Ochel, Antonia

Antonia Ochel
Illustration
Pharmazeutin im praktischen Jahr

bis Semptember 2013

E-Mail: aochel@students.uni-mainz.de

-2015-

IF

66.

Shanmugam, R., Fierer, J., Kaiser, S., Helm, M., Jurkowski, T. P., Jeltsch, A. (2015) Cytosine methylation of tRNA-Asp by DNMT2 has a role in translation of proteins containing poly-Asp sequences. Cell Discovery, Jun. 9, 1, 1501, epub ahead of print, Full text

PMID: pending

N/A

65.

Intermolecular 'cross-torque': the N4-cytosine propargyl residue is rotated to the 'CH'-edge as a result of Watson-Crick interaction. Domingo,O., Hellmuth, I., Jaeschke, A., Kreutz, C., Helm, M. (2015) Nuc Acids Res., Apr. 30, epub ahead of print, Full text

PMID: 25934805

8,4

64.

Hirsch, M. & Helm, M. (2015) Live cell imaging of duplex siRNA intracellular trafficking. Nuc Acids Res., Apr. 13, epub ahead of print, Full text

PMID: 25870407

8,4

63.

Rimbach, K., Kaiser, S., Helm, M., Dalpke, A.H., Eigenbrod, T. (2015). 2'-O-Methylation within Bacterial RNA Acts as Suppressor of TLR7/TLR8 Activation in Human Innate Immune Cells. J Innate Immun. Mar 20. Full text.

PMID: 25823462

4,6

62.

Juedes, A., Ebert, F., Baer, C., Thuering, K. L., Harrer, A., Klassen, R., Helm, M. & Schaffrath, R. (2015). Urmylation and tRNA thiolation functions of ubiquitin-like Uba4• Urm1 systems are conserved from yeast to man. FEBS letters. Mar 03. Full text.

PMID: 25747390

3,3

61.

Klassen, R., Grunewald, P., Thuering, K. L., Eichler, C., Helm, M., & Schaffrath, R. (2015). Loss of Anticodon Wobble Uridine Modifications Affects tRNALys Function and Protein Levels in Saccharomyces cerevisiae. PLoS ONE, Mar 6;10(3)., Full text.

PMID: 25747122

3,5

60.

Abdel-Fattah, W., Jablownski, D., Di Santo, R., Thuering, K.L., Scheidt, V., Hammermeister, A., Have, S. t., Helm, M., Schaffrath, R., Stark, M.J.R. (2015). ”Phosphorylation of Elp1 by Hrr25 Is Required for Elongator-Dependent tRNA Modification in Yeast.” Plos Gen. Jan 8. 11(1). Full text.

PMID: 25569479

8,2

-2014-

IF

59.

Krieg, B., Hirsch, M., Scholz, E., Nuhn, L., Tabujew, I., Bauer, H….,& Helm, M. (2014). New Techniques to Assess In Vitro Release of siRNA from Nanoscale Polyplexes.” Pharm. Res. Oct 09. Full text.

PMID: 25488263

4,0

58.

Spenkuch, F., Hinze, G., Kellner, S., Kreutz, C., Micura, R., Basché, T. & Helm, M. (2014). ”Dye label interference with RNA modification reveals 5-fluorouridine as non-covalent inhibitor.” Nuc Acids Res.. Oct 09. Full text.

PMID: 25300485

8,3

57.

Kellner, S., Ochel, A., Thüring, K., Spenkuch, F., Neumann, J., Sharma, S., Entian, K.D., Schneider, D. & Helm, M. (2014). ”Absolute and relative quantification of RNA modifications via biosynthetic isotopomers.” Nuc Acids Res.. Aug 16. Epub ahead of print.

PMID: 25129236

8,3

56.

