucei. Eucaryotic Cell, 13(3), 412-426. doi:10.1128/EC.00335-13, PubMedID: 24442893.

Hintersteiner M, Kallen J, Schmied M, Jung T, Mudd G, Shave S, Gstach H and Auer M (2014) Identification and x-ray co-crystal structure of a small molecule activator of LFA-1 -ICAM-1 binding. Angewandte Chemie Intl. Ed. 53, 4322-4326, doi: 10.1002/anie.201310240, PubMedID: 24692345. Ranked as “Important Paper” by the Editorial Board selected to be highlighted at the inside cover.

Huang H, Ceccarelli DF, Orlicky S, St-Cyr DJ, Ziemba A, Garg P, Plamondon S, Auer M, Sidhu S, Marinier A, Kleiger G, Tyers M & Sicheri F (2014). E2 enzyme inhibition by stabilization of a low-affinity interface with ubiquitin. Nature Chemical Biology 10, 156-163, doi:10.1038/nchembio.1412, PMID: 24316736.

Wilson K, Mole DJ, Binnie M, Homer NZM, Zheng X, Yard BA, Iredale JP, Auer M*, and Webster SP* (2014). (* joint corresponding authors). Bacterial Expression of Human Kynurenine 3-Monooxygenase: Solubility, Activity and Purification. Protein Expression and Purification 95, 96-103, http://dx.doi.org/10.1016/j.pep.2013.11.015, PubMedID: 24316190.

Shave, S and Auer M (2013). CTB-ConeExclusion, adapting structure based solution virtual screening to libraries on solid support. Journal of Chemical Information and Modeling 53 (12), 3156–3162, doi: 10.1021/ci400371q, PubMedID: 24266324.

Hintersteiner M and Auer A (2013). A two-channel detection method for autofluorescence correction and efficient on-bead screening of one-bead one-compound combinatorial libraries using the COPAS fluorescence activated bead sorting system. Methods Appl. Fluoresc. 1 017001. doi:10.1088/2050-6120/1/1/017001,

Rodriguez-Martin S *; Kropp KA *; Wilhelmi V; Juranic Lisnic V; Hsieh WY; Blanc M; Livingston A; Busche A; Tekotte H; Messerle M; Auer M; Fraser I; Jonjic S; Angulo A; Reddehase MJ, Ghazal P (2012). Ablation of the Regulatory IE1 Protein of Murine Cytomegalovirus Alters In Vivo Pro-inflammatory TNF-alpha Production during Acute Infection. PLoS Pathog 8(8): e1002901. doi:10.1371/journal.ppat.1002901.

Hintersteiner M, Buehler C, Auer M (2012). On-Bead Screens Sample Narrower Affinity Ranges of Protein-Ligand Interactions Compared to Equivalent Solution Assays. ChemPhysChem. 13(15), 3472-80, doi: 10.1002/cphc.201200117, PMID: 22829563.

Hintersteiner M, Knox AJ, Mudd G, Auer M (2012). Towards mimicking short linear peptide motifs: Identification of new mixed alpha-beta peptidomimetic ligands for SLAM-Associated Protein (SAP) by confocal on-bead screening. J. Chem. Biol. 5, 2, 63-79, DOI: 10.1007/s12154-011-0071-9.

Benoit R, Auer M; (2011) A direct way of redox sensing. RNA Biology, 8(1), 18-23, DOI: 10.4161/rna.8.1.13555.

Hintersteiner M, Ambrus-Aikelin G, Bednenko J, Schmied M, Meisner NC, Knox A, Gstach H, Seifert JM, Singer E, Gerace L, Auer M (2010) Identification of a small molecule inhibitor of importin beta mediated nuclear import by confocal on-bead screening of tagged one-bead one-compound libraries. ACS Chem. Biol. 5(10), 967-979, https://doi.org/10.1021/cb100094k, PMID: 20677820.

