Finn Kirpekar

2021

Intrinsic Strand-Incision Activity of Human UNG: Implications for Nick Generation in Immunoglobulin Gene Diversification

Alexeeva, M., Moen, M. N., Xu, X. M., Rasmussen, A., Leiros, I., Kirpekar, F., Klungland, A., Alsøe, L., Nilsen, H. & Bjelland, S., Dec 2021, In: Frontiers in Immunology. 12, 13 p., 762032.

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Spatial variability of prokaryotic and viral abundances in the Kermadec and Atacama Trench regions

Schauberger, C., Middelboe, M., Larsen, M., Peoples, L. M., Bartlett, D. H., Kirpekar, F., Rowden, A. A., Wenzhöfer, F., Thamdrup, B. & Glud, R. N., Jun 2021, In: Limnology and Oceanography. 66, 6, p. 2095-2109

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2020

Proteomic Changes of Klebsiella pneumoniae in Response to Colistin Treatment and crrB Mutation-Mediated Colistin Resistance

Sun, L., Rasmussen, P. K., Bai, Y., Chen, X., Cai, T., Wang, J., Guo, X., Xie, Z., Ding, X., Niu, L., Zhu, N., You, X., Kirpekar, F. & Yang, F., Jun 2020, In: Antimicrobial Agents and Chemotherapy. 64, 6, e02200-19.

Research output: Contribution to journal › Journal article › Research › peer-review

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The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA

Pinto, R., Vågbø, C. B., Jakobsson, M. E., Kim, Y., Baltissen, M. P., O'Donohue, M-F., Guzmán, U. H., Małecki, J. M., Wu, J., Kirpekar, F., Olsen, J. V., Gleizes, P-E., Vermeulen, M., Leidel, S. A., Slupphaug, G. & Falnes, P. Ø., 24. Jan 2020, In: Nucleic acids research. 48, 2, p. 830-846

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The hyperthermophilic partners Nanoarchaeum and Ignicoccus stabilize their tRNA T-loops via different but structurally equivalent modifications

Rose, S., Auxilien, S., Havelund, J. F., Kirpekar, F., Huber, H., Grosjean, H. & Douthwaite, S., 9. Jul 2020, In: Nucleic acids research. 48, 12, p. 6906-6918

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2019

Detection of internal N7-methylguanosine (m7G) RNA modifications by mutational profiling sequencing

Enroth, C., Poulsen, L. D., Iversen, S., Kirpekar, F., Albrechtsen, A. & Vinther, J., 18. Nov 2019, In: Nucleic acids research. 47, 20, 13 p., e126.

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Excision of uracil from DNA by hSMUG1 includes strand incision and processing

Alexeeva, M., Moen, M. N., Grøsvik, K., Tesfahun, A. N., Xu, X. M., Muruzábal-Lecumberri, I., Olsen, K. M., Rasmussen, A., Ruoff, P., Kirpekar, F., Klungland, A. & Bjelland, S., 2019, In: Nucleic Acids Research. 47, 2, p. 779-793

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2018

Mapping of ribosomal 23S ribosomal RNA modifications in Clostridium sporogenes

Kirpekar, F., Hansen, L. H., Mundus, J., Tryggedsson, S., Teixeira Dos Santos, P., Ntokou, E. & Vester, B., Aug 2018, In: RNA Biology. 15, 8, p. 1060–1070

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2016

Identification of the methyltransferase targeting C2499 in Deinococcus radiodurans 23S ribosomal RNA

Nielsen, J. M., Flyvbjerg, K. F. & Kirpekar, F., Jan 2016, In: Extremophiles. 20, 1, p. 91-99

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2015

Automated N-glycan profiling of a mutant Trypanosoma rangeli sialidase expressed in Pichia pastoris, using tandem mass spectrometry and bioinformatics

Li, H., Rasmussen, M. I., Larsen, M. R., Guo, Y., Jers, C., Palmisano, G., Mikkelsen, J. D. & Kirpekar, F., Dec 2015, In: Glycobiology. 25, 12, p. 1350-1361

Research output: Contribution to journal › Journal article › Research › peer-review

Modulating the regioselectivity of a Pasteurella multocida sialyltransferase for biocatalytic production of 3'- and 6'-sialyllactose

