Jeppe Vinther

Research output

Research output per year 2003 2003 2007 2008 2015 2019

• 30 Journal article
• 2 Book chapter

Research output per year

Research output per year

Search results

• 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.

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

  • 8-methylguanosine 100%
  • Arabidopsis 44%
  • Transfer RNA 37%
  • RNA 35%
  • sodium borohydride 28%
  4 Downloads (Pure)

• Excess primer degradation by Exo I improves the preparation of 3' cDNA ligation-based sequencing libraries

  Enroth, C. H., Fehler, A. O., Poulsen, L. D. & Vinther, J., 2019, In: BioTechniques. 67, 3, p. 110-116

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

  • Complementary DNA 100%
  • Ligation 84%
  • RNA Sequencing 53%
  • Digestion 35%
  • Byproduct 31%
  12 Downloads (Pure)
• 2018

  RNA-Seq for Bacterial Gene Expression

  Poulsen, L. D. & Vinther, J., 2018, In: Current Protocols in Nucleic Acid Chemistry. 73, 1, p. 1-12 e55.

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

  • RNA Sequencing 100%
  • Bacterial Genes 81%
  • RNA-Seq 70%
  • RNA Sequence Analysis 67%
  • Gene Expression 36%
  5 Citations (Scopus)
• 2017

  RNase H sequence preferences influence antisense oligonucleotide efficiency

  Kiełpiński, Ł. J., Hagedorn, P. H., Lindow, M. & Vinther, J., 15 Dec 2017, In: Nucleic Acids Research. 45, 22, p. 12932-12944 13 p.

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

  • Ribonuclease H 100%
  • Antisense Oligonucleotides 80%
  • HIV-1 25%
  • RNA 20%
  • RNA Cleavage 14%
  20 Citations (Scopus)

  44 Downloads (Pure)
• 2016

  Effect of chronic uremia on the transcriptional profile of the calcified aorta analyzed by RNA sequencing

  Rukov, J. L., Gravesen, E., Mace, M. L., Hofman-Bang, J., Vinther, J., Andersen, C. B., Lewin, E. & Ølgaard, K., 15 Mar 2016, In: American Journal of Physiology: Renal Physiology. 310, 6, p. F477-F491 18 p.

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

  • Uremia 100%
  • RNA Sequence Analysis 94%
  • Aorta 73%
  • Vascular Calcification 47%
  • Genes 33%
  27 Citations (Scopus)
• 2015

  Dissecting the target specificity of RNase H recruiting oligonucleotides using massively parallel reporter analysis of short RNA motifs

  Rukov, J. L., Hagedorn, P. H., Høy, I. B., Feng, Y., Lindow, M. & Vinther, J., 30 Sept 2015, In: Nucleic Acids Research. 43, 17, p. 8476-8487 12 p.

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

  • Ribonuclease H 100%
  • Nucleotide Motifs 90%
  • Oligonucleotides 72%
  • Libraries 40%
  • Post Transcriptional RNA Processing 40%
  5 Citations (Scopus)

  72 Downloads (Pure)

• Reproducible analysis of sequencing-based RNA structure probing data with user-friendly tools

  Kielpinski, L. J., Sidiropoulos, N. & Vinther, J., 2015, Structures of large RNA molecules and their complexes. Woodson, S. A. & Allain, F. H. T. (eds.). Elsevier, p. 153-180 28 p. (Methods in Enzymology, Vol. 558).

  Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

  • RNA Sequence Analysis 100%
  • RNA 61%
  • Data Analysis 49%
  • Galaxies 36%
  • Data Visualization 32%
  7 Citations (Scopus)

• SHAPE selection (SHAPES) enrich for RNA structure signal in SHAPE sequencing-based probing data

  Poulsen, L. D., Kielpinski, L. J., Salama, S. R., Krogh, A. & Vinther, J., 1 May 2015, In: R N A. 21, 5, p. 1042-1052 11 p.

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

  • Acylation 100%
  • Hydroxyl Radical 80%
  • RNA 50%
  • isatoic anhydride 23%
  • RNA Probes 14%
  24 Citations (Scopus)

  134 Downloads (Pure)
• 2014

  Massive parallel-sequencing-based hydroxyl radical probing of RNA accessibility

  Kielpinski, L. J. & Vinther, J., Apr 2014, In: Nucleic Acids Research. 42, 8, 12 p., e70.

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

  • Hydroxyl Radical 100%
  • RNA 63%
  • Ribose 30%
  • Protein Footprinting 20%
  • X Ray Crystallography 15%
  31 Citations (Scopus)

  980 Downloads (Pure)

• Pharmaco-miR: linking microRNAs and drug effects

  Rukov, J. L., Wilentzik, R., Jaffe, I., Vinther, J. & Shomron, N., Jul 2014, In: Briefings in Bioinformatics. 15, 4, p. 648-659 12 p.