Blanco, S., Dietmann, S., Flores, J.V., Hussain, S., Kutter, C., Humphreys, P., Lukk, M., Lombard, P., Treps, L. Popis, M., Kellner, S., Hölter, S.M., Garret, L., Wurst, W., Becker, L., Klopstock, T., Fuchs, H., Gailus-Durner, V., Hrabe de Angelis, M., Karadottir, R.T., Helm, M., Ule, J., Gleeson, J.G., Odom, D.T., Frye, M. (2014). Aberrant methylation of tRNAs links cellular stress to neuro-developmental disorders.” EMBO J., Jul 25. Epub ahead of print

PMID: 25063673

10,7

55.

Kaiser, S., Rimbach, K., Eigenbrod, T., Dalpke, A.H. & Helm, M. (2014). "A modified dinucleotide motif specifies tRNA recognition by TLR7." RNA Sep. 20(9):1351-5.

PMID: 25051971

5,9

54.

Fritz, T. Hirsch, M. Richter, F.C., Müller, S.S., Hofmann, A.M., Rusitzka, K.A., Markl, J., Massing, U., Frey, H. Helm, M. (2014). "Click modification of multifunctional liposomes bearing hyperbranched polyether chains." Biomacromolecules. (ACS Publications) Jul 14. 15(7):2440-8

PMID: 24805163

5,4

53.

Kotaskova M., Osman Oglou O., Helm, M. (2014) "Synthesis of new asymmetric xanthene dyes via catalyst-free SNAr with sulfur nucleophiles" Org. Biomol Chem. Jun 21. 12(23):3816-20

PMID: 24802552

3,6

52.

Shanmugam, R., Aklujkar, M., Schäfer, M., Reinhardt, R., Nickel, O., Reuter, G., Lovley, D.R., Ehrenhofer-Murray, A., Nellen, W., Ankri, S., Helm, M. et al. (2014). "The Dnmt2 RNA methyltransferase homolog of Geobacter sulfurreducens specifically methylates tRNA-Glu." Nuc. Acids Res. (Oxford Univ Press) Apr 7. 42(10):6487-96.

PMID: 24711368

8,3

51.

Tabujew, I., Freidel, C., Krieg, B., Helm, M., Koynov, K., Müllen, K., Peneva, K. (2014). "The Guanidinium Group as a Key Part of Water-Soluble Polymer Carriers for siRNA Complexation and Protection against Degradation." Macromol. rapid comm. (Wiley Online Library) Apr 4. 35(13):1191-7.

PMID: 24700561

4,9

50.

Buchhaupt, M., Sharma,S., Kellner, S., Oswald, S.,Paetzold, M., Pfeifer, C., Watzinger, P., Schraeder, J., Helm, M., Entian, K.D.(2014). "Partial Methylation at Am100 in 18S rRNA of Baker's Yeast Reveals Ribosome Heterogeneity on the Level of Eukaryotic rRNA Modification." Plos One. (Public Library of Science), Feb 28 9(2):e89640.

PMID: 24586927

3,7

49.

Kellner, S., Neumann, J., Rosenkranz, D., Lebedeva, S., Ketting, R.F., Zischler, H., Schneider, D., & Helm, M.*(2014). "Profiling of RNA modifications by multiplexed stable isotope labelling." Chem. Commun. (Camb) 50(26), 3516-3518.

PMID: 24567952

6,4

-2013-

IF

48.

Kellner, S., Kollar, L. B., Ochel, A., Ghate, M. & Helm, M. (2013). "Structure-Function Relationship of Substituted Bromomethylcoumarins in Nucleoside Specificity of RNA Alkylation." Plos One. (Public Library of science) 8(7): e67945 doi:10.1371/journal.pone.0067945.

PMID: 23844135

3,7

47.

Machnicka, M. A., Milanowska, K., Osman Oglou, O., Purta, E., Kurkowska, M., Olchowik, A., Januszewski, W., Kalinowski, S., Dunin-Horkawicz, S., Rother, K. M., Helm, M., Bujnicki, J. M. & Grosjean, H. (2012). "MODOMICS: a database of RNA modification pathways--2012 update." Nucleic Acids Res. Oct 30.

PMID: 23118484

8,0

-2012-

IF

46.

