Institut für Pharmazie und Molekulare Biotechnologie, Uni Heidelberg

	List of Publications
	Peer Reviewed Original Papers
	------------------2009------------------
31.	Christina Fuest, C., Bankstahl, M., Winter, P., Helm, M., Pekcec, A. & Potschka, H. (2009) In vivo down-regulation of mouse brain capillary P-glycoprotein: A preliminary investigation Neurosci. Lett., 464: 47-51
30.	Hayrapetyan, A., Grosjean, H.& Helm, M.* (2009) Effect of a quaternary pentamine on RNA stabilization and enzymatic methylation Biological Chemistry, 390: 851-61.	PMID: 19558320
29.	Hirsch, M., Ziroli, V., Helm, M. & Massing, U. (2009) Preparation of small amounts of sterile siRNA-liposomes with high entrapping efficiency by dual asymmetric centrifugation (DAC) Journal of Controlled Release 135, 80-88.	PMID: 19124051
	------------------2008------------------
28.	Jurkowski, T.P., Meusburger, M., Phalke, S., Helm, M., Nellen, W., Reuter, G. & Jeltsch, A. (2008) Human DNMT2 methylates tRNAAsp molecules using a DNA methyltransferase-like catalytic mechanism. RNA, 14: 1663-1670.	PMID: 18567810
27.	Kobitski, A.Y., Hengesbach, M., Helm, M., & Nienhaus, G.U. (2008) Sculpting of an RNA Conformational Energy Landscape by a Methyl Group Modification – A Single-Molecule FRET Study Angewandte Chemie International Edition, 47: 4326-4330.	PMID: 18449867
26.	Steinbock. L. J. , & Helm, M.* (2008) Wavelength Dependence of Photoinduced Microcantilever Bending in the UV-VIS Range Sensors, 8: 23-34.	pdf-link
25.	Hengesbach, M. , Meusburger ,M. , Lyko, F., & Helm, M.* (2008) Use of DNAzymes for site-specific analysis of ribonucleotide modifications RNA. 14:180-7.	PMID: 17998290
	------------------2007------------------
24.	Voigts-Hoffmann, F., Hengesbach, M., Kobitski, A.Y., van Aerschot, A., Herdewijn, P., Nienhaus, G.U., & Helm, M.* (2007) A methyl group controls conformational equilibrium in human mitochondrial tRNA Lys J. Am. Chem. Soc. 129, 13382-13383.	PMID: 17941640
23.	Järve, A., Müller, A., Kim, I.-H., Rohr, K., MacLean, C., Fricker, G., Massing, U., Eberle, F., Dalpke, A. Fischer , R., Trendelenburg, M., & Helm, M.* (2007) Surveillance of siRNA integrity by FRET imaging. Nucleic Acids Research. 2007; 35(18).	PMID: 17890733
22.	Wehrmeister, J.,Fuß, A., Saurenbach, F., Berger, R. & Helm, M.* (2007) Read out of Micromechanical Cantilever Sensor Arrays by Fabry-Perot-Interferometry. Rev. Sci. Instrum. 78, 104105, (9 pages).	PMID: 17979440
21.	Kobitski, A.; Nierth, A.; Helm, M.; Jäschke, A.;& Nienhaus, G. (2007) Mg2+-dependent folding of a Diels-Alderase ribozyme probed by single-molecule FRET analysis. Nucleic Acids Research, 35(6): 2047-2059.	PMID: 17344321
	------------------2006------------------
20.	Maniura-Weber, K., Helm, M., Engemann, K.. Eckertz, S., Möllers, M., Schauen, M., Hayrapetyan, A., von Kleist-Retzow, J.-C. Lightowlers, R.N., Bindoff, L., & Wiesner, R.J., & (2006) Molecular dysfunction associated with the human mitochondrial 3302A>G mutation in the MTTL1 (mt-tRNALeu(UUR)) gene Nucleic Acids Research, 34: 6404-6415;	PMID: 17130166
	--------------2005------------------
19.	Möllers, M., Maniura-Weber, K., Kiseljakovic, E., Bust, M., Hayrapetyan, A., Jaksch, M., Helm, M., Wiesner, R.J., & von Kleist-Retzow, J.-C. (2005) A new mechanism for mtDNA pathogenesis: Impairment of post-transcriptional maturation leads to severe depletion of mitochondrial tRNASer(UCN) caused by T7512C and G7497A point mutations Nucleic Acids Research, 33(17) 5647-58.	PMID: 16199753
18.	Kurschat, W., Müller, J., Wombacher, R. & Helm, M.* (2005) Optimized splint ligation of highly structured small RNAs RNA,11(12):1909-1914.	PMID: 16251384
17.	Helm, M.., Petermeier, M., Ge, B., Fiammengo, R. & Jäschke, A. (2005) Allosterically Activated Diels-Alder Catalysis by a Ribozyme J. Am. Chem. Soc. (127) 10492-10493.	PMID: 16045328
16.	Helm, M., Servant, J., Saurenbach, F., & Berger, R. (2005) Read-Out of Micromechanical Cantilever Sensors by Phase Shifting Interferometry Applied Physics Letters 87, 064101.	doi:10.1063/ 1.2008358
	--------------2004------------------