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

  • Pharmacogenetics 100%
  • Genes 66%
  • MicroRNAs 58%
  • Drug interactions 36%
  • Pharmaceutical Preparations 28%
  85 Citations (Scopus)

  45 Downloads (Pure)
• 2013

  Body fluid identification of blood, saliva and semen using second generation sequencing of micro-RNA

  Petersen, C. H., Hjort, B. B., Tvedebrink, T., Kielpinski, L. J., Vinther, J. & Morling, N., 2013, In: Forensic Science International: Genetics Supplement Series. 4, 1, p. e204-5 2 p.

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

  • Body Fluids 100%
  • Semen 99%
  • Saliva 89%
  • MicroRNAs 77%
  • Forensic Genetics 36%
  3 Citations (Scopus)

  3308 Downloads (Pure)

• Detection of reverse transcriptase termination sites using cDNA ligation and massive parallel sequencing

  Kielpinski, L. J., Boyd, M., Sandelin, A. & Vinther, J., 2013, In: Methods in molecular biology (Clifton, N.J.). 1038, p. 213-31 19 p.

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

  • RNA-Directed DNA Polymerase 100%
  • Ligation 75%
  • Complementary DNA 69%
  • RNA 59%
  • RNA Phages 44%
  11 Citations (Scopus)
• 2012

  MicroRNAs and Their Antagonists as Novel Therapeutics

  Vinther, J., Rukov, J. & Shomron, N., 1 Jan 2012, From Nucleic Acids Sequences to Molecular Medicine. Erdmann, V. A. & Barciszewski, J. (eds.). Springer Publishing Company, p. 503-523 21 p. (RNA Technologies).

  Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

  • MicroRNAs 100%
  • Therapeutics 19%
  • Health 11%
  • Clinical Trials 7%
  • Pharmaceutical Preparations 4%
  3 Citations (Scopus)
• 2011

  Pharmacogenomics genes show varying perceptibility to microRNA regulation

  Rukov, J. L., Vinther, J. & Shomron, N., May 2011, In: Pharmacogenetics and Genomics. 21, 5, p. 251-62 12 p.

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

  • Pharmacogenetics 100%
  • MicroRNAs 74%
  • Genes 35%
  • Pharmacokinetics 17%
  • Pharmaceutical Preparations 6%
  22 Citations (Scopus)
• 2010

  The early noncoding region of human papillomavirus type 16 is regulated by cytoplasmic polyadenylation factors

  Glahder, J-A. H., Kristiansen, K., Durand, M., Vinther, J. & Norrild, B., May 2010, In: Virus Research. 149, 2, p. 217-223 6 p.

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

  • mRNA Cleavage and Polyadenylation Factors 100%
  • Polyadenylation 73%
  • Human papillomavirus 16 68%
  • Poly A 51%
  • 3' Untranslated Regions 40%
  4 Citations (Scopus)
• 2009

  Quantitative regulation of alternative splicing in evolution and development

  Irimia, M., Rukov, J. L., Roy, S. W., Vinther, J. & Garcia-Fernandez, J., 2009, In: BioEssays. 31, 1, p. 40-50 10 p.

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

  • Developmental 100%
  • Alternative Splicing 89%
  • Gene Regulatory Networks 8%
  • Proteome 8%
  • Transcriptome 7%
  32 Citations (Scopus)
• 2008

  Conserved CPEs in the p53 3' untranslated region influence mRNA stability and protein synthesis

  Rosenstierne, M. W., Vinther, J., Mittler, G., Larsen, L., Mann, M. & Norrild, B., 2008, In: Anticancer Research. 28, 5A, p. 2553-9 6 p.

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

  • RNA Stability 100%
  • 3' Untranslated Regions 94%
  • Heterogeneous-Nuclear Ribonucleoprotein D 71%
  • Messenger RNA 51%
  • Proteins 33%
  12 Citations (Scopus)

• Identification of let-7-regulated oncofetal genes.

  Boyerinas, B., Park, S-M., Shomron, N., Hedegaard, M. M., Vinther, J., Andersen, J. S., Feig, C., Xu, J., Burge, C. B. & Peter, M. E., 2008, In: Cancer Research. 68, 8, p. 2587-91 4 p.

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

  172 Citations (Scopus)

• Mutation of miRNA target sequences during human evolution.

  Gardner, P. P. & Vinther, J., 2008, In: Trends in Genetics. 24, 6, p. 262-5 3 p.

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

  • MicroRNAs 100%
  • Mutation 66%
  • Regulator Genes 61%
  • Genes 23%
  21 Citations (Scopus)

• Origin of introns by 'intronization' of exonic sequences.