Weidemann T, Seifert JM, Hintersteiner M, Auer M (2010), Analysis of Protein-Small Molecule Interactions by Microscale Equilibrium Dialysis and Its Application As a Secondary Confirmation Method for on-Bead Screening. J. Comb. Chem. 12 (5), 647-654, DOI: https://doi.org/10.1021/cc100057e.

Benoit RM, Meisner NC, Kallen J, Graff P, Hemmig R; Cèbe R, Ostermeier C, Widmer H, Auer M (2010), The x-ray crystal structure of the first RNA recognition motif and site-directed mutagenesis suggest a possible HuR redox sensing mechanism. J. Mol. Biol. 397, 1231-1244; https://doi.org/10.1016/j.jmb.2010.02.043.

Weidemann T, Höfinger S, Auer M (2009) Signaling of IL-4R, a typical class I cytokine receptor: What defines the quiescent state? Handbook of Cell Signaling. In: Ralph A. Bradshaw and Edward A. Dennis, editors, Handbook of Cell Signaling 2nd edition. Oxford: Academic Press, pp. 323-328. ISBN: 978-0-12-374145-5.

Hintersteiner M, Kimmerlin T, Kalthoff F, Stoeckli M, Garavel G, Seifert JM, Meisner NC, Uhl V, Buehler C, Weidemann T, Auer M, (2009) A single bead labelling method for combining confocal fluorescence on-bead screening and solution validation of tagged one-bead one-compound libraries. Chemistry & Biology 16(7), 724-35. doi:10.1016/j.chembiol.2009.06.011, PMID: 19635409. Dehua Pei: Faculty of 1000 Biology, 18 Feb 2010 evaluation, F1000 Factor 3.0

Hintersteiner M, Buehler C, Uhl V, Schmied M, Müller J, Kottig K, Auer M, (2009) Confocal Nanoscanning, Bead Picking (CONA) - PickoScreen microscopes for automated and quantitative screening of one-bead one compound libraries. Journal of Combinatorial Chemistry 11(5), 886-894; DOI:10.1021/cc900059q, PMID: 19603813.

Hintersteiner M, Kimmerlin T, Garavel G, Schindler T, Bauer R, Meisner NC, Seifert JM, Uhl V, Auer M, (2009) A Highly Potent and Cellular Active beta-Peptidic Inhibitor of the p53/hDM2 Interaction. ChemBioChem 10, 994-998; https://doi.org/10.1002/cbic.200800803, PMID: 19267375.

Meisner NC, Hintersteiner M, Seifert JM, Bauer R, Benoit RM, Widmer A, Schindler T, Uhl V, Lang M, Gstach H, Auer M (2009) Terminal adenosyl transferase activity of posttranscriptional regulator HuR revealed by confocal on-Bead screening. J. Mol. Biol. 386, 435–450; https://doi.org/10.1016/j.jmb.2008.12.020.

Hintersteiner M, Auer M (2008) Single bead, single molecule, single cell fluorescence: technologies for drug screening and target validation. Ann.N.Y.Acad.Sci.; 1130, Issue Fluorescence Methods and Applications. Spectroscopy, Imaging and Probes:1-11. doi: 10.1196/annals.1430.055

Hintersteiner M, Weidemann T, Kimmerlin T, Filiz N, Bühler C, Auer M (2008) Covalent fluorescence labeling of His-tagged proteins on the surface of living cells. ChemBioChem; 9 (9):1391-5. doi: 10.1002/cbic.200800089

Stork D, Timin EN, Berjukow S, Huber C, Hohaus A, Auer M, Hering S (2007) State-dependent dissociation of HERG channel inhibitors. Featured Article. Br.J.Pharmacol.; 151:1368-76.

Meisner NC, Hintersteiner M, Müller K, Bauer R, Seifert JM, Naegeli HU, Ottl J, Oberer L, Guenat C, Moss S, Harrer N, Woisetschläger M, Bühler C, Uhl V, Auer M (2007) Identification and mechanistic characterization of low molecular weight inhibitors for HuR. Full Article. Nature Chemical Biology; 3 (8):508-15. doi:10.1038/nchembio.2007.14, PMID: 17632515.