15.	Sissler, M., Helm, M., Frugier, M., Giegé, R., & Florentz, C. (2004) Aminoacylation properties of pathology-related variants of human mitochondrial tRNALys RNA 10(5):841-53.	PMID: 15100439
14.	Helm, M., & Attardi, G. (2004) Nuclear Control of Cloverleaf Structure of Human Mitochondrial tRNALys Journal of Molecular Biology 26;337(3):545-60.	PMID: 15019776
13.	Asin-Cayuela, J., Helm, M., & Attardi, G. (2004) A monomer-to-trimer transition of the human mitochondrial transcription termination factor (mTERF) is associated with a loss of in vitro activity Journal of Biological Chemistry 279(15):15670-77.	PMID: 14744862
	--------------1998-2003------------------
12.	Schiffer, S., Helm, M., Théobald-Dietrich, A., Giegé, R. & Marchfelder, A. (2001) The plant tRNA 3' processing enzyme has a broad substrate spectrum Biochemistry. 38(40), 8264-8272.	PMID: 11444972
11.	Helm, M., Kopka, M.L., Sharma, K.S., Lown, J.W., & Giegé, R. (2001) RNase activity of a DNA minor groove binder with a minimalist catalytic motif from RNase A. Biochem Biophys Res Commun.* 281(5):1283-90.	PMID: 11243875
10.	Helm, M., Brulé, H., Friede, D., Giegé, R., Pütz, J. & Florentz, C. (2000) Search for characteristic structural features of mammalian mitochondrial tRNAs. RNA. 6(10):1356-1379.	PMID: 11073213
9.	Helm, M., Giegé, R. & Florentz, C. (1999) A Watson-Crick base-pair disrupting methyl group (m1A9) is sufficient for cloverleaf folding of human mitochondrial tRNALys. Biochemistry. 38(40), 13338-13346.	PMID: 10529209
8.	Helm, M., Brulé, H., Giegé, R. & Florentz, C. (1999). More mistakes by T7 RNA polymerase at the 5' ends of in vitro transcribed RNAs. RNA. 5, 618-621.	PMID: 10334331
7.	Helm, M., Florentz, C., Chomyn, A. & Attardi, G. (1999). Search for differences in post-transcriptional modification patterns of mitochondrial DNA-encoded wild-type and mutant tRNALys and tRNALeu(UUR). Nucleic Acids Res. 27(3), 756-763.	PMID: 9889270
6.	Vlasov, A., Helm, M., Naumov, V., Breusov, A., Buneva, V., Florentz., C, Giegé., R. & Nevinskii, G. (1999) [Features of tRNA hydrolysis by autoantibodies from blood serum of patients with certain autoimmune and virus diseases]. Mol. Biol. (Mosk). 33(5):866-872 [Article in Russian].	PMID: 10579192
5.	Vlassov, A., Helm, M., Florentz, C., Naumov V., Breusov, A., Buneva V., Giege, R. & Nevinsky G. (1999). Variability of Substrate Specificity of Serum Antibodies Obtained from Patients with Different Autoimmune and Viral Diseases in Reaction of tRNA Hydrolysis. Russ. J. Immunol. 4(1):25-32.	PMID: 12687113
4.	Degoul, F., Brulé, H., Cepanec, C., Helm, M., Marsac, C., Leroux, J.-P., Giegé, R. & Florentz, C. (1998). Isoleucylation properties of native human mitochondrial tRNAIle and tRNAIle transcripts. Implications for cardiomyopathy-related point mutations (4269, 4317) in the tRNAIle gene. Hum. Mol. Gen. 7(3), 347-354.	PMID: 9466989
3.	Vlassov, A., Florentz, C., Helm, M., Naumov, V., Buneva, V., Nevinsky, G. & Giegé, R. (1998). Characterization and selectivity of catalytic antibodies from human serum with RNase activity. Nucleic Acids Res. 26(23), 5243-5250	PMID: 9826744
2.	Frugier, M., Helm, M., Felden, B., Giegé, R. & Florentz, C. (1998) Sequences outside recognition sets are not neutral for tRNA aminoacylation: evidence for non-permissive combinations of nucleotides in the acceptor stem of yeast tRNAPhe. Journal of Biological Chemistry. 273, 11605-11610.	PMID: 9565578
1.	Helm, M., Brulé, H., Degoul, F., Cepanec, C., Leroux, J.-P., Giegé, R. & Florentz, C. (1998). The presence of modified nucleotides is required for cloverleaf folding of a human mitochondrial tRNA. Nucleic Acids Res. 26(7), 1636-1643.	PMID: 9512533
	** joint first authorship / * corresponding author
	Patent Applications
2.	Seidu-Larry, S.,& Helm, M., (2008) "Reaktive Fluoreszenzfarbstoffe und Leuko-Fluoreszenzfarbstoffe auf Xanthenbasis und Verfahren zur Herstellung derselben"
1.	Berger, R., Helm, M., Saurenbach, F.(2006) "Micro-electromechanical sensor device" European Patent Application 06007850.8; U.S. Ser. No. 11/786,911
	Reviews, Book Chapters etc..