Guo, Y., Jers, C., Meyer, A. S., Li, H., Kirpekar, F. & Mikkelsen, J. D., Oct 2015, In: Enzyme and Microbial Technology. 78, p. 54-62

Research output: Contribution to journal › Journal article › Research › peer-review

2014

A Pasteurella multocida sialyltransferase displaying dual trans-sialidase activities for production of 3'-sialyl and 6'-sialyl glycans

Guo, Y., Jers, C., Meyer, A. S., Arnous, A., Li, H., Kirpekar, F. & Mikkelsen, J. D., 20. Jan 2014, In: Journal of Biotechnology. 170, p. 60-67 8 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Biocatalytic production of 3′-sialyllactose by use of a modified sialidase with superior trans-sialidase activity

Michalak, M., Larsen, D. M., Jers, C., Almeida, J. R. M., Willer, M., Li, H., Kirpekar, F., Kjærulff, L., Gotfredsen, C. H., Nordvang, R. T., Meyer, A. S. & Mikkelsen, J. D., 1. Feb 2014, In: Process Biochemistry. 49, 2, p. 265-270 6 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Characterization of an extensin-modifying metalloprotease: N-terminal processing and substrate cleavage pattern of Pectobacterium carotovorum Prt1

Feng, T., Nyffenegger, C., Højrup, P., Vidal-Melgosa, S., Yan, K-P., Fangel, J. U., Meyer, A. S., Kirpekar, F., Willats, W. G. & Mikkelsen, J. D., 20. Nov 2014, In: Applied Microbiology and Biotechnology. 98, 24, p. 10077-10089

Research output: Contribution to journal › Journal article › Research › peer-review

Enzyme catalysed production of sialylated human milk oligosaccharides and galactooligosaccharides by Trypanosoma cruzi trans-sialidase

Holck, J., Larsen, D. M., Michalak, M., Li, H., Kjærulff, L., Kirpekar, F., Gotfredsen, C. H., Forssten, S., Ouwehand, A. C., Mikkelsen, J. D. & Meyer, A. S., Mar 2014, In: New Biotechnology. 31, 2, p. 156-165 10 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Protozoan ALKBH8 Oxygenases Display both DNA Repair and tRNA Modification Activities

Zdżalik, D., Vågbø, C. B., Kirpekar, F., Davydova, E., Puścian, A., Maciejewska, A. M., Krokan, H. E., Klungland, A., Tudek, B., van den Born, E. & Falnes, P. Ø., 2014, In: PLOS ONE. 9, June, e98729.

Research output: Contribution to journal › Journal article › Research › peer-review

Rational design of a new Trypanosoma rangeli trans-sialidase for efficient sialylation of glycans

Jers, C., Michalak, M., Larsen, D. M., Kepp, K. P., Li, H., Guo, Y., Kirpekar, F., Meyer, A. S. & Mikkelsen, J. D., 3. Jan 2014, In: PLOS ONE. 9, 1, p. e83902

Research output: Contribution to journal › Journal article › Research › peer-review

2013

Distinction between the Cfr Methyltransferase Conferring Antibiotic Resistance and the Housekeeping RlmN Methyltransferase

Atkinson, G. C., Hansen, L. H., Tenson, T., Rasmussen, A., Kirpekar, F. & Vester, B., Aug 2013, In: Antimicrobial Agents and Chemotherapy. 57, 8, p. 4019-4026 8 p.

Research output: Contribution to journal › Journal article › Research › peer-review

2012

Identification and characterization of the Thermus thermophilus 5-methylcytidine (m⁵C) methyltransferase modifying 23 S ribosomal RNA (rRNA) base C1942

larsen, L. H. G., Rasmussen, A., Giessing, A., Jogl, G. & Kirpekar, F., 2012, In: Journal of Biological Chemistry. 287, p. 27593–27600

Research output: Contribution to journal › Journal article › Research › peer-review

Mass spectrometry in the biology of RNA and its modifications

Giessing, A. & Kirpekar, F., 2012, In: Journal of Proteomics. 75, p. 3434-3449

Research output: Contribution to journal › Journal article › Research › peer-review

Recognition of guanosine by unrelated tRNA methyltransferases

Sakagushi, R., Giessing, A., Dai, Q., Liukeviciute, Z., Klimasaukas, S., Piccirilli, J., Kirpekar, F. & Hou, Y-M., 2012, In: R N A. 18, p. 1687-1701