Weidemann T, Höfinger S, Müller K, Auer M (2007) Beyond dimerization: A membrane-dependent activation model for Interleukin-4 receptor mediated signalling. J.Mol.Biol.; 366 (5):1365-73. Recommended in Faculty of 1000, selected by David Kranz / Ralf Jockers, evaluation 16 Feb 07 - 19 Mar 07, F1000 Factor 3.2. PMID: 17223132, DOI: 10.1016/j.jmb.2006.11.095

Chrencik JE, Brooun A, Kraus ML, Recht MI, Kolatkar AR, Han GW, Seifert JM, Widmer H, Auer M, Kuhn P (2006) Structural and biophysical characterization of the EphB4-EphrinB2 protein-protein interaction and receptor specificity. J.Biol.Chem.; 281 (38):28185-92.

Bühler C, Dreessen J, Müller K, So PTC, Schilb A, Hassiepen U, Stöckli K, Auer M (2005) Multi-photon excitation of intrinsic protein fluorescence and its application to pharmaceutical drug screening. Assay Drug Dev.Technol.; 3 (2):155-67. https://doi.org/10.1089/adt.2005.3.155, PMID: 15871690.

Hackermueller J, Meisner NC, Auer M, Jaritz M, Stadler PF (2005) The effect of RNA secondary structures on RNA-ligand binding and the modifier RNA mechanism: a quantitative model. Gene; 345 (1):3-12.

Meisner NC, Hackermueller J, Uhl V, Aszódi V, Jaritz M, Auer M (2004) mRNA openers and closers: Modulating AU-rich element-controlled mRNA stability by a molecular switch in mRNA secondary structure. ChemBioChem; 5 (10):1432-47. PMID: 15457527 DOI: 10.1002/cbic.200400219.

Meisner NC, Hintersteiner M, Uhl V, Weidemann T, Schmied M, Gstach H, Auer M (2004) The chemical hunt for the identification of drugable targets. Curr.Opin.Chem.Biol.; 8 (4):424-31.

Billich A, Bilban M, Meisner NC, Nussbaumer P, Neubauer A, Jäger S, Auer M (2004) Confocal fluorescence detection expanded to UV excitation: the first continuous fluorimetric assay of human steroid sulfatase in nanoliter volume. Assay Drug Dev. Technol; 2(1):21-30.

Uhl V, Gstach H, Seifert J-M, Jung T, Falchetto R, Fetsch A, Stange R, Schmied M, Graf C, Adam A, Amberger F, Monteux D, Prechelmacher S, Pruckner A, Dautz W, Graf P, Hermes E, van Hooft P, Bérces A, Müller J, Auer M (2002) CONA HTS. Confocal Nanoscanning - Bead Picking - AIDA Technology. A methodology for drug discovery with orphan molecular targets and combinatorial chemistry on the solid surface. Single Mol.; 3 (2-3):174-5.

Hackermuller J, Meisner NC, Aszodi A, Auer M, Jaritz M (2002). Towards a Functional Classification of ARE Protein Interactions. GENOME INFORMATICS SERIES, 326-327.

Auer M (2001) HTS: Understanding the physiology of life. Drug Discov.Today; 6 (18):935 6.

Gstach H, Pflugseder K, Prechelmacher (née Schmidt) S, Monteux D, Lewis SE, Storz T, Früchtel JS, Graf C, Pruckner A, Auer M (2001) A Powerful Tool for Generic Fluorescence Labelling of Combinatorial Compound Libraries; Fifth International Electronic Conference on Synthetic Organic Chemistry (ECSOC-5); http://www.mdpi.net/ecsoc-5/b0008/b0008.htm.