	------------------2009------------------
16.	Kobitski, A.Y., Hengesbach, M., Jäschke, A., Helm, M. & Nienhaus, G.U. (2009) Exploring the folding free energy landscape of small RNA molecules by single-pair Förster resonance energy transfer, Biophysical Reviews and Letters 3, 439-457.	DOI: 10.1142/ S179304800 8000873
15.	Hirsch, M., Kim, I.-H., Järve, A., Fischer, R., Trendelenburg, M., Rohr, K., Massing, U., & Helm, M.* (2009) Tracing of siRNA inside cells by FRET imaging in Methods in Molecular Biology: RNA Interference Methods, Scott Harper (Ed.), Humana Press, Totowa, NJ.in press .
14.	Helm , M. * (2009). RNA Einzelmolekül-Biochemie. Nachrichten aus der Chemie. 57,282-286.	pdf-link
13.	Seidu-Larry, S., Porcher, S., Micura, R., & Helm, M.* (2009) List of available phosphoramidites of modified nucleotides for chemical DNA/RNA synthesis. In Grosjean, H. (Ed.), DNA and RNA Modification Enzymes: Comparative Structure, Mechanism, Functions, Cellular Interactions and Evolution. Landes Bioscience, Austin. A4, 629-635.	link
12.	Porcher, S., & Helm, M. (2009) Chemical Synthesis of DNA and RNA Containing Modified Nucleotide. In Grosjean, H. (Ed.), DNA and RNA Modification Enzymes: Comparative Structure, Mechanism, Functions, Cellular Interactions and Evolution. Landes Bioscience, Austin. 41, 586-598.*	link
11.	Hayrapetyan, A., Seidu-Larry, S., & Helm, M.* (2009): Function of modified nucleosides in RNA stabilization. In Grosjean, H. (Ed.), DNA and RNA Modification Enzymes: Comparative Structure, Mechanism, Functions, Cellular Interactions and Evolution. Landes Bioscience, Austin. 38, 550-563.	link
10.	Kim, I.-H., Järve, A., Hirsch, M., Fischer, R., Trendelenburg, M., Rohr, K., Massing, U., & Helm, M.* (2009) FRET imaging of cells transfected with siRNA/liposome complexes, in Methods in Molecular Biology : ’Liposomes’, Volkmar Weissig (Ed.), Humana Press, Totowa, NJ. in press.
	------------------2008------------------
9.	Kobitski, A.Y., Hengesbach, M.,.Helm, M. & Nienhaus, G.U. (2008) RNA Intramolecular Dynamics by Single-molecule FRET From Computational Biophysics to Systems Biology (CNSB08), NIC Series, 40, 253-256.	pdf-link
8.	Hengesbach, M., Kobitski, A.Y., Voigts-Hoffmann, F., Frauer, C., Nienhaus, G.U., & Helm, M.* (2008): RNA Intramolecular Dynamics by Single-molecule FRET, Current Protocols in Nucleic Acid Chemistry, Chapter 11:Unit 11.12.	PMID: 18819081
	------------------2006------------------
7.	Helm, M.. (2006). Post-transcriptional nucleotide modification and alternative folding of RNA. Nucleic Acids Research 34(2):721-33.	PMID: 16452298
6.	Weigand, B. S., Zerressen, A., Schlatterer, J.C., Helm, M. & Jäschke, A.(2006) Catalytically active RNA molecules: tools in organic chemistry. In: Klussmann, S. (Ed.) The Aptamer Handbook. Wiley VCH, 211-227.
	------------------2005------------------
5.	Jäschke, A., Helm, M., Marx, A. & Strerath, M. (2005) Protein-nucleic acid interactions. Nachrichten aus der Chemie. 53(3): 277-280.	pdf-link
	------------------2003------------------	pdf-link
4.	Jäschke, A. & Helm, M. (2003). RNA Sex. Chemistry and Biology. 10(12):1148-50.	PMID: 14700622
	------------------before 2002------------------	PMID: 14700622
3.	Giegé, R., Helm, M., & Florentz, C. (2001). Classical and Novel Chemical Tools for RNA Structure Probing. In ‘RNA’ D. Söll,S. Nishimura & P. Moore (eds.), Pergamon Press, Oxford. Chapter 5, 71-89.
2.	Florentz, C., Brulé, H., Helm, M., & Giegé, R. (1999). Structural studies of human mitochondrial tRNAs. In ‘Mitochondrial Diseases’ P. Lestienne (ed.). Springer Verlag, Heidelberg. 59-72.
1.	Giegé, R., Helm, M., & Florentz, C. (1999). Chemical and Enzymatic Probing of RNA Structure. In ‘Comprehensive Natural Product Chemistry’ D. Söll & S. Nishimura (eds.), Pergamon Press, Oxford. Chapter 6 in Vol. 6. 63-80.
Textbook 1. Helm, M. & Wölfl, S. (2006). Instrumentelle Bioanalytik (German) Wiley-VCH, Weinheim.230 pages
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