VintherLab publications
Vinther J. Comment on “DpCoA tagSeq: Barcoding dpCoA-Capped RNA for Direct Nanopore Sequencing via Maleimide-Thiol Reaction”. Analytical chemistry 96, 606-609 (2024).
Sherwood AV, Rivera-Rangel LR, Ryberg LA, Larsen HS, Anker KM, Costa R, Vågbø CB, Jakljevič E, Pham LV, Fernandez-Antunez C, Indrisiunaite G, Podolska-Charlery A, Grothen JEN, Langvad NW, Fossat N, Offersgaard A, Al-Chaer A, Nielsen
L, Kusnierczyk A, Sølund C, Weis N, Gottwein JM, Holmbeck K, Ramirez S, Bottaro S, Bukh J, Scheel TKH & Vinther J. Hepatitis C virus RNA is 5’ capped with flavin adenine dinucleotide. Nature 619(7971), 811-818 (2023). https://pubmed.ncbi.nlm.nih.gov/37407817,
Read online: https://rdcu.be/df8p5
Geissler AS, Fehler AO, Poulsen LD, González-Tortuero E, Kallehauge TB, Alkan F, Anthon C, Seemann SE, Rasmussen MD, Breüner A, Hjort C, Vinther J, Gorodkin J. CRISPRi screen for enhancing heterologous α-amylase yield in Bacillus subtilis.
J Ind Microbiol Biotechnol 50, 1 (2023) https://pubmed.ncbi.nlm.nih.gov/36564025
Fehler, AO, Kallehauge, TB, Geissler, AS, Gonzalez-Tortuero, E, Seemann, SE, Gorodkin, J & Vinther, J. Flagella disruption in Bacillus subtilis increases amylase production yield. Microb Cell Fact 21, 131 (2022). https://www.ncbi.nlm.nih.gov/pubmed/35780132
Geissler AS, Poulsen LD, Doncheva NT, Anthon C, Seemann SE, González-Tortuero E, Breüner A, Jensen LJ, Hjort C, Vinther J & Gorodkin J. Front Microbiol 13:909493 (2022) https://pubmed.ncbi.nlm.nih.gov/35992681
Geissler AS, Anthon C, Alkan F, Gonzalez-Tortuero E, Poulsen LD, Kallehauge TB, Breuner A, Seemann SE, Vinther J & Gorodkin J. BSGatlas: a unified Bacillus subtilis genome and transcriptome annotation atlas with enhanced information
access, Microb Genom 7, (2021). https://www.ncbi.nlm.nih.gov/pubmed/33539279
Gawronski P, Enroth C, Kindgren P, Marquardt S, Karpinski S, Leister D, Jensen PE, Vinther J, Scharff LB. Light-Dependent Translation Change of Arabidopsis psbA Correlates with RNA Structure Alterations at the Translation Initiation
Region, Cells 10, (2021). https://www.ncbi.nlm.nih.gov/pubmed/33557293
Vinther J. No Evidence for N7-Methylation of Guanosine (m(7)G) in Human let-7e, Mol Cell 79, 199-200 (2020). https://www.ncbi.nlm.nih.gov/pubmed/32679072
Enroth CH, Fehler AO, Poulsen LD, Vinther J. Excess primer degradation by Exo I improves the preparation of 3′ cDNA ligation-based sequencing libraries, Biotechniques 67, 110-116 (2019). https://www.ncbi.nlm.nih.gov/pubmed/31208218
Enroth C, Poulsen LD, Iversen S, Kirpekar F, Albrechtsen A, Vinther J. Detection of internal N7-methylguanosine (m7G) RNA modifications by mutational profiling sequencing, Nucleic Acids Res, (2019). https://www.ncbi.nlm.nih.gov/pubmed/31504776
Kielpinski LJ, Hagedorn PH, Lindow M, Vinther J. RNase H sequence preferences influence antisense oligonucleotide efficiency, Nucleic Acids Res 45, 12932-12944 (2017). https://www.ncbi.nlm.nih.gov/pubmed/29126318
Rukov JL, Gravesen E, Mace ML, Hofman-Bang J, Vinther J, Andersen CB, Lewin E, Olgaard K. Effect of chronic uremia on the transcriptional profile of the calcified aorta analyzed by RNA sequencing, Am J Physiol Renal Physiol 310, F477-491
(2016). https://www.ncbi.nlm.nih.gov/pubmed/26739890
Kielpinski LJ, Hagedorn PH, Lindow M, Vinther J. RNase H sequence preferences influence antisense oligonucleotide efficiency, Nucleic Acids Res 45, 12932-12944 (2017). https://www.ncbi.nlm.nih.gov/pubmed/29126318
Rukov JL, Hagedorn PH, Hoy IB, Feng Y, Lindow M, Vinther J. Dissecting the target specificity of RNase H recruiting oligonucleotides using massively parallel reporter analysis of short RNA motifs, Nucleic Acids Res 43, 8476-8487 (2015).