Auer M, Graf C, La Clair JJ (2001) Durch Fluoreszenz-Fingerprinting zu molekularen Erkennungslandschaften; Angew.Chem.; 113:1941-4. PMID: 11385663

Auer M, Graf C, La Clair JJ (2001) Fluorescent fingerprinting of molecular recognition landscapes. Angew.Chem.Int.Ed.; 40:1889-92.

Bühler C, Stöckli K, Auer M. The Integration of Single Molecule Detection Technologies into Miniaturized Drug Screening: Current Status and Future Perspectives. In New Trends in Fluorescence Spectroscopy. Applications to Chemical and Life Sciences. Springer Verlag AG. Valeur, B.; Brochon, J.-C., (Eds.), 2001. ISBN: 3-540-67779-8, p. 331-379.

Auer M, Seifert JM, Wallace ST, Sleigh R. RNA in a Miniaturized Lead Discovery Process. In: Schroeder & R Wallis M, editors. RNA-Binding Antibiotics: Molecular Biology Intelligence Unit 13. Georgetown, Texas: LANDES BIOSCIENCE, 2001:164-180.

Meyer-Almes FJ, Auer M (2000) Enzyme inhibition assays with fluorescence correlation spectroscopy: A new algorithm for the derivation of kcat/Km and Ki values at substrate concentrations lower than the Michaelis Menten constant. Biochemistry; 39(43):13261-8.

Bilban M, Auer M, Billich A, Nussbaumer P (2000) New fluorogenic substrate for the first continuous steroid sulfatase assay. Bioorg.Med.Chem.Lett.;10:967-9. PMID: 11052679

Thumb W, Graf C, Parslow TG, Schneider R, Auer M (1999) Temperature inducible b-sheet structure in the transactivation domains of retroviral regulatory proteins of the Rev family. Spectrochim.Acta A; 55(13):2729-43.

Spatz M, Ali SA, Auer M, Graf C, Eibl MM, Steinkasserer A (1999) Circular dichroism Analysis of insect cell expressed Herpes simplex virus type I single-stranded DNA-binding protein ICP8. Prot.Expr.Purif.; 16:40-46.

Ringhofer S, Kallen J, Dutzler R, Billich A, Visser AJWG, Scholz D, Steinhauser O, Schreiber H, Auer M, Kungl AJ (1999) X-ray structure and conformational dynamics of the HIV-1 protease in complex with the inhibitor SDZ283-910: Agreement of time-resolved spectroscopy and molecular dynamics simulations. J.Mol.Biol.; 286 (4):1147-59.

Spatz M, Ali SA, Auer M, Graf C, Eibl MM, Steinkasserer A (1998) High level expression and structural characterization of herpes simplex virus type I transcriptional activator VP16 (alpha-trans inducing factor). Biophys.Biochem.Res.Commun.; 251:235-8.

Auer M, Moore KJ, Meyer-Almes FJ, Guenther R, Pope AJ, Stoeckli KA (1998) Fluorescence correlation spectroscopy: Lead discovery by miniaturized HTS. Drug Discov.Today; 3:457-65. doi:10.1016/S1359-6446(98)01240-9

Auer M, Moore KJ, Meyer-Almes FJ, Guenther R, Ullmann D, Hammerschmid F, Murray KJ, Pope A, Amstutz R, Henco H, Stoeckli KA (1998) Interfacing novel detection technologies based on fluorescence correlation spectroscopy with miniaturized HTS. Drug Discovery Technologies ‘98, Exploiting Technologies to Accelerate & Multiply Drug Discovery, Conference Documentation

Prieschl EE, Novotny V, Csonga R, Jaksche D, Elbe-Bürger A, Thumb W, Auer M, Stingl G, Baumruker T (1998) A novel splice variant of the transcription factor Nfr1 interacts with the TNFa promotor and stimulates transcription. Nucl.Acids Res.; 26:2291-7.