Seidu-Larry, S., Krieg, B., Hirsch, M., Helm, M. & Domingo, O. (2012). "A modified guanosine phosphoramidite for click functionalization of RNA on the sugar edge." Chem Commun. (Camb) 48(89): 11014-11016.

PMID: 23037931

6,2

45.

Tuorto, F., Liebers, R., Musch, T., Schaefer, M., Hofmann, S., Kellner, S., Frye, M., Helm, M., Stoecklin, G. & Lyko, F. (2012). "RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis." Nat Struct Mol Biol. 19(9): 900-905.

PMID: 22885326

12,7

44.

Jurkowski, T. P., Shanmugam, R., Helm, M. & Jeltsch, A. (2012). "Mapping the tRNA Binding Site on the Surface of Human DNMT2 Methyltransferase." Biochemistry. 51(22): 4438-4444.

PMID: 22591353

Full text

3,4

43.

Sencilo, A., Paulin, L., Kellner, S., Helm, M. & Roine, E. (2012). "Related haloarchaeal pleomorphic viruses contain different genome types." Nucleic Acids Res. 40(12): 5523-5534.

PMID: 22396526

Full text

8,0

42.

Nuhn, L., Hirsch, M., Krieg, B., Koynov, K., Fischer, K., Schmidt, M., Helm, M. & Zentel, R. (2012). "Cationic Nanohydrogel Particles as Potential siRNA Carriers for Cellular Delivery." ACS Nano. 6(3): 2198-2214.

PMID: 22381078

Full text

9,9

41.

Gehrig, S., Eberle, M. E., Botschen, F., Rimbach, K., Eberle, F., Eigenbrod, T., Kaiser, S., Holmes, W. M., Erdmann, V. A., Sprinzl, M., Bec, G., Keith, G., Dalpke, A. H. & Helm, M. * (2012). "Identification of modifications in microbial, native tRNA that suppress immunostimulatory activity." J Exp Med. 209(2): 225-233.

PMID: 22312113

14,8

40.

Hirsch, M., Strand, D. & Helm, M. * (2012). "Dye selection for live cell imaging of intact siRNA." Biol Chem. 393(1-2): 23-35.

PMID: 22628296

3,6

-2011-

39.

Kobitski, A. Y., Hengesbach, M., Seidu-Larry, S., Dammertz, K., Chow, C. S., van Aerschot, A., Nienhaus, G. U.* & Helm, M.* (2011). "Single-Molecule FRET Reveals a Cooperative Effect of Two Methyl Group Modifications in the Folding of Human Mitochondrial tRNA(Lys)." Chem Biol 18(7): 928-936.

PMID: 21802013

5,8

38.

Kellner, S., Seidu-Larry, S., Burhenne, J., Motorin, Y. & Helm, M.* (2011). "A multifunctional bioconjugate module for versatile photoaffinity labeling and click chemistry of RNA." Nucleic Acids Res. 39(16): 7348-7360.

PMID: 21646334

Full text

8,0

37.

Nguyen, T. H., Steinbock, L. J., Butt, H. J., Helm, M.* & Berger, R.* (2011). "Measuring single small molecule binding via rupture forces of a split aptamer." J Am Chem Soc 133(7): 2025-2027.

PMID: 21287983

9,0

36.

Dammertz, K., Hengesbach, M., Helm, M., Nienhaus, G. U. & Kobitski, A. Y. (2011). "Single-molecule FRET studies of counterion effects on the free energy landscape of human mitochondrial lysine tRNA." Biochemistry 50(15): 3107-3115.

PMID: 21375355

3,4

35.

Motorin, Y., Burhenne, J., Teimer, R., Koynov, K., Willnow, S., Weinhold, E. & Helm, M.* (2011). "Expanding the chemical scope of RNA:methyltransferases to site-specific alkynylation of RNA for click labeling." Nucleic Acids Res 39(5): 1943-1952.

PMID: 21037259


Full text

8,0

-2010-

34.