Research output: Contribution to journal › Journal article › Research › peer-review

2011

3-(3-amino-3-carboxypropyl)-5,6-Dihydrouridine is one of two novel post-transcriptional modifications in tRNA^Lys(UUU) from Trypanosoma brucei

Krog, J. S., Español, Y., Giessing, A. M. B., Dziergowska, A., Malkiewicz, A., Ribas de Pouplana, L. & Kirpekar, F., 2011, In: F E B S Journal. 278, 24, p. 4782-96

Research output: Contribution to journal › Journal article › Research › peer-review

ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA

van den Born, E., Vagbo, C. B., Songe-Moller, L., Leihne, V., Lien, G. F., Leszczynska, G., Malkiewicz, A., Krokan, H. E., Kirpekar, F., Klungland, A. & Falnes, P. O., 2011, In: Nature Communications. 2

Research output: Contribution to journal › Journal article › Research › peer-review

A Nano-Chip-LC/MS Based Strategy for Characterization of Modified Nucleosides Using Reduced Porous Graphitic Carbon as a Stationary Phase

Giessing, A., Scott, L. G. & Kirpekar, F., 2011, In: Journal of the American Society for Mass Spectrometry. 22, 7, p. 1242-1251

Research output: Contribution to journal › Journal article › Research › peer-review

A Nano-Chip-LC/MS Based Strategy for Characterization of Modified Nucleosides Using Reduced Porous Graphitic Carbon as a Stationary Phase

Giessing, A., Scott, L. G. & Kirpekar, F., 2011.

Research output: Contribution to conference without publisher/journal › Poster › Research

Biomolecular Chemistry - third edition

Kirpekar, F. (ed.) & Pedersen, E. B. (ed.), 2011, 3. ed. Harlow, England: Pearson Longman.

Research output: Book/report › Monograph › Education

Identification of 5-hydroxycytidine at position 2501 concludes characterization of modified nucleotides in E. coli 23S rRNA

Havelund, J. F., Giessing, A. M. B., Hansen, T. M., Rasmussen, A., Scott, L. G. & Kirpekar, F., 2011, In: Journal of Molecular Biology. 411, 3, p. 529-536 8 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Minimal Substrate Features for Erm Methyltransferases Defined by Using a Combinatorial Oligonucleotide Library

Hansen, L. H., Lobedanz, S., Douthwaite, S., Arar, K., Wengel, J., Kirpekar, F. & Vester, B., 24. Jan 2011, In: ChemBioChem. 12, 4, p. 610-614 5 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Platinum Interference with siRNA Non-seed Regions Fine-Tunes Silencing Capacity

Hedman, H. K., Kirpekar, F. & Elmroth, S. K. C., 10. Aug 2011, In: Journal of the American Chemical Society. 133, 31, p. 11977-84 8 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Roles of Trm9- and ALKBH8-like proteins in the formation of modified wobble uridines in Arabidopsis tRNA

Leihne, V., Kirpekar, F., Vågbø, C. B., van den Born, E., Krokan, H. E., Grini, P. E., Meza, T. J. & Falnes, P. Ø., 2011, In: Nucleic Acids Research. 39, 17, p. 7688-7701

Research output: Contribution to journal › Journal article › Research › peer-review

2010

Mammalian ALKBH8 possesses tRNA methyltransferase activity required for the biogenesis of multiple wobble uridine modifications implicated in translational decoding

Songe-Møller, L., van den Born, E., Leihne, V., Vågbø, C. B., Kristoffersen, T., Krokan, H. E., Kirpekar, F., Falnes, P. Ø. & Klungland, A., 1. Apr 2010, In: Molecular and Cellular Biology. 30, 7, p. 1814-27 13 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Multi-site-specific 16S rRNA methyltransferase RsmF from Thermus thermophilus

Demirci, H., Larsen, L. H. G., Hansen, T., Rasmussen, A., Cadambi, A., Gregory, S. T., Kirpekar, F. & Jogl, G., 1. Aug 2010, In: RNA: A publication of the RNA Society. 16, 8, p. 1584-96 12 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Novel complex modifications in tRNA^Lys(UUU) from Trypanosoma brucei revealed by mass spectrometry

Krog, J. S., Español, Y., de Pouplana, L. R. & Kirpekar, F., 2010.