Rudolf MP, Vogel M, Kricek F, Ruf C, Zürcher A, Reuschel R, Auer M, Miescher S, Stadler B (1998) Epitope-specific antibody response to IgE by mimotope immunization. J.Immunol.; 160:3315-21.

Kungl AJ, Visser NV, Van Hoek A, Visser AJWG, Billich A, Schilk A, Gstach H, Auer M (1998) Time-resolved fluorescence anisotropy of HIV-1 protease inhibitor complexes correlates with inhibitory activity. Biochemistry; 37:2778-86. PMID: 9485428 DOI: 10.1021/bi971654w.

Lam WC, Seifert JM, Amberger F, Graf C, Auer M*, Millar DP* (* corresponding authors) (1998) Structural dynamics of HIV-1 Rev and its complexes with RRE and 5S-RNA. Biochemistry; 37:1800-9.

Engel E, Richter K, Obermeyer G, Briza P, Kungl AJ, Simon B, Auer M, Ebner C, Rheinberger HJ, Breitenbach M, Ferreira F (1997) Immunological and biological properties of Bet v 4, a novel birch pollen allergen with two EF-hand calcium-binding domains. J.Biol.Chem.; 272:28630-7.

Middleton J, Neil S, Wintle J, Clark-Lewis I, Moore H, Lam C, Auer M, Hub E, Rot A (1997) Transcytosis and surface presentation of IL-8 by venular endothelial cells. Cell; 91 (3):385-95. PMID: 9363947

Andrew PJ, Auer M, Lindley IJD, Kauffmann HF, Kungl AJ (1997) Intensity-independent fluorometric detection of cellular nitric oxide release. FEBS Lett. 408:319-23.

Pendl GG, Prieschl EE, Thumb W, Harrer NE, Auer M, Baumruker T (1997) Effects of phosphatidylinositol-3-kinase inhibitors on degranulation and gene induction in allergically triggered mouse mast cells. Int.Arch.Allerg.Immunol.; 112:392-9.

Park WKC, Auer M, Jaksche H, Wong CH (1996) Rapid combinatorial synthesis of aminoglycoside antibiotic mimetics: Use of a polyethylene glycol-linked amine and a neamine-derived aldehyde in multiple component condensation as strategy for discovery of new inhibitors of the HIV RNA Rev responsive element J.Am.Chem.Soc.; 118:10150-5.

Kungl AJ, Susani M, Lindemann A, Machius M, Visser A, Scheiner O, Kraft D, Breitenbach B, Auer M (1996) Evidence for an alpha-helical T cell epitope in the C-terminus of the main Birch Pollen Allergen Bet v1. Biochem.Biophys.Res.Commun.; 223:187–92.

Csonga R, Ettmayer P, Auer M, Eckerskorn C, Eder J, Klier H (1996) Evaluation of the metal ion requirement of the human hypusine hydroxylase from HeLa cells using a novel enzyme assay. FEBS Lett.; 380:209-14.

Sticht H, Auer M, Schmitt B, Besemer J, Horcher M, Kirsch T, Lindley IJD, Rösch P (1996) Structure and activity of a chimeric IL-8 - melanoma growth stimulatory activity protein. Eur.J.Biochem.; 235:26-35.

Joao HC, Csonga R, Klier H, Koettnitz K, Auer M, Eder J (1995) The polypeptide chain of eucaryotic initiation factor 5A occurs in two distinct conformations in the absence of the hypusine modification. Biochemistry; 34:14703-11.

Klier H, Csonga R, Joao HC, Eckerskorn C, Auer M, Lottspeich F, Eder J (1995) Isolation and structural characterization of different isoforms of the hypusine-containing eIF-5A from HeLa cells. Biochemistry; 34:14693-702.

Daly TJ, Doten RC, Rusche JR, Auer M (1995) The amino terminal domain of HIV-1 Rev is required for discrimination of the RRE from nonspecific RNA. J.Mol.Biol.; 253: 243-58.