Schaefer, M., Pollex, T., Hanna, K., Tuorto, F., Meusburger, M., Helm, M. & Lyko, F. (2010). "RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage." Genes Dev 24(15): 1590-1595.

PMID: 20679393

Full text

12,8

33.

Hengesbach, M., Voigts-Hoffmann, F., Hofmann, B. & Helm, M.* (2010). "Formation of a stalled early intermediate of pseudouridine synthesis monitored by real-time FRET." RNA 16(3): 610-620.

PMID: 20106954

Full text

5,9

32.

Tovy, A., Siman Tov, R., Gaentzsch, R., Helm, M. & Ankri, S.* (2010). "A new nuclear function of the Entamoeba histolytica glycolytic enzyme enolase: the metabolic regulation of cytosine-5 methyltransferase 2 (Dnmt2) activity." PLoS Pathog 6(2): e1000775.

PMID: 20174608

Full text

9,0

-2009-

31.

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(1): 47-51.

PMID: 19679165

2,1

30.

Hayrapetyan, A., Grosjean, H. & Helm, M.* (2009). "Effect of a quaternary pentamine on RNA stabilization and enzymatic methylation." Biol Chem 390(9): 851-861.

PMID: 19558320

3,6

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)." J Control Release 135(1): 80-88.

PMID: 19124051

7,2

-2008-

28.

Jurkowski, T. P., Meusburger, M., Phalke, S., Helm, M., Nellen, W., Reuter, G. & Jeltsch, A.* (2008). "Human DNMT2 methylates tRNA(Asp) molecules using a DNA methyltransferase-like catalytic mechanism." RNA 14(8): 1663-1670.

PMID: 18567810

Full text

5,9

27.

Kobitski, A. Y., Hengesbach, M., Helm, M. & Nienhaus, G. U.* (2008). "Sculpting an RNA conformational energy landscape by a methyl group modification--a single-molecule FRET study." Angew Chem Int Ed Engl 47(23): 4326-4330.

PMID: 18449867

12,7

26.

Steinbock, L. J. & Helm, M.* (2008). "Wavelength dependence of photoinduced microcantilever bending in the UV-VIS range." Sensors 8(1): 23-34.

pdf-link

1,8

25.

Hengesbach, M.**, Meusburger, M.**, Lyko, F. & Helm, M.* (2008). "Use of DNAzymes for site-specific analysis of ribonucleotide modifications." RNA 14(1): 180-187.

PMID: 17998290

Full text

5,9

-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(44): 13382-13383.

PMID: 17941640

9,0

23.

Järve, A., Müller, J., Kim, I. H., Rohr, K., MacLean, C., Fricker, G., Massing, U., Eberle, F., Dalpke, A., Fischer, R., Trendelenburg, M. F. & Helm, M.* (2007). "Surveillance of siRNA integrity by FRET imaging." Nucleic Acids Res 35(18): e124.

PMID: 17890733

Full text

8,0

22.

Wehrmeister, J., Fuss, A., Saurenbach, F., Berger, R. & Helm, M.* (2007). "Readout of micromechanical cantilever sensor arrays by Fabry-Perot interferometry." Rev Sci Instrum 78(10): 104105.

PMID: 17979440

1,6

21.

Kobitski, A. Y., Nierth, A., Helm, M., Jaschke, A. & Nienhaus, G. U.* (2007). "Mg2+-dependent folding of a Diels-Alderase ribozyme probed by single-molecule FRET analysis." Nucleic Acids Res 35(6): 2047-2059.

PMID: 17344321

Full text

8,0

-2006-

20.

Maniura-Weber, K**., Helm, M.**, Engemann, K., Eckertz, S., Mollers, M., Schauen, M., Hayrapetyan, A., von Kleist-Retzow, J. C., Lightowlers, R. N., Bindoff, L. A. & Wiesner, R. J.* (2006). "Molecular dysfunction associated with the human mitochondrial 3302A>G mutation in the MTTL1 (mt-tRNALeu(UUR)) gene." Nucleic Acids Res 34(22): 6404-6415.

PMID: 17130166

Full text

8,0

-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 Res 33(17): 5647-5658.