https://www.ncbi.nlm.nih.gov/pubmed/26220183
Poulsen LD, Kielpinski LJ, Salama SR, Krogh A, Vinther J. SHAPE Selection (SHAPES) enrich for RNA structure signal in SHAPE sequencing-based probing data, RNA 21, 1042-1052 (2015). https://www.ncbi.nlm.nih.gov/pubmed/25805860
Kielpinski LJ, Vinther J. Massive parallel-sequencing-based hydroxyl radical probing of RNA accessibility, Nucleic Acids Res 42, e70 (2014). https://www.ncbi.nlm.nih.gov/pubmed/24569351
Rukov JL, Vinther J, Shomron N. Pharmacogenomics genes show varying perceptibility to microRNA regulation, Pharmacogenet Genomics 21, 251-262 (2011). https://www.ncbi.nlm.nih.gov/pubmed/21499217
Rosenstierne MW, Vinther J, Mittler G, Larsen L, Mann M, Norrild B. Conserved CPEs in the p53 3′ untranslated region influence mRNA stability and protein synthesis, Anticancer Res 28, 2553-2559 (2008). https://www.ncbi.nlm.nih.gov/pubmed/19035278
Glahder JA, Kristiansen K, Durand M, Vinther J, Norrild B. The early noncoding region of human papillomavirus type 16 is regulated by cytoplasmic polyadenylation factors, Virus Res 149, 217-223 (2010). https://www.ncbi.nlm.nih.gov/pubmed/20144904
Irimia M, Rukov JL, Penny D, Vinther J, Garcia-Fernandez J, Roy SW. Origin of introns by ‘intronization’ of exonic sequences, Trends Genet 24, 378-381 (2008). https://www.ncbi.nlm.nih.gov/pubmed/18597887
Gardner PP, Vinther J. Mutation of miRNA target sequences during human evolution, Trends Genet 24, 262-265 (2008). https://www.ncbi.nlm.nih.gov/pubmed/18472179
Boyerinas B, Park SM, Shomron N, Hedegaard MM, Vinther J, Andersen JS, Feig C, Xu J, Burge CB, Peter ME. Identification of let-7-regulated oncofetal genes, Cancer Res 68, 2587-2591 (2008). https://www.ncbi.nlm.nih.gov/pubmed/18413726
Weile C, Gardner PP, Hedegaard MM, Vinther J. Use of tiling array data and RNA secondary structure predictions to identify noncoding RNA genes, BMC Genomics 8, 244 (2007). https://www.ncbi.nlm.nih.gov/pubmed/17645787
Rukov JL, Irimia M, Mork S, Lund VK, Vinther J, Arctander P. High qualitative and quantitative conservation of alternative splicing in Caenorhabditis elegans and Caenorhabditis briggsae, Mol Biol Evol 24, 909-917 (2007). https://www.ncbi.nlm.nih.gov/pubmed/17272679
Vinther J, Hedegaard MM, Gardner PP, Andersen JS, Arctander P. Identification of miRNA targets with stable isotope labeling by amino acids in cell culture, Nucleic Acids Res 34, e107 (2006). https://www.ncbi.nlm.nih.gov/pubmed/16945957
Vinther J, Rosenstierne MW, Kristiansen K, Norrild B. The 3′ region of human papillomavirus type 16 early mRNAs decrease expression, BMC Infect Dis 5, 83 (2005). https://www.ncbi.nlm.nih.gov/pubmed/16225671
Rosenstierne MW, Vinther J, Hansen CN, Prydsoe M, Norrild B. Identification and characterization of a cluster of transcription start sites located in the E6 ORF of human papillomavirus type 16, J Gen Virol 84, 2909-2920 (2003). https://www.ncbi.nlm.nih.gov/pubmed/14573795
Glahder JA, Hansen CN, Vinther J, Madsen BS, Norrild B. A promoter within the E6 ORF of human papillomavirus type 16 contributes to the expression of the E7 oncoprotein from a monocistronic mRNA, J Gen Virol 84, 3429-3441 (2003). https://www.ncbi.nlm.nih.gov/pubmed/14645924
Vinther J, Norrild B. Clearance of cervical human papillomavirus infections, Int J Cancer 104, 255-256 (2003). https://www.ncbi.nlm.nih.gov/pubmed/12569584