Kungl A, Anrather D, Landl G, Kauffmann H, Auer M, Hermetter A, Prenner E (1994) Diphenylhexatriene-phosphatidylcholine fluorescence in POPC vesicles: Comparison of the exponential series and the maximum-entropy method. J.Fluoresc.; 4 (4):361-3. PMID: 24233616 DOI: 10.1007/BF01881457.

Kungl AJ, Seidel C, Schilk A, Jaksche H, Daly TJ, Kauffmann HF, Auer M (1994) Characterization of HIV-1 Rev by (time-resolved) fluorescence spectroscopy. J.Fluoresc.; 4 (4):299-302. DOI: 10.1007/BF01881444, PMID: 24233603

Auer M, Owens SR, Pfeffer S, Kallen J, Wasserbauer E, Aschauer H, Ehn G, Rot A, Besemer J, Lam C, Lindley IJD. Elucidation of structure function relationships in the Interleukin-8 family by X-ray crystallography. In: Lindley, Kunkel, & Westwick editors. The Chemokines, Biology of the inflammatory peptide supergene family II. In series: Advances in Experimental Medicine and Biology, Plenum Press, New York, London, 1993;171-82. PMID: 7942294

Kungl AJ, Machius M, Huber R, Schwer C, Lam C, Aschauer H, Ehn G, Lindley IJD, Auer M (1994) Purification, crystallization and preliminary diffraction analysis of recombinant human neutrophil-activating peptide 2 (rhNAP-2). FEBS Lett.; 347: 300-3. DOI: 10.1016/0014-5793(94)00573-7

Daly TJ, Doten RC, Rennert P, Auer M, Jaksche H, Donners A, Fisk G, Rusche JR (1993) Biochemical characterization of binding of multiple HIV-1 Rev monomeric proteins to the Rev-responsive element. Biochemistry; 32:10497–505. DOI: 10.1021/bi00090a028

Daly TJ, Rennert P, Lynch P, Barry J, Dundas M, Rusche JR, Doten RC, Auer M, Farrington GK (1993) Perturbation of the carboxy-terminus of HIV-1 Rev affects multimerization on the RRE. Biochemistry; 32:8945-54. DOI: 10.1021/bi00085a028

Auer M, Gremlich HU, Seifert JM, Daly DJ, Parslow TG, Casari G, Gstach H (1994) Helix-loop-helix motif in HIV-1 Rev. Biochemistry; 33:2988-96. DOI: 10.1021/bi00176a031, PMID: 7510518.

Auer M, Kallen J, Schleischitz S, Walkinshaw MD, Wasserbauer E, Ehn G, Lindley IJD (1990) Crystallization and preliminary X-ray crystallographic study of interleukin-8. FEBS Lett.; 265:30 2. DOI: 10.1016/0014-5793(90)80876-K

Roesch P, Klaus W, Auer M, Goody RS (1989) Nucleotide and Ap5A complexes of porcine adenylate kinase: a proton and fluorine-19 NMR study. Biochemistry 28:4318-25. DOI: 10.1021/bi00436a029

Auer M, Roesch P, Sczakiel G, Goody RS (1989) Rapid synthesis of 2'- and 3'-fluorinated nucleotides and their use in 19F-NMR-spectroscopy of nucleotide binding enzymes. Nucleosides & Nucleotides; 8 (5&6):1041-2. DOI:10.1080/07328318908054272

Auer M, Krieger C, Gautel M, Labeit S, Sczakiel G, Weiss S, Goody RS (1989) Synthesis and biological applications of 2',3'-dideoxynucleoside-5'-O-(α-thio) triphosphates. Nucleosides & Nucleotides; 8 (5&6):849-53. DOI:10.1080/07328318908054228

Auer M, Leonhard H, Hayek K (1983) Reversible phase transitions in the platinum (111)-sulfur system. Appl.Surf.Sci.; 17:70-8, DOI:10.1016/0378-5963(83)90112-5