PMID: 16199753

8,0

18.

Kurschat, W. C., Müller, J., Wombacher, R. & Helm, M.* (2005). "Optimizing splinted ligation of highly structured small RNAs." RNA 11(12): 1909-1914.

PMID: 16251384

Full text

5,9

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(30): 10492-10493.

PMID: 16045328

9,0

16.

Helm, M., Servant, J. J., Saurenbach, F. & Berger, R.* (2005). "Read-out of micromechanical cantilever sensors by phase shifting interferometry." Applied Physics Letters 87(6).

doi:10.1063/ 1.2008358

3,8

-2004-

15.

Sissler, M., Helm, M., Frugier, M., Giege, R. & Florentz, C.* (2004). "Aminoacylation properties of pathology-related human mitochondrial tRNA(Lys) variants." RNA 10(5): 841-853.

PMID: 15100439

Full text

5,9

14.

Helm, M. & Attardi, G.* (2004). "Nuclear control of cloverleaf structure of human mitochondrial tRNA(Lys)." J Mol Biol 337(3): 545-560.

PMID: 15019776

4,0

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." J Biol Chem 279(15): 15670-15677.

PMID: 14744862

Full text

5,3

-2001-

12.

Schiffer, S., Helm, M., Theobald-Dietrich, A., Giege, R. & Marchfelder, A.* (2001). "The plant tRNA 3' processing enzyme has a broad substrate spectrum." Biochemistry 40(28): 8264-8272.

PMID: 11444972

3,4

11.

Helm, M.*, Kopka, M. L., Sharma, S. K., Lown, J. W. & Giege, R. (2001). "RNase activity of a DNA minor groove binder with a minimalist catalytic motif from RNase A." Biochem Biophys Res Commun 281(5): 1283-1290.

PMID: 11243875

2,6

-2000-

10.

Helm, M., Brule, H., Friede, D., Giege, R., Putz, D. & Florentz, C.* (2000). "Search for characteristic structural features of mammalian mitochondrial tRNAs." RNA 6(10): 1356-1379.

PMID: 11073213

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5,9

-1999-

9.

Helm, M., Giege, 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

3,4

8.

Vlasov, A. V., Helm, M., Naumov, V. A., Breusov, A. A., Buneva, V. N., Florentz, C., Giege, R. & Nevinskii, G. A.* (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.

PMID: 10579192

7.

Vlassov, A. V., Helm, M., Florentz, C., Naumov, V. A., Breusov, A. A., Buneva, V. N., Giege, R. & Nevinsky, G. A.* (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

6.

Helm, M., Brule, H., Giege, R. & Florentz, C.* (1999). "More mistakes by T7 RNA polymerase at the 5' ends of in vitro-transcribed RNAs." RNA 5(5): 618-621.

PMID: 10334331

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5,9

5.

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 human tRNALys and tRNALeu(UUR)." Nucleic Acids Res 27(3): 756-763.

PMID: 9889270

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8,0

-1998-

4.

Degoul, F., Brule, H., Cepanec, C., Helm, M., Marsac, C., Leroux, J., Giege, 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 Genet 7(3): 347-354.

PMID: 9466989

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8,1

3.

Vlassov, A., Florentz, C., Helm, M., Naumov, V., Buneva, V., Nevinsky, G. & Giege, R.* (1998). "Characterization and selectivity of catalytic antibodies from human serum with RNase activity." Nucleic Acids Res 26(23): 5243-5250.

PMID: 9826744

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8,0

2.

Frugier, M., Helm, M., Felden, B., Giege, R. & Florentz, C. (1998). "Sequences outside recognition sets are not neutral for tRNA aminoacylation. Evidence for nonpermissive combinations of nucleotides in the acceptor stem of yeast tRNAPhe." J Biol Chem 273(19): 11605-11610.

PMID: 9565578

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5,3

1.

Helm, M., Brule, H., Degoul, F., Cepanec, C., Leroux, J. P., Giege, 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

Full text

8,0