  Irimia, M., Rukov, J. L., Penny, D., Vinther, J., Garcia-Fernandez, J. & Roy, S. W., 2008, In: Trends in Genetics.

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

  • Introns 100%
  • Caenorhabditis 34%
  • Alternative Splicing 22%
  59 Citations (Scopus)
• 2007

  High qualitative and quantitative conservation of alternative splicing in Caenorhabditis elegans and Caenorhabditis briggsae.

  Rukov, J. L., Irimia, M., Mørk, S., Lund, V. K., Vinther, J. & Arctander, P., 1 Feb 2007, In: Molecular Biology and Evolution. 24, 4, p. 909–917 9 p.

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

• High qualitative and quantitative conservation of alternative splicing in Caenorhabditis elegans and Caenorhabditis briggsae.

  Rukov, J. L., Irimia, M., Mørk, S., Lund, V. K., Vinther, J. & Arctander, P., 2007, In: Molecular Biology and Evolution. 24, 4, p. 909-17 8 p.

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

  26 Citations (Scopus)

• Use of tiling array data and RNA secondary structure predictions to identify noncoding RNA genes.

  Weile, C., Gardner, P. P., Hedegaard, M. M. & Vinther, J., 2007, In: BMC Genomics. 8, p. 244

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

  10 Citations (Scopus)

• Widespread evolutionary conservation of alternatively spliced exons in caenorhabditis.

  Irimia, M., Rukov, J. L., Penny, D., Garcia-Fernandez, J., Vinther, J. & Roy, S. W., 2007, In: Molecular Biology and Evolution. 25, 2, p. 375-82 7 p.

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

  38 Citations (Scopus)
• 2006

  Identification of miRNA targets with stable isotope labeling by amino acids in cell culture.

  Vinther, J., Hedegaard, M. M., Gardner, P. P., Andersen, J. S. & Arctander, P., 2006, In: Nucleic Acids Research. 34, 16, p. e107

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

  • Isotope Labeling 100%
  • MicroRNAs 57%
  • Cell Culture Techniques 52%
  • Amino Acids 47%
  • Small Untranslated RNA 11%
  102 Citations (Scopus)
• 2005

  The 3' region of human papillomavirus type 16 early mRNAs decrease expression

  Vinther, J., Rosenstierne, M. W., Kristiansen, K. & Norrild, B., 2005, In: BMC Infectious Diseases. 5, p. 83

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

  • Human papillomavirus 16 100%
  • Messenger RNA 48%
  • Uterine Cervical Neoplasms 26%
  • Genome 19%
  • Nucleotides 15%
  10 Citations (Scopus)

• The 3' region of human papillomavirus type 16 early nRNAs decrease expression

  Vinther, J., Rosenstierne, M., Kristiansen, K. & Norrild, B., 2005, In: BMC Infect. Dis.. 5, p. 83

  Research output: Contribution to journal › Journal article › Research › peer-review
• 2003

  A promoter within the E6 ORF of human papillomavirus type 16 contributes to the expression of the E7 oncoprotein from a monocistronic mRNA

  Glahder, J-A. H., Hansen, C. N., Vinther, J., Madsen, B. S. & Norrild, B., 2003, In: Journal of General Virology. 84, Pt 12, p. 3429-41 12 p.

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

  • Human papillomavirus 16 100%
  • Oncogene Proteins 95%
  • Open Reading Frames 81%
  • Messenger RNA 48%
  • Transcription Initiation Site 32%
  21 Citations (Scopus)

• A putative promotor within the E6 ORF of human papillomavirus type 16 controls the expression of the E7 oncoprotein from a monocistronic mRNA

  Glahder, J., Hansen, C. N., Vinther, J., Madsen, B. S. & Norrild, B., 2003, In: Journal of General Virology. 84, p. 3429-3441

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

• Clearance of cervical human papillomavirus infections

  Vinther, J. & Norrild, B., 2003, In: International Journal of Cancer. 104, p. 255-256

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

  6 Citations (Scopus)

• Identification and characterisation of a cluster of transcription start sites in the E6 ORF of the Human Papillomavirus type 16

  Rosenstierne, M., Vinther, J., Hansen, C., Fenger-Grøn, M. & Norrild, B., 2003, In: J.Gen.Virol.. 84, p. 2909-2920

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

• Identification and characterization of a cluster of transcription start sites located in the E6 ORF of human papillomavirus type 16

  Rosenstierne, M. W., Vinther, J., Hansen, C. N., Prydsoe, M. & Norrild, B., 2003, In: Journal of General Virology. 84, Pt 11, p. 2909-20 11 p.

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

  • Human papillomavirus 16 100%
  • Transcription Initiation Site 98%
  • Open Reading Frames 81%
  • Oncogenes 32%
  • Reading Frames 22%
  11 Citations (Scopus)