Research output: Contribution to conference without publisher/journal › Poster › Research

2009

An amide-HILIC nano-LC/MS based platform for oligonucleotide profiling

Giessing, A. & Kirpekar, F., 2009.

Research output: Contribution to conference without publisher/journal › Poster › Research

Identification of 8-methyladenosine as the modification catalyzed by the radical SAM methyltransferase Cfr that confers antibiotic resistance in bacteria

Giessing, A., Jensen, S. S., Rasmussen, A., Hansen, L. H., Gondela, A., Long, K., Vester, B. & Kirpekar, F., 1. Feb 2009, In: RNA: A publication of the RNA Society. 15, 2, p. 327-336 9 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Identification of RNA molecules by specific enzyme digestion and mass spectrometry: software for and implementation of RNA mass mapping

Matthiesen, R. & Kirpekar, F., 1. Apr 2009, In: Nucleic Acids Research. 37, 6, p. e48

Research output: Contribution to journal › Journal article › Research › peer-review

PARTICLES AND THEIR USE IN A METHOD FOR ISOLATING NUCLEIC ACID OR A METHOD FOR ISOLATING PHOSPHOPROTEINS

Engholm-Keller, K., Kirpekar, F., Larsen, M. R., Jensen, O. N., Fonnum, G., Stene, T., Kjus, N. H., Pope, R. M. & Liang, X., 2009, Patent No. EP2066709, 9. Jun 2009

Research output: Patent

2008

Biomolecular Chemistry: Second Edition with Index

Kirpekar, F. (ed.) & Pedersen, E. B. (ed.), 2008, 2. ed. England: AAAI Press. 290 p.

Research output: Book/report › Monograph › Education

The activity of rRNA resistance methyltransferases assessed by MALDI mass spectrometry

Douthwaite, S., Jensen, R. L. & Kirpekar, F., 2008, Methods in Molecular Medicine: New Antibiotic Targets. Champney, W. S. (ed.). Totowa, New Jersey, USA: Humana Press, Vol. 142. p. 223-237

Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Communication

2007

Collision-induced dissociation of cytidine and its derivatives

Jensen, S. S., Ariza, X., Nielsen, P., Vilarrasa, J. & Kirpekar, F., 1. Jan 2007, In: Journal of Mass Spectrometry. 42, 1, p. 49-57 8 p.

Research output: Contribution to journal › Journal article › Research › peer-review

Identifying modifications in RNA by MALDI mass spectrometry

Douthwaite, S. & Kirpekar, F., 2007, In: Methods in Enzymology. 425, p. 1-20 19 p.

Research output: Contribution to journal › Journal article › Research › peer-review

2006

2005

The archaeon Haloarcula marismortui has few modifications in the central parts of its 23S ribosomal RNA

Kirpekar, F., Hansen, L. H., Rasmussen, A., Pøhlsgaard, J. & Vester, B., 2005, In: Journal of Molecular Biology. 348, p. 563-573

Research output: Contribution to journal › Journal article › Research › peer-review

Typing of multiple SNPs using ribonuclease cleavage of DNA/RNA chimeric single base extension primers and detection by MALDI-TOF mass spectrometry

Mengel-From, J., Sanchez, J. J., Børsting, C., Kirpekar, F. & Morling, N., 2005, In: Analytical Chemistry. 77, p. 5229-5235

Research output: Contribution to journal › Journal article › Research › peer-review

2004

A novel partial modification at C2501 in Escherichia coli 23S ribosomal RNA

Andersen, T. E., Porse, B. T. & Kirpekar, F., 1. Jun 2004, In: RNA: A publication of the RNA Society. 10, 6, p. 907-13 6 p.

Research output: Contribution to journal › Journal article › Research › peer-review

MALDI-TOF mass spectrometric detection of multiplex single base extended primers - a study of 17 Ychromosome SNPs.

Mengel-From, J., Sanchez, J. J., Børsting, C., Kirpekar, F. & Morling, N., 2004, In: Analytical Chemistry. 76, p. 6039-6045

Research output: Contribution to journal › Journal article › Research › peer-review

Finn Kirpekar

Research output

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